BLAST2 result
BLASTP 2.1.2 [Oct-19-2000]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= BAB33196.1 1332 aa
(1332 letters)
Database: nr
640,428 sequences; 201,912,487 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gi|11465944 RNA polymerase beta'' subunit [Nicotiana tabacum] >g... 2031 0.0
sp|P38550|RPOD_TOBAC DNA-DIRECTED RNA POLYMERASE BETA" CHAIN 2031 0.0
gi|11497514 RNA polymerase beta'' subunit [Spinacia oleracea] >g... 1985 0.0
gi|7525023 RNA polymerase beta' subunit-2 [Arabidopsis thaliana]... 1942 0.0
emb|CAB67153.1| (AJ271079) RNA polymerase beta'' subunit [Oenoth... 1905 0.0
sp|Q9THV5|RPOD_SINAL DNA-DIRECTED RNA POLYMERASE BETA" CHAIN >gi... 1901 0.0
sp|P12227|RPOD_PEA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN >gi|8... 1754 0.0
gi|11466681 rpoC2 [Marchantia polymorpha] >gi|133444|sp|P06274|R... 1269 0.0
prf||1211235K rpoC-like ORF 862 [Nicotiana tabacum] 1129 0.0
pir||A05028 rpoC protein homolog - common tobacco chloroplast 1129 0.0
dbj|BAA78042.1| (AB027572) RNA polymerase subunit beta [Triticum... 910 0.0
gi|11467184 RNA polymerase beta' subunit-2 [Zea mays] >gi|133443... 903 0.0
prf||1603356R RNA polymerase beta'-2 [Oryza sativa] 883 0.0
gi|11466779 RNA polymerase beta' subunit-2 [Oryza sativa] >gi|13... 883 0.0
gi|7524613 RNA polymerase beta'' subunit [Pinus thunbergii] >gi|... 761 0.0
gi|11465575 unknown; DNA-directed RNA polymerase beta [Cyanidium... 513 e-144
dbj|BAA83433.1| (AB013657) DNA-directed RNA polymerase (EC 2.7.7... 480 e-134
dbj|BAA83450.1| (AB013674) DNA-directed RNA polymerase (EC 2.7.7... 478 e-133
gi|11466380 beta'' subunit of RNA polymerase [Mesostigma viride]... 470 e-131
dbj|BAA83455.1| (AB013679) DNA-directed RNA polymerase (EC 2.7.7... 450 e-125
dbj|BAA83445.1| (AB013669) DNA-directed RNA polymerase (EC 2.7.7... 442 e-122
dbj|BAA83439.1| (AB013663) DNA-directed RNA polymerase (EC 2.7.7... 430 e-119
gi|11467688 RNA polymerase b''-chain [Guillardia theta] >gi|6094... 413 e-113
gi|11465716 DNA-directed RNA polymerase beta [Porphyra purpurea]... 411 e-113
gi|11467371 beta prime subunit of RNA polymerase [Cyanophora par... 394 e-108
sp|P73334|RPOD_SYNY3 DNA-DIRECTED RNA POLYMERASE DELTA CHAIN >gi... 387 e-106
dbj|BAA83459.1| (AB013683) DNA-directed RNA polymerase beta'-2 c... 379 e-104
prf||1211235P rpoC-like ORF 236 [Nicotiana tabacum] 361 2e-98
pir||A05030 rpoC protein homolog - common tobacco chloroplast 361 2e-98
pir||S26874 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 cha... 360 7e-98
sp|P14564|RPOD_NOSCO DNA-DIRECTED RNA POLYMERASE DELTA CHAIN >gi... 340 6e-92
pir||B32838 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 340 6e-92
gi|11467790 beta'' subunit of RNA polymerase [Nephroselmis oliva... 334 4e-90
gi|11467042 RNA polymerase subunit [Euglena gracilis] >gi|133442... 321 3e-86
gi|7524893 RNA polymerase beta prime subunit [Chlorella vulgaris... 317 4e-85
gi|11467568 RNA polymerase beta''-chain [Odontella sinensis] >gi... 310 5e-83
gi|12545456 RNA polymerase subunit [Astasia longa] >gi|12329920|... 295 3e-78
emb|CAA36511.1| (X52270) RNA polymerase beta'' subunit, partial ... 272 3e-71
pir||F75461 DNA-directed RNA polymerase, beta' subunit - Deinoco... 266 1e-69
sp|O67763|RPOC_AQUAE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 266 2e-69
sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 260 7e-68
sp|Q9X6Y2|RPOC_AQUPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 259 2e-67
sp|Q9Z9M1|RPOC_BACHD DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 259 2e-67
emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' cha... 258 3e-67
pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subti... 258 3e-67
dbj|BAA10999.1| (D64127) RNA polymerase beta' subunit [Bacillus ... 258 3e-67
emb|CAB65466.3| (Y19223) RNA polymerase, beta-prime subunit [The... 254 5e-66
sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 253 9e-66
sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 253 9e-66
pir||T09641 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 253 9e-66
emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus a... 253 9e-66
sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 252 3e-65
pir||T09645 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 252 3e-65
pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core ... 250 1e-64
sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 249 1e-64
pir||T10432 DNA-directed RNA polymerase (EC 2.7.7.6) - Pediococc... 249 1e-64
sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 249 2e-64
pir||T10908 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 249 2e-64
sp|Q9Z999|RPOC_CHLPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 246 1e-63
pir||E81548 DNA-directed RNA polymerase, beta' chain CP0693 [imp... 246 1e-63
sp|Q9PI30|RPOC_CAMJE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 246 1e-63
pir||E72122 RNA polymerase beta' - Chlamydophila pneumoniae (str... 246 1e-63
sp|O83270|RPOC_TREPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 246 1e-63
sp|P95405|RPOC_OENOE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 245 3e-63
sp|P96177|RPOC_WEIHE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 243 8e-63
pir||G82336 DNA-directed RNA polymerase, beta' chain VC0329 [imp... 242 2e-62
pir||G83112 DNA-directed RNA polymerase beta* chain PA4269 [impo... 240 1e-61
pir||D82533 RNA polymerase beta' subunit XF2632 [imported] - Xyl... 240 1e-61
sp|P96178|RPOC_WEIPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 239 2e-61
sp|P43739|RPOC_HAEIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 239 2e-61
gb|AAK03820.1| (AE006210) RpoC [Pasteurella multocida] 238 3e-61
sp|O51349|RPOC_BORBU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 238 3e-61
dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanel... 236 1e-60
pir||C82007 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 236 2e-60
pir||F81233 DNA-directed RNA polymerase, beta' chain NMB0133 [im... 236 2e-60
sp|O84316|RPOC_CHLTR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 236 2e-60
emb|CAC10564.1| (Y16470) DNA-dependent RNA polymerase subunit be... 235 2e-60
sp|O33431|RPOC_PORCN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 235 2e-60
pir||F81686 DNA-directed RNA polymerase, beta' chain TC0588 [imp... 235 3e-60
sp|P47769|RPOC_MYCTU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 235 3e-60
emb|CAC30844.1| (AL583923) [beta]' subunit of RNA polymerase [My... 234 5e-60
gb|AAK05897.1|AE006409_7 (AE006409) DNA-directed RNA polymerase ... 234 5e-60
sp|P30761|RPOC_MYCLE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 234 5e-60
sp|P57145|RPOC_BUCAI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 234 6e-60
pir||F64669 DNA-directed RNA polymerase, beta subunit - Helicoba... 233 8e-60
pir||B71846 dna-directed RNA polymerase, beta chain - Helicobact... 233 1e-59
gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subun... 231 3e-59
prf||0808241A polymerase beta',RNA [Escherichia coli] 231 3e-59
prf||0805230A rpoC gene EcoRID fragment [Escherichia coli] 231 3e-59
gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli] 231 3e-59
sp|P00577|RPOC_ECOLI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 231 3e-59
prf||1605164A RNA polymerase beta' [Pseudomonas putida] 229 1e-58
sp|P19176|RPOC_PSEPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 229 1e-58
sp|P77839|RPOC_BROTH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 229 2e-58
emb|CAA61515.1| (X89231) DNA-directed RNA polymerase [Brochothri... 229 2e-58
gb|AAF33515.1| (AF170176) 99% identity over 1407 amino acids wit... 229 2e-58
sp|P95816|RPOC_STRPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 227 8e-58
sp|P94899|RPOC_LEUPS DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 226 1e-57
prf||1211235L ORF 134 [Nicotiana tabacum] 224 4e-57
sp|Q9ZE20|RPOC_RICPR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 223 9e-57
pir||A05184 hypothetical protein 134 - common tobacco chloroplast 223 9e-57
sp|P94892|RPOC_LEUME DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 222 2e-56
prf||1008145A polymerase beta',RNA [Escherichia coli] 222 2e-56
sp|Q01923|RPOD_SORBI DNA-DIRECTED RNA POLYMERASE BETA" CHAIN >gi... 211 5e-53
pir||S30926 DNA-directed RNA polymerase (EC 2.7.7.6) beta''-2 ch... 210 9e-53
gi|11466501 RNA polymerase subunit beta' [Reclinomonas americana... 206 2e-51
sp|P75271|RPOC_MYCPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 203 1e-50
gi|12045199 DNA-directed RNA polymerase, subunit beta' (rpoC) [M... 198 5e-49
pir||D82923 DNA-directed RNA polymerase beta' chain UU188 [impor... 191 4e-47
gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus s... 186 2e-45
prf||1413285A rpoC gene [Spinacia oleracea] 171 5e-41
gb|AAC45308.1| (U81957) RNA polymerase beta' subunit [Streptococ... 168 4e-40
gb|AAA84228.1| (M22010) RNA polymerase subunit [Euglena gracilis] 165 3e-39
sp|P36252|RPOC_THEMA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 159 2e-37
emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconost... 159 2e-37
prf||1211235N ORF 90 [Nicotiana tabacum] 153 9e-36
pir||A05186 hypothetical protein 90 - common tobacco chloroplast 152 2e-35
gb|AAA24408.1| (M38288) RNA polymerase beta subunit (rpoC) (EC 2... 120 9e-26
pir||A00696 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 120 9e-26
pir||S72284 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 cha... 119 2e-25
sp|P13440|ARGE_LEPBI POSSIBLE ACETYLORNITHINE DEACETYLASE (ACETY... 118 3e-25
emb|CAB81846.1| (AL161691) DNA-directed RNA polymerase beta' cha... 115 3e-24
pir||JE0011 DNA-directed RNA polymerase beta' chain-like protein... 115 4e-24
gb|AAB35479.1| RNA polymerase beta' subunit {Ser 793 to Phe repl... 111 6e-23
gb|AAD00824.1| (U96106) RPOC homolog [Helicobacter pylori] 99 3e-19
gb|AAA84489.1| (M31208) rpoC2 protein [Zea mays] 93 2e-17
pir||T08025 DNA-directed RNA polymerase beta' chain homolog - Ch... 82 5e-14
dbj|BAA88026.1| (AB029691) RNA polymerase, beta-subunit [Abies m... 81 1e-13
dbj|BAA88018.1| (AB029683) RNA polymerase, bata-subunit [Abies f... 81 1e-13
pir||T06754 DNA-directed RNA polymerase I 190K chain homolog F15... 78 7e-13
gb|AAF08591.1|U35380_1 (U35380) similar to P. putida RNA-polymer... 76 3e-12
pir||D72571 probable DNA-directed RNA polymerase subunit A' APE1... 73 3e-11
sp|P11512|RPA1_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 67 2e-09
sp|P35018|RPOD_CYACA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN >gi... 66 3e-09
pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [va... 65 7e-09
gb|AAA30233.1| (M27163) RNA polymerase III [Trypanosoma brucei] 64 1e-08
sp|P08968|RPC1_TRYBB DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 64 1e-08
sp|Q58445|RPA1_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 62 6e-08
pir||A64430 DNA-directed RNA polymerase (EC 2.7.7.6) subunit A' ... 62 6e-08
sp|P15349|RPA1_HALMO DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 62 6e-08
emb|CAA40431.1| (X57145) A subunit [Halococcus morrhuae] 62 6e-08
emb|CAC27032.1| (AJ010592) DNA-directed RNA polymerase I chain-l... 61 1e-07
emb|CAC09925.1| (AJ249558) RNA polymerase beta subunit [Bacillus... 61 1e-07
pir||H71031 probable DNA-directed RNA polymerase subunit A' - Py... 60 2e-07
sp|P31813|RPA1_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 59 3e-07
pir||B75182 DNA-directed RNA polymerase, chain A' (rpoa1) PAB042... 59 4e-07
gb|AAF48509.1| (AE003500) CG17209 gene product [Drosophila melan... 58 8e-07
pir||S22812 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 57 1e-06
sp|P25202|RPC1_GIALA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 57 1e-06
pir||T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 57 1e-06
gi|11499472 DNA-directed RNA polymerase, subunit A' (rpoA1) [Arc... 57 1e-06
pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - H... 57 2e-06
gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A;... 56 2e-06
gi|11499473 DNA-directed RNA polymerase, subunit A'' (rpoA2) [Ar... 56 2e-06
sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 56 2e-06
gb|AAK00311.1|AF315821_1 (AF315821) DNA-dependent RNA polymerase... 56 3e-06
gb|AAC17170.1| (AF064760) DNA-directed RNA polymerase beta' subu... 55 4e-06
sp|O27125|RPA1_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 55 4e-06
sp|P14247|RPA2_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A" >gi|... 55 6e-06
sp|Q03585|RPA1_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 55 6e-06
sp|P41556|RPA1_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 55 7e-06
gb|AAK00313.1|AF315823_1 (AF315823) DNA-dependent RNA polymerase... 54 1e-05
gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Cras... 54 1e-05
pir||C33926 DNA-directed RNA polymerase (EC 2.7.7.6) C - Sulfolo... 54 1e-05
sp|P09847|RPA2_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUB... 54 1e-05
sp|P11514|RPA2_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUB... 54 1e-05
gb|AAK00310.1|AF315820_1 (AF315820) DNA-dependent RNA polymerase... 54 1e-05
pir||A69138 DNA-dependent RNA polymerase, subunit A' - Methanoba... 54 1e-05
gb|AAA50227.1| (U10336) RNA polymerase II, largest subunit [Helo... 54 1e-05
pir||T28156 DNA-directed RNA polymerase homolog - malaria parasi... 54 1e-05
sp|O27126|RPA2_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A" >gi|... 53 2e-05
emb|CAC11536.1| (AL445064) probable DNA-directed RNA polymerase,... 53 3e-05
pir||C72571 probable DNA-directed RNA polymerase subunit A APE18... 53 3e-05
gi|6324917 RNA polymerase I subunit 190 (alpha); Rpa190p [Saccha... 53 3e-05
gb|AAA34890.1| (J03530) RNA polymerase A(I) large subunit [Sacch... 53 3e-05
sp|Q03586|RPA2_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A" >gi|... 53 3e-05
emb|CAC27103.1| (AJ010592) DNA-directed RNA polymerase II larges... 52 4e-05
pir||T43217 RNA polymerase (EC 2.7.7.-) II, largest chain - Porp... 52 4e-05
dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cric... 52 4e-05
gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus m... 52 4e-05
pir||T29959 DNA-directed RNA polymerase II large subunit ama-1 -... 52 4e-05
pir||I38186 RNA polymerase II largest subunit - human >gi|825713... 52 4e-05
sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 52 4e-05
sp|P16356|RPB1_CAEEL DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 52 4e-05
gi|6677795 RNA polymerase II 1 [Mus musculus] >gi|90464|pir||A28... 52 4e-05
sp|P15398|RPA1_SCHPO DNA-DIRECTED RNA POLYMERASE I 190 KDA POLYP... 52 4e-05
gi|4505939 polymerase (RNA) II (DNA directed) polypeptide A (220... 52 4e-05
pir||JS0206 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chai... 52 4e-05
gb|AAG48836.1|AC084218_6 (AC084218) similar to Arabidopsis thali... 52 5e-05
dbj|BAA88485.1| (AB025332) RNA polymerase II largest subunit [La... 52 5e-05
pir||T43026 probable DNA-directed RNA polymerase (EC 2.7.7.6) II... 52 5e-05
pir||S71186 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 cha... 52 5e-05
gb|AAK00312.1|AF315822_1 (AF315822) DNA-dependent RNA polymerase... 52 6e-05
gb|AAK00309.1|AF315819_1 (AF315819) DNA-dependent RNA polymerase... 52 6e-05
pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest c... 52 6e-05
gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melan... 52 6e-05
sp|P18616|RPB1_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 52 6e-05
emb|CAB42800.1| (Y18876) largest subunit of the RNA polymerase I... 52 6e-05
emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase I... 52 6e-05
emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase I... 52 6e-05
emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase I... 52 6e-05
gb|AAC49712.1| (U90210) RNA polymerase II largest subunit [Spiro... 52 6e-05
sp|P04052|RPB1_DROME DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 52 6e-05
emb|CAA37130.1| (X52954) RNA polymerase II [Arabidopsis thaliana] 52 6e-05
pir||JDMU2 DNA-directed RNA polymerase (EC 2.7.7.6) II largest c... 52 6e-05
pir||C75182 DNA-directed RNA polymerase, chain A'' (rpoa2) PAB04... 51 8e-05
pir||A45597 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 51 8e-05
gb|AAA22034.1| (M60831) RNA polymerase beta'-subunit [Anabaena v... 51 8e-05
sp|P27625|RPC1_PLAFA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 51 8e-05
pir||S14181 DNA-directed RNA polymerase (EC 2.7.7.6) largest cha... 51 8e-05
sp|P22705|RPOD_ANASP DNA-DIRECTED RNA POLYMERASE DELTA CHAIN >gi... 51 8e-05
pir||T07796 DNA-directed RNA polymerase (EC 2.7.7.6) largest cha... 51 8e-05
dbj|BAA88484.1| (AB025331) RNA polymerase II largest subunit [Ep... 51 1e-04
pir||G71031 probable DNA-directed RNA polymerase subunit A - Pyr... 51 1e-04
gb|AAA50229.1| (U10338) RNA polymerase II, largest subunit [Ilya... 51 1e-04
pir||S14182 DNA-directed RNA polymerase (EC 2.7.7.6) largest cha... 50 1e-04
sp|P29158|RPA2_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A" >gi|... 50 1e-04
pir||S14183 DNA-directed RNA polymerase (EC 2.7.7.6) largest cha... 50 1e-04
emb|CAA36734.1| (X52493) DNA-directed RNA polymerase [Glycine max] 50 1e-04
dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [As... 50 2e-04
dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II larges... 50 2e-04
gi|5902062 polymerase (RNA) III (DNA directed) (155kD) [Homo sap... 50 2e-04
sp|P36594|RPB1_SCHPO DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 50 2e-04
gb|AAF26622.1|AF138972_1 (AF138972) RNA polymerase II largest su... 50 2e-04
gb|AAB51212.1| (U73456) large subunit RNA polymerase II [Terator... 50 2e-04
sp|O94666|RPC1_SCHPO DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 49 3e-04
gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acant... 49 3e-04
gb|AAB51213.1| (U73448) large subunit RNA polymerase II [unident... 49 3e-04
gb|AAB40621.1| (U61762) RNA polymerase II large subunit [Aduncos... 49 3e-04
gb|AAC83397.1| (U10331) RNA polymerase II, largest subunit [Arte... 49 3e-04
gi|11430046 DKFZP586M0122 protein [Homo sapiens] 49 4e-04
gb|AAF36438.1|AF126254_1 (AF126254) RNA polymerase II largest su... 49 4e-04
gb|AAD09356.1| (U33823) DNA-directed RNA polymerase I largest su... 49 4e-04
gi|7661686 DKFZP586M0122 protein [Homo sapiens] >gi|12643662|sp|... 49 4e-04
gb|AAB51211.1| (U73454) large subunit RNA polymerase II [Mesorha... 49 4e-04
gb|AAB51210.1| (U73451) large subunit RNA polymerase II [Cruznem... 49 4e-04
gb|AAB40622.1| (U61763) RNA polymerase II large subunit [Zeldia ... 49 4e-04
pir||T43260 RNA polymerase (EC 2.7.7.-) II - Trichomonas vaginal... 49 4e-04
pir||S04198 DNA-directed RNA polymerase (EC 2.7.7.6) II large ch... 49 4e-04
gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Tryp... 48 6e-04
gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Tryp... 48 6e-04
pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypa... 48 6e-04
pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypa... 48 6e-04
sp|P09846|RPA1_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 48 6e-04
sp|P17546|RPB2_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 48 6e-04
sp|P17545|RPB1_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 48 6e-04
gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leish... 48 7e-04
gi|6320061 RNA polymerase II large subunit; Rpo21p [Saccharomyce... 48 7e-04
emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit ... 48 7e-04
gi|11431655 polymerase (RNA) III (DNA directed) (155kD) [Homo sa... 48 0.001
sp|O54889|RPA1_RAT DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT... 48 0.001
gi|6677793 RNA polymerase 1-4 (194 kDa subunit) [Mus musculus] >... 48 0.001
sp|P35084|RPB1_DICDI DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 48 0.001
gi|6324690 RNA polymerase III large subunit; Rpo31p [Saccharomyc... 48 0.001
emb|CAC22339.1| (AJ304946) RNA polymerase II subunit [Leishmania... 47 0.001
dbj|BAA88487.1| (AB025334) RNA polymerase III largest subunit [L... 47 0.001
dbj|BAA88486.1| (AB025333) RNA polymerase III largest subunit [E... 47 0.001
pir||T18492 hypothetical protein C0805w - malaria parasite (Plas... 47 0.001
pir||T34157 hypothetical protein C42D4.8 - Caenorhabditis elegan... 47 0.001
sp|P14248|RPB1_PLAFD DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 47 0.001
gb|AAC17169.1| (AF064759) DNA-directed RNA polymerase beta' subu... 47 0.002
gb|AAC47795.1| (AF009166) RNA polymerase II large subunit [Leish... 46 0.002
gb|AAC47782.1| (AF009153) RNA polymerase II large subunit [Leish... 46 0.002
gb|AAA19615.1| (U11452) RNA polymerase beta' subunit [Mycobacter... 46 0.002
emb|CAA42846.1| (X60305) subunit A'' of RNA polymerase [Thermoco... 46 0.002
emb|CAC22335.1| (AJ304949) RNA polymerase II subunit [Leishmania... 46 0.003
gb|AAF67243.1| (AF151727) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47796.1| (AF009167) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47794.1| (AF009165) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47793.1| (AF009164) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47790.1| (AF009161) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47789.1| (AF009160) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47787.1| (AF009158) RNA polymerase II large subunit [Endot... 46 0.003
gb|AAC47786.1| (AF009157) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47785.1| (AF009156) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47784.1| (AF009155) RNA polymerase II large subunit [Leish... 46 0.003
gb|AAC47783.1| (AF009154) RNA polymerase II large subunit [Leish... 46 0.003
pir||A34374 DNA-directed RNA polymerase (EC 2.7.7.6) I largest c... 46 0.003
sp|P16355|RPA1_TRYBB DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 46 0.003
emb|CAC22337.1| (AJ304948) RNA polymerase II subunit [Leishmania... 46 0.004
gb|AAF58234.1| (AE003814) RpI1 gene product [Drosophila melanoga... 46 0.004
pir||T19606 hypothetical protein Y48E1A.1 - Caenorhabditis elega... 46 0.004
gb|AAC99803.1| (U24217) RNA polymerase II largest subunit [Kluyv... 46 0.004
sp|P91875|RPA1_DROME DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 46 0.004
gb|AAK12766.1| (AF241046) RNA polymerase II largest subunit [Ste... 45 0.005
sp|Q58446|RPA2_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A" >gi|... 45 0.006
emb|CAA31844.1| (X13489) RNA polymerase II, large subunit [Crith... 45 0.006
pir||T31436 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 45 0.008
gb|AAK12761.1| (AF241041) RNA polymerase II largest subunit [sol... 44 0.011
gb|AAK12371.1| (AF240892) RNA polymerase II largest subunit [Per... 44 0.011
gb|AAF26664.1|AF139014_1 (AF139014) RNA polymerase II largest su... 44 0.011
gb|AAF26638.1|AF138988_1 (AF138988) RNA polymerase II largest su... 44 0.011
gb|AAF26620.1|AF138970_1 (AF138970) RNA polymerase II largest su... 44 0.011
pir||T31435 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 44 0.011
pir||T03179 probable DNA-directed RNA polymerase (EC 2.7.7.6) la... 44 0.011
gb|AAA62413.1| (M81388) DNA-directed RNA polymerase I largest su... 44 0.011
emb|CAA31845.1| (X13490) Crp22 [Crithidia fasciculata] 44 0.014
emb|CAA34086.1| (X15970) RNA polymerase beta' subunit (AA 215) [... 43 0.024
sp|P15353|RPA2_HALMO DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUB... 43 0.024
pir||D33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain C - H... 42 0.041
gi|6319640 Dem1p [Saccharomyces cerevisiae] >gi|586302|sp|P38289... 42 0.041
sp|P15354|RPA2_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUB... 42 0.041
emb|CAB39065.2| (AL034559) hypothetical protein, PFC0970w [Plasm... 42 0.054
gb|AAC03134.2| (U90035) RNA polymerase II largest subunit [Aphon... 41 0.12
gb|AAF26656.1|AF139006_1 (AF139006) RNA polymerase II largest su... 41 0.12
gb|AAC03135.2| (U90036) RNA polymerase II largest subunit [Dysde... 40 0.16
gb|AAA92868.1| (L34213) DNA-dependent RNA polymerase largest sub... 40 0.21
dbj|BAA82753.1| (AB018418) largest subunit of the DNA-dependent ... 38 0.81
gb|AAB93964.1| (AF001864) RNA polymerase beta-subunit [Joinville... 38 0.81
gb|AAK11926.1| (AF240950) RNA polymerase II largest subunit [Pac... 37 1.4
gi|9628206 RNA polymerase subunit 1 [African swine fever virus] ... 37 1.4
pir||A82913 hypothetical protein UU263 [imported] - Ureaplasma u... 37 1.8
pir||B71225 hypothetical protein PH0061 - Pyrococcus horikoshii ... 37 1.8
gb|AAF79163.1|AF249986_1 (AF249986) RNA polymerase III large sub... 36 2.4
gb|AAF79162.1|AF249985_1 (AF249985) RNA polymerase III large sub... 36 2.4
gb|AAC03137.2| (U90038) RNA polymerase II largest subunit [Masti... 36 2.4
sp|P21422|RPOC_PLAFA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN >gi... 36 2.4
pir||S10439 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 36 2.4
gi|9633128 U57 [Human herpesvirus 6B] >gi|11278303|pir||T44204 c... 36 3.1
pir||T44017 major capsid protein [imported] - human herpesvirus ... 36 3.1
pir||T18499 hypothetical protein C0770c - malaria parasite (Plas... 36 3.1
dbj|BAA06772.1| (D32006) major capsid protein [Human herpesvirus 6] 36 3.1
pir||C71618 hypothetical protein PFB0315w - malaria parasite (Pl... 35 5.4
pir||E70124 protoporphyrinogen oxidase homolog - Lyme disease sp... 35 5.4
sp|P21421|RPOB_PLAFA DNA-DIRECTED RNA POLYMERASE BETA CHAIN >gi|... 35 5.4
gb|AAF26661.1|AF139011_1 (AF139011) RNA polymerase II largest su... 35 7.0
pir||A71661 hypothetical protein RP563 - Rickettsia prowazekii >... 35 7.0
gb|AAB41723.1| (U75379) glycoprotein precursor [watermelon spott... 34 9.2
>gi|11465944 RNA polymerase beta'' subunit [Nicotiana tabacum]
emb|CAA77410.1| (Z00044) RNA polymerase beta'' subunit [Nicotiana tabacum]
Length = 1392
Score = 2031 bits (5204), Expect = 0.0
Identities = 1030/1358 (75%), Positives = 1148/1358 (83%), Gaps = 43/1358 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 5 MAERANLVFHNKAINGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 64
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 65 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 124
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 125 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 184
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT RGISV+ RN MM ERI
Sbjct: 185 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTARGISVSPRNGMMPERIF 244
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
IQTLIGRVLADDIY+G RCI RNQDIGIGL+NRFI F+ QPI IRTPFTCR+TSWICRL
Sbjct: 245 IQTLIGRVLADDIYMGPRCIATRNQDIGIGLVNRFITFRAQPISIRTPFTCRSTSWICRL 304
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+PSNGKI
Sbjct: 305 CYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKI 364
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQII 420
KFNE+ +PTRTRHGHPAFLC IDLYVTIES DI+HNV IPPKS LLVQNDQYV+SEQ+I
Sbjct: 365 KFNEDLVHPTRTRHGHPAFLCSIDLYVTIESEDILHNVNIPPKSLLLVQNDQYVESEQVI 424
Query: 421 AEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGN 480
AEIRAG TLN KEKVRKHI+SDS+GEMHWST++YH EF Y NVH+LPKTSHLWIL G
Sbjct: 425 AEIRAGISTLNFKEKVRKHIYSDSDGEMHWSTDVYHAPEFTYGNVHLLPKTSHLWILLGR 484
Query: 481 SHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR------------------- 521
+S V LS+ KDQDQM+ H L +R TSN V+N+Q R
Sbjct: 485 PCRSSLVYLSIHKDQDQMNAHFLSGKRRYTSNLSVTNDQARQKLFSSDFSGKKEDRIPDY 544
Query: 522 ------LCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--DISVE 573
+C + ++ I + S+LL+K+RRN+FIIP SI+E NELMP IS+E
Sbjct: 545 SDLNRIICAGQYNLVYSPILHENSDLLSKRRRNKFIIP--LHSIQELENELMPCSGISIE 602
Query: 574 IPIDGIIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQI 633
IP++GI +NSILAYFDDP+YR +SSGI KY T+ HS+ +KEDL+EYRG++EF+PKYQ+
Sbjct: 603 IPVNGIFRRNSILAYFDDPRYRRKSSGIIKYGTVETHSVIKKEDLLEYRGVKEFRPKYQM 662
Query: 634 KVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKI 693
KVDRFFFIP+EVHIL SSSIMVRNNSI+GV+T ITLN +SRVGGLVRVE+ KK+IELKI
Sbjct: 663 KVDRFFFIPEEVHILPGSSSIMVRNNSIVGVDTQITLNLRSRVGGLVRVERKKKRIELKI 722
Query: 694 FSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRP 753
FSGDIHFPGE DKIS+H+ +LIPP K+NSKESKK NW Y+Q IT +KKK+FVLVRP
Sbjct: 723 FSGDIHFPGETDKISRHTGVLIPPG-TGKRNSKESKKVKNWIYVQRITPSKKKFFVLVRP 781
Query: 754 VILYDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVL 813
V+ Y+I D INL LFP D +E DN++L+++N+ILYGNGK IRGI DTSIQLVRTCLVL
Sbjct: 782 VVTYEITDGINLATLFPPDPLQERDNVQLRIVNYILYGNGKPIRGISDTSIQLVRTCLVL 841
Query: 814 NWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNES 873
NWN+D+KSSS EEA ASFVE+ TNGLIR+FLRI+LVKS ISYI KRNDPS SGL+S N S
Sbjct: 842 NWNQDKKSSSCEEARASFVEIRTNGLIRHFLRINLVKSPISYIGKRNDPSGSGLLSDNGS 901
Query: 874 DRININPFFSIY---KENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNV 930
D NINPF SIY K IQQS++Q GTI LLNRNKE +S IILS++NC +MGPF +V
Sbjct: 902 DCTNINPFSSIYSYSKAKIQQSINQPQGTIHTLLNRNKECQSLIILSAANCSRMGPFKDV 961
Query: 931 KYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNK 990
KYH+ IK+ I K++ IPI+ SLGPLG + I NF+S YHLITHN+I + LQL+
Sbjct: 962 KYHSVIKKSI---KKDPLIPIRNSLGPLGTSLPIENFYSSYHLITHNQI-LVTNYLQLDN 1017
Query: 991 FKETFQVI--KYYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFI 1048
K+TFQVI KYYLMDEN +I+ PD NIILNPF+LNW F+H NYCE+T IISLGQFI
Sbjct: 1018 LKQTFQVIKFKYYLMDENGKIFNPDPCRNIILNPFNLNWYFLHHNYCEETSKIISLGQFI 1077
Query: 1049 CENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVT 1108
CENVCI KNGP LKSGQVI VQ+D + IR A PYLATPGAT+HGHYGE LYEGD LVT
Sbjct: 1078 CENVCI--AKNGPPLKSGQVILVQVDSIVIRSAKPYLATPGATVHGHYGETLYEGDTLVT 1135
Query: 1109 FIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAE 1168
FIYEKSRSGDITQGLPKVEQVLEVRS+DSISMNLEKRI+ WN+ IT ILGIPW FLIGAE
Sbjct: 1136 FIYEKSRSGDITQGLPKVEQVLEVRSVDSISMNLEKRIEGWNKCITRILGIPWGFLIGAE 1195
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
LTIAQSRISLVNKIQ+VYRSQGV IHNRH+EIIVRQITSKVLVSEDGMSNVFSPGELIGL
Sbjct: 1196 LTIAQSRISLVNKIQQVYRSQGVQIHNRHLEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1255
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
LRA+R GRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKG
Sbjct: 1256 LRAERMGRALEEAICYRVVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1315
Query: 1289 LKENLVLGGIIPVGTGFKKIGDRSSARQDTKITLETIK 1326
LKEN+VLGG+IPVGTGFK G ++Q I LET K
Sbjct: 1316 LKENVVLGGVIPVGTGFK--GLVHPSKQHNNIPLETKK 1351
>sp|P38550|RPOD_TOBAC DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
Length = 1388
Score = 2031 bits (5204), Expect = 0.0
Identities = 1030/1358 (75%), Positives = 1148/1358 (83%), Gaps = 43/1358 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 1 MAERANLVFHNKAINGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT RGISV+ RN MM ERI
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTARGISVSPRNGMMPERIF 240
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
IQTLIGRVLADDIY+G RCI RNQDIGIGL+NRFI F+ QPI IRTPFTCR+TSWICRL
Sbjct: 241 IQTLIGRVLADDIYMGPRCIATRNQDIGIGLVNRFITFRAQPISIRTPFTCRSTSWICRL 300
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+PSNGKI
Sbjct: 301 CYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKI 360
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQII 420
KFNE+ +PTRTRHGHPAFLC IDLYVTIES DI+HNV IPPKS LLVQNDQYV+SEQ+I
Sbjct: 361 KFNEDLVHPTRTRHGHPAFLCSIDLYVTIESEDILHNVNIPPKSLLLVQNDQYVESEQVI 420
Query: 421 AEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGN 480
AEIRAG TLN KEKVRKHI+SDS+GEMHWST++YH EF Y NVH+LPKTSHLWIL G
Sbjct: 421 AEIRAGISTLNFKEKVRKHIYSDSDGEMHWSTDVYHAPEFTYGNVHLLPKTSHLWILLGR 480
Query: 481 SHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR------------------- 521
+S V LS+ KDQDQM+ H L +R TSN V+N+Q R
Sbjct: 481 PCRSSLVYLSIHKDQDQMNAHFLSGKRRYTSNLSVTNDQARQKLFSSDFSGKKEDRIPDY 540
Query: 522 ------LCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--DISVE 573
+C + ++ I + S+LL+K+RRN+FIIP SI+E NELMP IS+E
Sbjct: 541 SDLNRIICAGQYNLVYSPILHENSDLLSKRRRNKFIIP--LHSIQELENELMPCSGISIE 598
Query: 574 IPIDGIIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQI 633
IP++GI +NSILAYFDDP+YR +SSGI KY T+ HS+ +KEDL+EYRG++EF+PKYQ+
Sbjct: 599 IPVNGIFRRNSILAYFDDPRYRRKSSGIIKYGTVETHSVIKKEDLLEYRGVKEFRPKYQM 658
Query: 634 KVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKI 693
KVDRFFFIP+EVHIL SSSIMVRNNSI+GV+T ITLN +SRVGGLVRVE+ KK+IELKI
Sbjct: 659 KVDRFFFIPEEVHILPGSSSIMVRNNSIVGVDTQITLNLRSRVGGLVRVERKKKRIELKI 718
Query: 694 FSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRP 753
FSGDIHFPGE DKIS+H+ +LIPP K+NSKESKK NW Y+Q IT +KKK+FVLVRP
Sbjct: 719 FSGDIHFPGETDKISRHTGVLIPPG-TGKRNSKESKKVKNWIYVQRITPSKKKFFVLVRP 777
Query: 754 VILYDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVL 813
V+ Y+I D INL LFP D +E DN++L+++N+ILYGNGK IRGI DTSIQLVRTCLVL
Sbjct: 778 VVTYEITDGINLATLFPPDPLQERDNVQLRIVNYILYGNGKPIRGISDTSIQLVRTCLVL 837
Query: 814 NWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNES 873
NWN+D+KSSS EEA ASFVE+ TNGLIR+FLRI+LVKS ISYI KRNDPS SGL+S N S
Sbjct: 838 NWNQDKKSSSCEEARASFVEIRTNGLIRHFLRINLVKSPISYIGKRNDPSGSGLLSDNGS 897
Query: 874 DRININPFFSIY---KENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNV 930
D NINPF SIY K IQQS++Q GTI LLNRNKE +S IILS++NC +MGPF +V
Sbjct: 898 DCTNINPFSSIYSYSKAKIQQSINQPQGTIHTLLNRNKECQSLIILSAANCSRMGPFKDV 957
Query: 931 KYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNK 990
KYH+ IK+ I K++ IPI+ SLGPLG + I NF+S YHLITHN+I + LQL+
Sbjct: 958 KYHSVIKKSI---KKDPLIPIRNSLGPLGTSLPIENFYSSYHLITHNQI-LVTNYLQLDN 1013
Query: 991 FKETFQVI--KYYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFI 1048
K+TFQVI KYYLMDEN +I+ PD NIILNPF+LNW F+H NYCE+T IISLGQFI
Sbjct: 1014 LKQTFQVIKFKYYLMDENGKIFNPDPCRNIILNPFNLNWYFLHHNYCEETSKIISLGQFI 1073
Query: 1049 CENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVT 1108
CENVCI KNGP LKSGQVI VQ+D + IR A PYLATPGAT+HGHYGE LYEGD LVT
Sbjct: 1074 CENVCI--AKNGPPLKSGQVILVQVDSIVIRSAKPYLATPGATVHGHYGETLYEGDTLVT 1131
Query: 1109 FIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAE 1168
FIYEKSRSGDITQGLPKVEQVLEVRS+DSISMNLEKRI+ WN+ IT ILGIPW FLIGAE
Sbjct: 1132 FIYEKSRSGDITQGLPKVEQVLEVRSVDSISMNLEKRIEGWNKCITRILGIPWGFLIGAE 1191
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
LTIAQSRISLVNKIQ+VYRSQGV IHNRH+EIIVRQITSKVLVSEDGMSNVFSPGELIGL
Sbjct: 1192 LTIAQSRISLVNKIQQVYRSQGVQIHNRHLEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1251
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
LRA+R GRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKG
Sbjct: 1252 LRAERMGRALEEAICYRVVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1311
Query: 1289 LKENLVLGGIIPVGTGFKKIGDRSSARQDTKITLETIK 1326
LKEN+VLGG+IPVGTGFK G ++Q I LET K
Sbjct: 1312 LKENVVLGGVIPVGTGFK--GLVHPSKQHNNIPLETKK 1347
>gi|11497514 RNA polymerase beta'' subunit [Spinacia oleracea]
sp|P11704|RPOD_SPIOL DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||A29959 DNA-directed RNA polymerase (EC 2.7.7.6) beta'' chain - spinach
chloroplast
emb|CAB88715.1| (AJ400848) RNA polymerase beta'' subunit [Spinacia oleracea]
Length = 1361
Score = 1985 bits (5085), Expect = 0.0
Identities = 1010/1357 (74%), Positives = 1130/1357 (82%), Gaps = 47/1357 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGMAYTSHILDQ+KTLGF+QAT TSISLGID
Sbjct: 5 MAERANLVFHNKAIDGTAMKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSISLGID 64
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWY+TSEYLRQEMNPNF
Sbjct: 65 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYSTSEYLRQEMNPNFR 124
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDP+NPVHIMSFSGARGN SQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 125 MTDPYNPVHIMSFSGARGNVSQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 184
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRR DCGT+RGISV+ +N M ERIL
Sbjct: 185 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRRDCGTIRGISVSPQNSTMPERIL 244
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
IQTLIGRVLADDIY+GSRCI RNQDIG+GL+NRFI +TQ I IRTPFTCR+ SWICRL
Sbjct: 245 IQTLIGRVLADDIYMGSRCIATRNQDIGVGLVNRFITLRTQLISIRTPFTCRSASWICRL 304
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYGRSP HG LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+PSNGKI
Sbjct: 305 CYGRSPTHGGLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKI 364
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQII 420
+FNE+ +PTRTRHGHPAFLCYIDLYVTIES+DI+HNV IPPKSFLLVQNDQYV+SEQ+I
Sbjct: 365 QFNEDLVHPTRTRHGHPAFLCYIDLYVTIESDDILHNVNIPPKSFLLVQNDQYVESEQVI 424
Query: 421 AEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGN 480
AEIRAGT TLN KE+VRKHI+SDSEGEMHWST++YH EF Y NVH+LPKTSHLW+LSG
Sbjct: 425 AEIRAGTSTLNFKERVRKHIYSDSEGEMHWSTDVYHAPEFTYGNVHLLPKTSHLWVLSGK 484
Query: 481 SHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQV-------------RLCP--- 524
++S V SL KDQDQM+THSL + SN V+N+QV R+
Sbjct: 485 PYRSSVVPFSLSKDQDQMNTHSLSFEQIYISNPSVTNDQVKDKLSDSFSKKEDRITDYSE 544
Query: 525 ----DHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELM--PDISVEIPIDG 578
HC+ ++P + D LLAKKRRNRFIIP F+ +ER ELM IS+EIPI+G
Sbjct: 545 LNRIGHCNLIYPAKNLD---LLAKKRRNRFIIP--FQGSQERKKELMSLSGISIEIPING 599
Query: 579 IIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRF 638
I KNSI AYFDDP+YR +SSGI KY TI +HSI +KEDLIEYRG++EF+PKYQ+KVDRF
Sbjct: 600 IFRKNSIFAYFDDPRYRRKSSGITKYGTIEMHSIVKKEDLIEYRGVKEFRPKYQMKVDRF 659
Query: 639 FFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDI 698
FFIP+EVHIL+ SSSIMVRNNSIIGV+T ITLN +SR+GG+VRVE+ KKKIEL IFSGDI
Sbjct: 660 FFIPEEVHILAGSSSIMVRNNSIIGVDTWITLNTRSRIGGVVRVERKKKKIELTIFSGDI 719
Query: 699 HFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYD 758
HFPGE DKIS+HS ILIPP +KNSK+SK W Y+Q IT TKKKYFVLVRPV+ Y+
Sbjct: 720 HFPGETDKISRHSGILIPP---SRKNSKDSKNLKKWIYVQRITPTKKKYFVLVRPVVPYE 776
Query: 759 IADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNED 818
I D INL LFPQDL +E DN++L+V+N+ILYGNGK RGI DTSIQLVRTCLVLNWN+D
Sbjct: 777 ITDGINLATLFPQDLLQERDNVQLRVVNYILYGNGKVTRGISDTSIQLVRTCLVLNWNQD 836
Query: 819 EKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRINI 878
+K SSIEEA SFVEV TNG+I+ FL+++LVK ISYI KRNDPSS SD N+
Sbjct: 837 KKGSSIEEARGSFVEVRTNGMIQDFLKVNLVKPAISYISKRNDPSSE---KKEGSDHTNM 893
Query: 879 NPFFSIY---KENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNG 935
NPF+SIY K +Q+S +Q GT+R LL NKE + F+ILSSSNCF++GPF VKY
Sbjct: 894 NPFYSIYIYPKTKLQKSFNQNQGTVRTLLGINKECQFFLILSSSNCFRIGPFKGVKYPKE 953
Query: 936 IKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETF 995
+ K++ IPI+ S GPLG A QIANFFSFY+LITHN+I + LQL+ K+TF
Sbjct: 954 L------IKKDPLIPIRNSFGPLGTALQIANFFSFYYLITHNQI-LVTNYLQLDNLKQTF 1006
Query: 996 QVIK--YYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVC 1053
Q K YYLMDEN RIY PD +NII NPF LNW F+H ++CE+T I LGQF+CENVC
Sbjct: 1007 QPFKFQYYLMDENGRIYNPDPCSNIIFNPFKLNWYFLHYHFCEETSTKIDLGQFVCENVC 1066
Query: 1054 IVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEK 1113
I TK G +LKSGQV+ VQ D V IR A PYLATPGAT+HGHYGE++YEGD LVTFIYEK
Sbjct: 1067 I--TKKGTHLKSGQVLIVQFDSVVIRSAKPYLATPGATLHGHYGEIIYEGDTLVTFIYEK 1124
Query: 1114 SRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQ 1173
SRSGDITQGLPKVEQVLEVRSIDSIS+NLEKRID+WNERIT ILG PW FLIGAELTIAQ
Sbjct: 1125 SRSGDITQGLPKVEQVLEVRSIDSISINLEKRIDSWNERITRILGSPWGFLIGAELTIAQ 1184
Query: 1174 SRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQR 1233
SRISLVNKIQ+VYRSQGV IHNRHIEIIVRQITSKVLVSEDGMSNVF PGELIGL RA+R
Sbjct: 1185 SRISLVNKIQKVYRSQGVQIHNRHIEIIVRQITSKVLVSEDGMSNVFLPGELIGLFRAER 1244
Query: 1234 TGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
TGRALEE+ICYR LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+
Sbjct: 1245 TGRALEEAICYRATLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENV 1304
Query: 1294 VLGGIIPVGTGFKKIGDRSSARQDTKITLETIKIIRG 1330
VLGG+IPVGTGFK SS +D + + + G
Sbjct: 1305 VLGGMIPVGTGFKGFVHHSSQHKDIPLKTKKQNLFEG 1341
>gi|7525023 RNA polymerase beta' subunit-2 [Arabidopsis thaliana]
sp|P56764|RPOD_ARATH DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
dbj|BAA84375.1| (AP000423) RNA polymerase beta' subunit-2 [Arabidopsis thaliana]
Length = 1376
Score = 1942 bits (4976), Expect = 0.0
Identities = 1001/1358 (73%), Positives = 1125/1358 (82%), Gaps = 53/1358 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNKVI GTAIKR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 1 MAERANLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQS ILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSWILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVH+MSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 MTDPFNPVHMMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRN--RMMSER 238
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT+RGISV+ RN RMMSER
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTIRGISVSPRNKNRMMSER 240
Query: 239 ILIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
I IQTLIGRVLADDIYIGSRC+ RNQD+GIGL+NR I F TQ I IRTPFTCR+TSWIC
Sbjct: 241 IFIQTLIGRVLADDIYIGSRCVAFRNQDLGIGLVNRLITFGTQSISIRTPFTCRSTSWIC 300
Query: 299 RLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNG 358
RLCYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+P NG
Sbjct: 301 RLCYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPYNG 360
Query: 359 KIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQ 418
KIKFNE+ +PTRTRHGHPAFLCYIDL V IES DI+H+V IPPKSFLLVQNDQYV+SEQ
Sbjct: 361 KIKFNEDLVHPTRTRHGHPAFLCYIDLSVIIESEDIIHSVTIPPKSFLLVQNDQYVESEQ 420
Query: 419 IIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILS 478
+IAEIR GTYT + KE+VRK+I+SDSEGEMHWST++ H EF YSNVH+LPKTSHLWILS
Sbjct: 421 VIAEIREGTYTFHFKERVRKYIYSDSEGEMHWSTDVSHAPEFTYSNVHLLPKTSHLWILS 480
Query: 479 GNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQV------------------ 520
G S S + S+ KDQDQM+ L +++ S+ V+N+QV
Sbjct: 481 GGSCGSSLIRFSIHKDQDQMNIPFLSAERKSISSLSVNNDQVSQKFFSSDFADPKKLGIY 540
Query: 521 -------RLCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPD--IS 571
L H + ++ I + S+LLAK+RRNRF+IP F+SI+E+ E +P IS
Sbjct: 541 DYSELNGNLGTSHYNLIYSAIFHENSDLLAKRRRNRFLIP--FQSIQEQEKEFIPQSGIS 598
Query: 572 VEIPIDGIIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKY 631
VEIPI+GI +NSI A+FDDP+YR +SSGI KY T+ SI QKED+IEYRG+++ K KY
Sbjct: 599 VEIPINGIFRRNSIFAFFDDPRYRRKSSGILKYGTLKADSIIQKEDMIEYRGVQKIKTKY 658
Query: 632 QIKVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIEL 691
++KVDRFFFIP+EVHIL ESS+IMV+N SIIGV+T +TLN +S+VGGL+RVEK KK+IEL
Sbjct: 659 EMKVDRFFFIPEEVHILPESSAIMVQNYSIIGVDTRLTLNIRSQVGGLIRVEKKKKRIEL 718
Query: 692 KIFSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLV 751
KIFSGDIHFP + DKIS+HS ILIPP KKNSKESKK NW Y+Q IT TKKK+FVLV
Sbjct: 719 KIFSGDIHFPDKTDKISRHSGILIPPGR-GKKNSKESKKFKNWIYVQRITPTKKKFFVLV 777
Query: 752 RPVILYDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCL 811
RPV Y+IADSINL LFPQDLF+E DN++L+V N+ILYGNGK RGI DTSIQLVRTCL
Sbjct: 778 RPVATYEIADSINLATLFPQDLFREKDNIQLRVFNYILYGNGKPTRGISDTSIQLVRTCL 837
Query: 812 VLNWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYN 871
VLNW +K+SS+EE A FVEVST GLI+ F+RI LVKSHISYIRKRN+ SGLIS +
Sbjct: 838 VLNW---DKNSSLEEVRAFFVEVSTKGLIQDFIRIGLVKSHISYIRKRNNSPDSGLISAD 894
Query: 872 ESDRININPFFSIYKEN--IQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNN 929
++NPF+SI ++ +QQSL Q HGTIRM LNRNKE++S +ILSSSNCF+MGPFN+
Sbjct: 895 -----HMNPFYSISPKSGILQQSLRQNHGTIRMFLNRNKESQSLLILSSSNCFRMGPFNH 949
Query: 930 VKYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLN 989
VK+HN I + I K+N I IK S GPLG A I+NF+SF L+T+N+IS I K QL+
Sbjct: 950 VKHHNVINQSI---KKNTLITIKNSSGPLGTATPISNFYSFLPLLTYNQISLI-KYFQLD 1005
Query: 990 KFKETFQVIKYYLMDENERIYKPDLYNNIILNPFHLNWDFIHP----NYCEKTFPIISLG 1045
K FQ I YL+DEN I D Y+N++LNPF LNW F+H NYCE+T IISLG
Sbjct: 1006 NLKYIFQKINSYLIDENGIILNLDPYSNVVLNPFKLNWYFLHQNYHHNYCEETSTIISLG 1065
Query: 1046 QFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDI 1105
QF CENVCI K P+LKSGQV+ VQ D IR A PYLATPGA +HGHY E+LYEGD
Sbjct: 1066 QFFCENVCI--AKKEPHLKSGQVLIVQRDSAVIRSAKPYLATPGAKVHGHYSEILYEGDT 1123
Query: 1106 LVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLI 1165
LVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSIS+NLEKRI WN+ IT ILGIPW FLI
Sbjct: 1124 LVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISLNLEKRIKGWNKCITRILGIPWGFLI 1183
Query: 1166 GAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGEL 1225
GAELTI QSRISLVNKIQ+VYRSQGV IHNRHIEIIVRQITSKVLVSE+GMSNVF PGEL
Sbjct: 1184 GAELTIVQSRISLVNKIQKVYRSQGVQIHNRHIEIIVRQITSKVLVSEEGMSNVFLPGEL 1243
Query: 1226 IGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDW 1285
IGLLRA+RTGRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDW
Sbjct: 1244 IGLLRAERTGRALEEAICYRAVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDW 1303
Query: 1286 LKGLKENLVLGGIIPVGTGFKKIGDRSSARQDTKITLE 1323
LKGLKEN+VLGG+IP GTGF K G +RQ T I LE
Sbjct: 1304 LKGLKENVVLGGVIPAGTGFNK-GLVHCSRQHTNIILE 1340
>emb|CAB67153.1| (AJ271079) RNA polymerase beta'' subunit [Oenothera elata subsp.
hookeri]
Length = 1386
Score = 1905 bits (4880), Expect = 0.0
Identities = 975/1341 (72%), Positives = 1109/1341 (81%), Gaps = 48/1341 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
M E NLVFH KVI GTAIKR+ISRLIDHFGMA+TSHILDQVKTLGF+QAT TSISLGID
Sbjct: 1 MDEGVNLVFHKKVIDGTAIKRLISRLIDHFGMAHTSHILDQVKTLGFQQATATSISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQD EQQSL LEKHHHYGNVHAVEKLRQSIE+WYATSEYLRQEMNPNF
Sbjct: 61 DLLTIPSKGWLVQDGEQQSLSLEKHHHYGNVHAVEKLRQSIEVWYATSEYLRQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT+RGISV+ R M ERI
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTLRGISVSPRR--MPERIF 238
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
IQTLIGRVLADDIYIGSRCI +RNQDIGIGL+NRFI F QPI IRTPFT R+ SWICRL
Sbjct: 239 IQTLIGRVLADDIYIGSRCIAIRNQDIGIGLVNRFITFGIQPISIRTPFTGRSPSWICRL 298
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+PSNGKI
Sbjct: 299 CYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKI 358
Query: 361 KFNENSA--YPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQ 418
KFN N A +P RTRHGHPA LC +DL VTIES DI+HN+ IPPKSFLLVQN+QYV+SEQ
Sbjct: 359 KFNFNEALVHPARTRHGHPALLCSMDLDVTIESEDILHNLTIPPKSFLLVQNNQYVESEQ 418
Query: 419 IIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILS 478
+IAEI AGT T + KE+VRKHI+SDSEGEMHWST++YH EF YSNVH+LPKTSHLWILS
Sbjct: 419 VIAEICAGTSTFHFKERVRKHIYSDSEGEMHWSTDVYHAPEFTYSNVHLLPKTSHLWILS 478
Query: 479 GNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR----------------- 521
G S +S SL KDQDQM+ S +R S+ +N+Q+R
Sbjct: 479 GGSCRSRGAPFSLHKDQDQMNPRSTERERRYLSSLSANNDQIRYKFFSSSFSGKKKDDRE 538
Query: 522 ----------LCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--D 569
+C HC+ ++P+I + S+LLAK+RRNR +IP +S +ER EL+P
Sbjct: 539 SWFISEMNRIICTLHCNLIYPSILRENSDLLAKRRRNRLVIP--VQSSQEREKELIPHSG 596
Query: 570 ISVEIPIDGIIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKP 629
IS+E+PI+GI K SILA+FDDP+YRT+SSGI +Y+T+G+HSI +KE L++YRGI EFKP
Sbjct: 597 ISIELPINGIFRKKSILAFFDDPRYRTKSSGITQYETMGMHSIVKKEGLVDYRGINEFKP 656
Query: 630 KYQIKVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKI 689
KYQ+ +DRFFFIP+EVHIL ESSSIMVRNNS+IGV+T I LN +SR GGLVRVE+ K+ I
Sbjct: 657 KYQMTIDRFFFIPEEVHILPESSSIMVRNNSLIGVDTRIALNTRSRAGGLVRVERKKRGI 716
Query: 690 ELKIFSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFV 749
L+IFSG IHFPGE DKIS S ILIPP K+NSKESKK N Y+Q IT TKKK+FV
Sbjct: 717 ALQIFSGTIHFPGETDKISWDSGILIPPG-TGKRNSKESKKWKNGIYVQRITPTKKKHFV 775
Query: 750 LVRPVILYDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRT 809
L RPV+ Y+IAD +NL +LFP DL +E DN++L+++N+I+YGNGK IR I DTSIQLVRT
Sbjct: 776 LFRPVVTYEIADGLNLARLFPPDLCQEKDNMQLQIVNYIVYGNGKPIREISDTSIQLVRT 835
Query: 810 CLVLNWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLIS 869
+LNW++D+KS+S E A ASFVEV GLIR FLRIDLVKS I RKRNDPS SGLIS
Sbjct: 836 WFILNWDQDKKSASAEAAHASFVEVRAKGLIRDFLRIDLVKSPILDPRKRNDPSGSGLIS 895
Query: 870 YNESDRININPFFSIYKENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNN 929
N SD NINPF+S K ++QS Q HGTIR LLN+NKE S +ILS+SN F+MGPFN+
Sbjct: 896 DNVSDHTNINPFYS--KPKMKQSPRQNHGTIRTLLNQNKECPSLMILSASNWFRMGPFND 953
Query: 930 VKYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLN 989
VK N IKE I K++ I I+ S+GPLG A Q+ NF SFY+ ITHN++ + K LQ+
Sbjct: 954 VKSQNVIKESI---KKDAIIQIRNSIGPLGTALQVVNFDSFYYFITHNQV-LLTKYLQVE 1009
Query: 990 KFKETFQVIKYYLMDENERIYKPDLYNNIILNPFHLNWDFI-HPNY---CEKTFPIISLG 1045
K+TFQV++YYLMDE+ RIY PD +NI+LN F+L+W F+ H NY CE+ I+SLG
Sbjct: 1010 NLKQTFQVLQYYLMDESGRIYNPDPRSNIVLNSFNLSWYFLPHNNYENSCEEISTIVSLG 1069
Query: 1046 QFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDI 1105
QFICEN CI KNGP L+SGQV+ VQ+D V IR A PYLATPGAT+HGHYGE+LY+GD
Sbjct: 1070 QFICENGCI--AKNGPYLRSGQVLIVQLDSVVIRSAKPYLATPGATVHGHYGEILYDGDT 1127
Query: 1106 LVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLI 1165
+VTF+YEKSRSGDITQGLPKVEQVLEVRS+DSIS+NLEKR++ WNE IT ILG PW FLI
Sbjct: 1128 VVTFLYEKSRSGDITQGLPKVEQVLEVRSVDSISVNLEKRVENWNEHITRILGFPWGFLI 1187
Query: 1166 GAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGEL 1225
GAELTI QSRISLVNKIQ+VYRSQGV IHNRHIEIIVRQITSKVLVSEDGMSNVF P EL
Sbjct: 1188 GAELTIVQSRISLVNKIQKVYRSQGVQIHNRHIEIIVRQITSKVLVSEDGMSNVFLPREL 1247
Query: 1226 IGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDW 1285
IGLLRA+RTGRALEESICY+ LLGIT+TSLNTQSFISEASFQETARVLAKAALRGRIDW
Sbjct: 1248 IGLLRAERTGRALEESICYKAFLLGITRTSLNTQSFISEASFQETARVLAKAALRGRIDW 1307
Query: 1286 LKGLKENLVLGGIIPVGTGFK 1306
LKGLKEN+V+GG+IPVGTGFK
Sbjct: 1308 LKGLKENVVIGGMIPVGTGFK 1328
>sp|Q9THV5|RPOD_SINAL DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
emb|CAB48415.2| (AJ243754) RNA polymerase A beta prime prime subunit [Sinapis alba]
Length = 1384
Score = 1901 bits (4871), Expect = 0.0
Identities = 986/1365 (72%), Positives = 1106/1365 (80%), Gaps = 46/1365 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNKVI GTAIKR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 5 MAERANLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 64
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 65 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 124
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVH+MSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 125 MTDPFNPVHMMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 184
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRN--RMMSER 238
SCYGARKGVVDTAVR SDAGYLTRRLVEVVQHIVVRRTDCGT+RGISV+ RN RMMSER
Sbjct: 185 SCYGARKGVVDTAVRQSDAGYLTRRLVEVVQHIVVRRTDCGTIRGISVSPRNKSRMMSER 244
Query: 239 ILIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
I IQTLIGRVLADDIYIGSRC+ RNQD+GIGL+NRFI F TQPI IRTPFTCR+TSWIC
Sbjct: 245 IFIQTLIGRVLADDIYIGSRCVAFRNQDLGIGLVNRFITFGTQPISIRTPFTCRSTSWIC 304
Query: 299 RLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNG 358
RLCYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE+VR+P NG
Sbjct: 305 RLCYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPYNG 364
Query: 359 KIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQ 418
KIKFNE+ + TRTRHGHPAFLCYIDL V IES DI+H+V IPPKSFLLVQNDQYV+SEQ
Sbjct: 365 KIKFNEDLVHSTRTRHGHPAFLCYIDLSVIIESEDIIHSVTIPPKSFLLVQNDQYVESEQ 424
Query: 419 IIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILS 478
+IAEIR GTYT KE+VRK+I+SDSEG MHWST++ H EF YSNVH+LPKTSHLWILS
Sbjct: 425 VIAEIREGTYTFQFKERVRKYIYSDSEGGMHWSTDVSHAPEFTYSNVHLLPKTSHLWILS 484
Query: 479 GNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR-------------LCPD 525
G S S + S+ KDQDQM+ L +++ S+ V+N+QV L P+
Sbjct: 485 GGSCGSSLILFSIHKDQDQMNIPFLSVERKSISSLSVNNDQVSQKFFSSDFSDKKILIPN 544
Query: 526 -----------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--DISV 572
H +F++ I + S+LLAK+RRNRF+IPF +E+ E +P ISV
Sbjct: 545 YSELNGIVGTSHYNFIYSAIFHENSDLLAKRRRNRFLIPFQSIQEQEQEKEFIPHSGISV 604
Query: 573 EIPIDGIIHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQ 632
EIPI+GI +NSI A+FDDP+YR +SSGI KY T+ SI QKED+IEYRG+++FK KY+
Sbjct: 605 EIPINGIFRRNSIFAFFDDPRYRRKSSGILKYGTLKADSIIQKEDMIEYRGVQKFKTKYE 664
Query: 633 IKVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELK 692
+KVDRFFFIP+EVHIL ESS+IMV N SIIGV+T ITLN +S+VGGL+RVE+ KK+IELK
Sbjct: 665 MKVDRFFFIPEEVHILPESSAIMVENYSIIGVDTRITLNIRSQVGGLIRVERKKKRIELK 724
Query: 693 IFSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVR 752
IFSGDIHFP + DKIS+HS ILIPP K NSKESK NW Y+Q IT TKKK+FVLVR
Sbjct: 725 IFSGDIHFPDKTDKISRHSGILIPPGR-GKTNSKESKIVKNWIYVQRITPTKKKFFVLVR 783
Query: 753 PVILYDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLV 812
PV Y+IADSINL LFP+DLF+E DN++L+V N+ILYGNGK RGI DTSIQLVRTCLV
Sbjct: 784 PVATYEIADSINLATLFPKDLFREKDNIQLRVFNYILYGNGKPTRGISDTSIQLVRTCLV 843
Query: 813 LNWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNE 872
LNW++D K+SS+EE A FVEV+T GLIR F+RI LVKSHISYIRKRN+PSS E
Sbjct: 844 LNWDQDNKNSSLEEVRAFFVEVNTKGLIRDFIRIGLVKSHISYIRKRNNPSS----EKKE 899
Query: 873 SDRININPFFSIYKEN--IQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNV 930
++NPF+SI + + QSL Q HGTIRM LNRN+ N +ILSSSNCF++GPFN+V
Sbjct: 900 GSDHSMNPFYSISPKAGILHQSLRQNHGTIRMFLNRNR-NPILLILSSSNCFRIGPFNHV 958
Query: 931 KYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNK 990
KYHN I + I + N+ IK P G A QI F F N+IS I K L L
Sbjct: 959 KYHNVINQSIKKKTSNY---IKNCRAPYGTAIQILIFIHFAFTKLINQISCI-KYLHLQT 1014
Query: 991 FKETFQVIKYYLMDENERIYKPDLYNNIILNPFHLNWDFIHP----NYCEKTFPIISLGQ 1046
F VI YL+DEN RI+ D Y+N++LNPF LNW F+H NYCE+T IISLGQ
Sbjct: 1015 SNVFFPVIHSYLIDENGRIFNLDPYSNLVLNPFKLNWYFLHQNYNNNYCEETSTIISLGQ 1074
Query: 1047 FICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDIL 1106
F CENVCI K P LKSGQV+ VQ D V IR A PYLATPGA +HGHY E+LYEGD L
Sbjct: 1075 FFCENVCI--AKKEPYLKSGQVLIVQRDSVVIRSAKPYLATPGAKVHGHYREILYEGDTL 1132
Query: 1107 VTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIG 1166
VTFIYEKSRSGDITQGLPKVEQVLEVRSIDSIS+NLEKRI WN IT ILGIPW FLIG
Sbjct: 1133 VTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISLNLEKRIKGWNRCITRILGIPWGFLIG 1192
Query: 1167 AELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELI 1226
AELTI QSRISLVNKI++VYRSQGV IHNRHIEIIVRQITSKVLVSE+GMSNVF PGELI
Sbjct: 1193 AELTIVQSRISLVNKIKQVYRSQGVQIHNRHIEIIVRQITSKVLVSEEGMSNVFLPGELI 1252
Query: 1227 GLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWL 1286
GLLRA+RTGRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWL
Sbjct: 1253 GLLRAERTGRALEEAICYRAVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWL 1312
Query: 1287 KGLKENLVLGGIIPVGTGFKKIGDRSSARQDTKITLETIKIIRGR 1331
KGLKEN+VLGG+IP G G ++IG S+A +IRGR
Sbjct: 1313 KGLKENVVLGGVIPPGPGSQRIGALSTATYQHSFGKNKNYLIRGR 1357
>sp|P12227|RPOD_PEA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||S07137 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - garden pea
chloroplast (fragment)
emb|CAA27545.1| (X03912) ORF with large areas of homology to RNA polymerase subunit
beta [Pisum sativum]
Length = 1163
Score = 1754 bits (4492), Expect = 0.0
Identities = 890/1148 (77%), Positives = 981/1148 (84%), Gaps = 46/1148 (4%)
Query: 205 RLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIGRVLADDIYIGSRCIVVRN 264
RLVEVVQHIVVRRTDCGT+RGISVNTRN MM E ILIQTLIGRV+A++IYIGSRCIVVRN
Sbjct: 1 RLVEVVQHIVVRRTDCGTIRGISVNTRNGMMPEIILIQTLIGRVVAENIYIGSRCIVVRN 60
Query: 265 QDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQ 324
QDIGIGLINRFI FQTQPIFIRTPFTCRNTSWICRLCYGRSPIHG+LVELGEAVGIIAGQ
Sbjct: 61 QDIGIGLINRFITFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGDLVELGEAVGIIAGQ 120
Query: 325 SIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFNENSAYPTRTRHGHPAFLCYID 384
SIGEPGTQLTLRTFHTGGVFTGGTAEYVR+PSNGKIK NE+ +PTRTRHG+PAF+C ID
Sbjct: 121 SIGEPGTQLTLRTFHTGGVFTGGTAEYVRAPSNGKIKLNEDLVHPTRTRHGYPAFICNID 180
Query: 385 LYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDS 444
LYVTIES+DI+HNVIIPPKSFLLVQNDQYVKSEQ+IAEIRAGTYT NLKE+VRKHI+SDS
Sbjct: 181 LYVTIESDDIIHNVIIPPKSFLLVQNDQYVKSEQVIAEIRAGTYTFNLKERVRKHIYSDS 240
Query: 445 EGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGNSHKSDTVSLSLLKDQDQMSTHSLP 504
EGEMHWST++YH SEF YSNVHILPKTSHLWILSG S +S+T+ L KDQDQ++ SL
Sbjct: 241 EGEMHWSTDVYHASEFMYSNVHILPKTSHLWILSGKSCRSNTIHFLLRKDQDQITMDSLS 300
Query: 505 TAKRNTSNFLVSNNQVR-------------------------LCPDHCHFMHPTISPDTS 539
K N SN L N+QV+ +C DH +P I DT
Sbjct: 301 NGKTNISNLLERNDQVKHKLFRFNTFGTKEKGISDYSIFNEIICTDH---SYPAIFHDTF 357
Query: 540 NLLAKKRRNRFIIPFLFRSIRERNNELM--PDISVEIPIDGIIHKNSILAYFDDPQYRTQ 597
LAK+RRNRF+IPF F+SI+ER NE M +S+EIPI+GI H+NSI AYFDDPQYR
Sbjct: 358 YFLAKRRRNRFLIPFPFQSIQERKNERMSPSGVSIEIPINGIFHRNSIFAYFDDPQYRRH 417
Query: 598 SSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSSIMVR 657
SSGI KY+TIGIHSIFQKED IEYRGI+E KPK QI+VDRFFFIP+EVHIL +SSS+MVR
Sbjct: 418 SSGITKYRTIGIHSIFQKEDFIEYRGIKELKPKSQIQVDRFFFIPEEVHILPKSSSLMVR 477
Query: 658 NNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQHSAILIPP 717
NNS++G+ TPIT N +SRVGGLVR++K KKKIELKIFSG+IHFPGE+DKIS+HSAILIPP
Sbjct: 478 NNSLVGIGTPITFNIRSRVGGLVRLDKKKKKIELKIFSGNIHFPGEMDKISRHSAILIPP 537
Query: 718 EMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFKEW 777
VKKK +SKK NW Y+QWI TTKKKYFVLVRPVILY+I DS N VKLFPQDLF+E
Sbjct: 538 GTVKKKKCNKSKKIKNWIYVQWIATTKKKYFVLVRPVILYEIPDSNNFVKLFPQDLFQEK 597
Query: 778 DNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVSTN 837
DNLELKV+N+ILYGNGKSIRGI DT IQLVRTCLV NW++ + SSSIEEA ASF+EV TN
Sbjct: 598 DNLELKVVNYILYGNGKSIRGISDTRIQLVRTCLVFNWDDGKNSSSIEEAPASFIEVRTN 657
Query: 838 GLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININPFFSIY-KENIQQSLSQK 896
GLI YFLRIDLVKS+ SYIRKRN+PS GLI N+SDR INPFFSI+ K IQQSLSQ
Sbjct: 658 GLIEYFLRIDLVKSNTSYIRKRNEPSGFGLIGDNKSDR--INPFFSIHSKGKIQQSLSQN 715
Query: 897 HGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGIKEE-INQFKRNHKIPIKISL 955
HGTIRMLLNRNKE RS+IILSSSNCFQM PFNN K HNGIK++ I N
Sbjct: 716 HGTIRMLLNRNKECRSWIILSSSNCFQMRPFNNEKSHNGIKKDPIISINNN--------- 766
Query: 956 GPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVIKYYLMDENERIYKPDLY 1015
GPLG+A Q+ANF+S YHLITHN+IS I KNLQL+K E FQVIKYYLMDEN++I KPDLY
Sbjct: 767 GPLGIALQVANFYSLYHLITHNQISII-KNLQLDKLTEIFQVIKYYLMDENDKICKPDLY 825
Query: 1016 NNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPN--LKSGQVITVQM 1073
+NIILNPFHLNW F+H YCEKTF ISLGQFICEN+CI Q KN P+ LKSGQVI VQM
Sbjct: 826 SNIILNPFHLNWFFLHHFYCEKTFTRISLGQFICENICIAQMKNRPHLKLKSGQVIIVQM 885
Query: 1074 DFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVR 1133
D V IR ANPYLATPGATIHGHYGE+L +GDILVTFIYEKSRSGDITQGLPKVEQ+LE+R
Sbjct: 886 DSVIIRSANPYLATPGATIHGHYGEILSQGDILVTFIYEKSRSGDITQGLPKVEQILEIR 945
Query: 1134 SIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHI 1193
SIDSISMNLEKRIDAWNE IT I+GIPW FLIGAELTIAQSRISLVNKIQ+VYRSQGVHI
Sbjct: 946 SIDSISMNLEKRIDAWNECITKIIGIPWGFLIGAELTIAQSRISLVNKIQKVYRSQGVHI 1005
Query: 1194 HNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITK 1253
HNRHIEIIVRQITSKVLVSEDGMSN+F PGELIGLLRA+RTGRALEE+ICYR LLLG+TK
Sbjct: 1006 HNRHIEIIVRQITSKVLVSEDGMSNIFLPGELIGLLRAERTGRALEEAICYRALLLGVTK 1065
Query: 1254 TSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSS 1313
TSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+VLGG+IPVGTGFK+I RS
Sbjct: 1066 TSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVVLGGMIPVGTGFKRIMHRSR 1125
Query: 1314 ARQDTKIT 1321
+RQ KIT
Sbjct: 1126 SRQHNKIT 1133
>gi|11466681 rpoC2 [Marchantia polymorpha]
sp|P06274|RPOD_MARPO DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||RNLVC2 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - liverwort
(Marchantia polymorpha) chloroplast
emb|CAA28063.1| (X04465) rpoC2 [Marchantia polymorpha]
Length = 1386
Score = 1269 bits (3248), Expect = 0.0
Identities = 694/1356 (51%), Positives = 929/1356 (68%), Gaps = 80/1356 (5%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAE NL+F+NKV+ TAIK++ISRLI HFG+ YT+HILDQ+KTLGF+QAT +ISLGID
Sbjct: 1 MAEPVNLIFYNKVMDRTAIKQLISRLIAHFGITYTTHILDQLKTLGFQQATFGAISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLT PSK WL++DAEQ + EKHH+YG++HAVEKLRQ IE WYATSEYL+QEMNPNF
Sbjct: 61 DLLTAPSKSWLIEDAEQYGNLSEKHHNYGSLHAVEKLRQLIETWYATSEYLKQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPVH+MSFSGARG+ SQVHQLVGMRGLMSDPQGQ+IDLPIQSN REGLSLTEYII
Sbjct: 121 ITDPLNPVHMMSFSGARGSTSQVHQLVGMRGLMSDPQGQIIDLPIQSNFREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR+ DCGT+ GI+VN N +
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRKVDCGTLYGINVN--NLSEKKNNF 238
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
Q LIGRV+A++IYI RCI RNQDIG L NR I +T+ IF+R+P TC++ +WIC+L
Sbjct: 239 QQKLIGRVIAENIYIDHRCIAPRNQDIGALLANRLITLKTKQIFLRSPLTCKSMNWICQL 298
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYG S HGNL+E+GEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG AE+VR+P NG I
Sbjct: 299 CYGWSLSHGNLIEMGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGDIAEHVRTPFNGII 358
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQII 420
+FNEN YPTRTRHGHPA++C+ +L++ I+S + +HN+ IPPKS LLVQN+QYV+S+Q+I
Sbjct: 359 EFNENFVYPTRTRHGHPAWMCHTNLFLVIKSKNKVHNLTIPPKSLLLVQNNQYVESKQVI 418
Query: 421 AEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGN 480
AEIRA T KEKV+K+I+S+ EGEMHWST + H SE+ +SN+H++ KT H+WILSGN
Sbjct: 419 AEIRAKTSP--FKEKVQKYIYSNLEGEMHWSTKVRHASEYIHSNIHLILKTCHIWILSGN 476
Query: 481 SH-KSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVRLCPDHCH-------FMHP 532
H K++ +S+ K+QD++ T ++N +F+ + Q+ L H + F+
Sbjct: 477 FHKKNNDLSVLFYKNQDKIDFPISLTKEKNEFSFVKNKTQLNLFLFHFYLYKKNKIFIKS 536
Query: 533 TISPDTSNLLAKKRRNRFIIP---------FLFRSIRERNNELMPDISVEIPIDGIIHKN 583
++ + N + + FI+ F F +N L + ++I +G++ N
Sbjct: 537 QLTNNILNKINNSKNYNFILQEYNIKKKKNFYFL----KNKNLTCPLFLKIKKNGVLKNN 592
Query: 584 SILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQ-IKVDRFFFIP 642
I A DDP Y+ ++SGI KY I + I Q + E + F+P+Y IK FFFIP
Sbjct: 593 EIFAILDDPSYKVKNSGILKYGNIKVDLINQNTN-FEDPQTKLFRPRYSIIKEGNFFFIP 651
Query: 643 QEVHILSES-SSIMVRNNSIIGVNTPITLNKKSRVGGLVRVE-KNKKKIELKIFSGDIHF 700
+EV++L++S SS+ ++NN I T IT N +S GLV+++ K ELKI G I++
Sbjct: 652 EEVYVLTQSLSSVFIKNNKFIQAGTLITSNIRSNTNGLVKIQKKGNNNYELKILPGTIYY 711
Query: 701 PGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIA 760
P E KIS+ +ILIPP K N E K NW Y+QWI +K+K FVL+RP + Y I+
Sbjct: 712 PNETYKISKQISILIPPGK-KLFNEFECK---NWTYLQWIMPSKEKPFVLIRPAVEYKIS 767
Query: 761 DSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEK 820
+N LF DL K+ +E+K +N++LY + + I+ I + +IQL++TCL+++W +K
Sbjct: 768 KKLNKSTLF--DLLKKNKKVEIKTINYLLYEDDEQIQIINEKNIQLIQTCLLVHW---KK 822
Query: 821 SSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININP 880
+EA SF+++ T + FL+I L++ + + +K+ S ++ N D
Sbjct: 823 KYFFKEANVSFLKIKTKNNFKTFLQISLIE-YSNLEKKKEKTISKNVLKKNYYDH----- 876
Query: 881 FFSIYKENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGIKEEI 940
FFSI K ++ ++K G IR++ N+N +SFIILSSS+ + F + + IK
Sbjct: 877 FFSISKNELK---NKKQGVIRIISNQNNGMQSFIILSSSDLVKTFKFKKLTKNISIKTNT 933
Query: 941 N-------QFKRNHKIPIK------------------ISLGPLGVAPQI-ANFFSFYHLI 974
N +F +N KI K LG LG I N FS ++LI
Sbjct: 934 NTSTAKFFEFNKNFKILNKKKKLNLTKKNFSIGLLLFKKLGFLGNLHNIVTNSFSSFYLI 993
Query: 975 THNKISSIKKNLQLNKFKETFQVIKYYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNY 1034
+ K+ S K ++ + KF+ T Q K+YL+DE+++I K L +I N F NW F +
Sbjct: 994 NYTKLISNKYSI-ITKFQHTCQNPKWYLIDESKKINKLILGKHINYNLF--NWCFPLFSL 1050
Query: 1035 CEK--TFPIISLGQFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATI 1092
+K F I LGQ + EN I + K + SGQ+I++ +++ IRLA PYLAT GATI
Sbjct: 1051 LKKKIDFQTIKLGQLLFENFVISKYKT--SYPSGQIISININYFIIRLAKPYLATGGATI 1108
Query: 1093 HGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNER 1152
H +YGE + EGD L+T IYE+ +SGDI QGLPKVEQ+LE R I+S+S+NLE + WN
Sbjct: 1109 HNNYGEFIKEGDTLITLIYERLKSGDIIQGLPKVEQLLEARPINSVSINLENGFEDWNND 1168
Query: 1153 ITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVS 1212
+ +G W F + ++++ Q +I+LV++IQ+VY+SQGV I N+HIEIIVRQ+TSKV+
Sbjct: 1169 MIKFIGNLWGFFLSTKISMEQGQINLVDQIQKVYQSQGVQISNKHIEIIVRQMTSKVITL 1228
Query: 1213 EDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETAR 1272
EDGM+NVF PGELI R Q+ RALEE++ Y+ +LLGITK SLNTQSFISEASFQET R
Sbjct: 1229 EDGMTNVFLPGELIEFSRTQKMNRALEEAVPYKPILLGITKASLNTQSFISEASFQETTR 1288
Query: 1273 VLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKI 1308
VLAKAAL+GRIDWLKGLKEN++LGG++P GTG +++
Sbjct: 1289 VLAKAALKGRIDWLKGLKENVILGGLVPAGTGSQEV 1324
>prf||1211235K rpoC-like ORF 862 [Nicotiana tabacum]
Length = 862
Score = 1129 bits (2888), Expect = 0.0
Identities = 582/812 (71%), Positives = 673/812 (82%), Gaps = 18/812 (2%)
Query: 522 LCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--DISVEIPIDGI 579
+C + ++ I + S+LL+K+RRN+FIIP SI+E NELMP IS+EIP++GI
Sbjct: 21 ICAGQYNLVYSPILHENSDLLSKRRRNKFIIPL--HSIQELENELMPCSGISIEIPVNGI 78
Query: 580 IHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFF 639
+NSILAYFDDP+YR +SSGI KY T+ HS+ +KEDL+EYRG++EF+PKYQ+KVDRFF
Sbjct: 79 FRRNSILAYFDDPRYRRKSSGIIKYGTVETHSVIKKEDLLEYRGVKEFRPKYQMKVDRFF 138
Query: 640 FIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIH 699
FIP+EVHIL SSSIMVRNNSI+GV+T ITLN +SRVGGLVRVE+ KK+IELKIFSGDIH
Sbjct: 139 FIPEEVHILPGSSSIMVRNNSIVGVDTQITLNLRSRVGGLVRVERKKKRIELKIFSGDIH 198
Query: 700 FPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDI 759
FPGE DKIS+H+ +LIPP K+NSKESKK NW Y+Q IT +KKK+FVLVRPV+ Y+I
Sbjct: 199 FPGETDKISRHTGVLIPPG-TGKRNSKESKKVKNWIYVQRITPSKKKFFVLVRPVVTYEI 257
Query: 760 ADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDE 819
D INL LFP D +E DN++L+++N+ILYGNGK IRGI DTSIQLVRTCLVLNWN+D+
Sbjct: 258 TDGINLATLFPPDPLQERDNVQLRIVNYILYGNGKPIRGISDTSIQLVRTCLVLNWNQDK 317
Query: 820 KSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININ 879
KSSS EEA ASFVE+ TNGLIR+FLRI+LVKS ISYI KRNDPS SGL+S N SD NIN
Sbjct: 318 KSSSCEEARASFVEIRTNGLIRHFLRINLVKSPISYIGKRNDPSGSGLLSDNGSDCTNIN 377
Query: 880 PFFSIY---KENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGI 936
PF SIY K IQQS++Q GTI LLNRNKE +S IILS++NC +MGPF +VKYH+ I
Sbjct: 378 PFSSIYSYSKAKIQQSINQPQGTIHTLLNRNKECQSLIILSAANCSRMGPFKDVKYHSVI 437
Query: 937 KEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQ 996
K+ I K++ IPI+ SLGPLG + I NF+S YHLITHN+I + LQL+ K+TFQ
Sbjct: 438 KKSI---KKDPLIPIRNSLGPLGTSLPIENFYSSYHLITHNQIL-VTNYLQLDNLKQTFQ 493
Query: 997 VIK--YYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCI 1054
VIK YYLMDEN +I+ PD NIILNPF+LNW F+H NYCE+T IISLGQFICENVCI
Sbjct: 494 VIKFKYYLMDENGKIFNPDPCRNIILNPFNLNWYFLHHNYCEETSKIISLGQFICENVCI 553
Query: 1055 VQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKS 1114
KNGP LKSGQVI VQ+D + IR A PYLATPGAT+HGHYGE LYEGD LVTFIYEKS
Sbjct: 554 A--KNGPPLKSGQVILVQVDSIVIRSAKPYLATPGATVHGHYGETLYEGDTLVTFIYEKS 611
Query: 1115 RSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQS 1174
RSGDITQGLPKVEQVLEVRS+DSISMNLEKRI+ WN+ IT ILGIPW FLIGAELTIAQS
Sbjct: 612 RSGDITQGLPKVEQVLEVRSVDSISMNLEKRIEGWNKCITRILGIPWGFLIGAELTIAQS 671
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
RISLVNKIQ+VYRSQGV IHNRH+EIIVRQITSKVLVSEDGMSNVFSPGELIGLLRA+R
Sbjct: 672 RISLVNKIQQVYRSQGVQIHNRHLEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAERM 731
Query: 1235 GRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
GRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+V
Sbjct: 732 GRALEEAICYRVVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVV 791
Query: 1295 LGGIIPVGTGFKKIGDRSSARQDTKITLETIK 1326
LGG+IPVGTGFK G ++Q I LET K
Sbjct: 792 LGGVIPVGTGFK--GLVHPSKQHNNIPLETKK 821
>pir||A05028 rpoC protein homolog - common tobacco chloroplast
Length = 862
Score = 1129 bits (2888), Expect = 0.0
Identities = 582/812 (71%), Positives = 673/812 (82%), Gaps = 18/812 (2%)
Query: 522 LCPDHCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMP--DISVEIPIDGI 579
+C + ++ I + S+LL+K+RRN+FIIP SI+E NELMP IS+EIP++GI
Sbjct: 21 ICAGQYNLVYSPILHENSDLLSKRRRNKFIIPL--HSIQELENELMPCSGISIEIPVNGI 78
Query: 580 IHKNSILAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFF 639
+NSILAYFDDP+YR +SSGI KY T+ HS+ +KEDL+EYRG++EF+PKYQ+KVDRFF
Sbjct: 79 FRRNSILAYFDDPRYRRKSSGIIKYGTVETHSVIKKEDLLEYRGVKEFRPKYQMKVDRFF 138
Query: 640 FIPQEVHILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIH 699
FIP+EVHIL SSSIMVRNNSI+GV+T ITLN +SRVGGLVRVE+ KK+IELKIFSGDIH
Sbjct: 139 FIPEEVHILPGSSSIMVRNNSIVGVDTQITLNLRSRVGGLVRVERKKKRIELKIFSGDIH 198
Query: 700 FPGEIDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDI 759
FPGE DKIS+H+ +LIPP K+NSKESKK NW Y+Q IT +KKK+FVLVRPV+ Y+I
Sbjct: 199 FPGETDKISRHTGVLIPPG-TGKRNSKESKKVKNWIYVQRITPSKKKFFVLVRPVVTYEI 257
Query: 760 ADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDE 819
D INL LFP D +E DN++L+++N+ILYGNGK IRGI DTSIQLVRTCLVLNWN+D+
Sbjct: 258 TDGINLATLFPPDPLQERDNVQLRIVNYILYGNGKPIRGISDTSIQLVRTCLVLNWNQDK 317
Query: 820 KSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININ 879
KSSS EEA ASFVE+ TNGLIR+FLRI+LVKS ISYI KRNDPS SGL+S N SD NIN
Sbjct: 318 KSSSCEEARASFVEIRTNGLIRHFLRINLVKSPISYIGKRNDPSGSGLLSDNGSDCTNIN 377
Query: 880 PFFSIY---KENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGI 936
PF SIY K IQQS++Q GTI LLNRNKE +S IILS++NC +MGPF +VKYH+ I
Sbjct: 378 PFSSIYSYSKAKIQQSINQPQGTIHTLLNRNKECQSLIILSAANCSRMGPFKDVKYHSVI 437
Query: 937 KEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQ 996
K+ I K++ IPI+ SLGPLG + I NF+S YHLITHN+I + LQL+ K+TFQ
Sbjct: 438 KKSI---KKDPLIPIRNSLGPLGTSLPIENFYSSYHLITHNQIL-VTNYLQLDNLKQTFQ 493
Query: 997 VIK--YYLMDENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCI 1054
VIK YYLMDEN +I+ PD NIILNPF+LNW F+H NYCE+T IISLGQFICENVCI
Sbjct: 494 VIKFKYYLMDENGKIFNPDPCRNIILNPFNLNWYFLHHNYCEETSKIISLGQFICENVCI 553
Query: 1055 VQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKS 1114
KNGP LKSGQVI VQ+D + IR A PYLATPGAT+HGHYGE LYEGD LVTFIYEKS
Sbjct: 554 A--KNGPPLKSGQVILVQVDSIVIRSAKPYLATPGATVHGHYGETLYEGDTLVTFIYEKS 611
Query: 1115 RSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQS 1174
RSGDITQGLPKVEQVLEVRS+DSISMNLEKRI+ WN+ IT ILGIPW FLIGAELTIAQS
Sbjct: 612 RSGDITQGLPKVEQVLEVRSVDSISMNLEKRIEGWNKCITRILGIPWGFLIGAELTIAQS 671
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
RISLVNKIQ+VYRSQGV IHNRH+EIIVRQITSKVLVSEDGMSNVFSPGELIGLLRA+R
Sbjct: 672 RISLVNKIQQVYRSQGVQIHNRHLEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAERM 731
Query: 1235 GRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
GRALEE+ICYR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+V
Sbjct: 732 GRALEEAICYRVVLLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVV 791
Query: 1295 LGGIIPVGTGFKKIGDRSSARQDTKITLETIK 1326
LGG+IPVGTGFK G ++Q I LET K
Sbjct: 792 LGGVIPVGTGFK--GLVHPSKQHNNIPLETKK 821
>dbj|BAA78042.1| (AB027572) RNA polymerase subunit beta [Triticum aestivum]
Length = 1479
Score = 910 bits (2325), Expect = 0.0
Identities = 449/616 (72%), Positives = 523/616 (84%), Gaps = 19/616 (3%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GT +KR+ISRLIDHFGM YTSHILDQ+KTLGF QATTTSISLGI+
Sbjct: 1 MAERANLVFHNKEIDGTGMKRLISRLIDHFGMGYTSHILDQLKTLGFHQATTTSISLGIE 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQS +LEKH++YG VHAVEKLRQS+EIWYATSEYL+QEMN NF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSFLLEKHYYYGAVHAVEKLRQSVEIWYATSEYLKQEMNSNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPV++MSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 ITDPSNPVYLMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+VRR DCGT+RGISV+ +N M+E++
Sbjct: 181 SCYGARKGVVDTAVRTADAGYLTRRLVEVVQHIIVRRRDCGTIRGISVSPQNG-MTEKLF 239
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFIN------FQTQPIFIRTPFTCRNT 294
+QTLIGRVLADDIYIGSRCI RNQDIGIGL+NRFI F+ QPI+IRTPFTCR+T
Sbjct: 240 VQTLIGRVLADDIYIGSRCIAARNQDIGIGLVNRFITAFRAQPFRAQPIYIRTPFTCRST 299
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRS 354
SWIC+LCYGRSP H +LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTA+ VRS
Sbjct: 300 SWICQLCYGRSPTHSDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTADLVRS 359
Query: 355 PSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYV 414
PSNGKIKFNEN +PTRTRHG PAFLCYIDL+VTI+S DI+++V IP KS +LVQNDQYV
Sbjct: 360 PSNGKIKFNENLVHPTRTRHGQPAFLCYIDLHVTIQSQDILYSVNIPSKSLILVQNDQYV 419
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL 474
KSEQ+IAEIRAGT TL+ KE+V+KHI+S+S+GEMHWST++YH E+ Y N+ LPKTSHL
Sbjct: 420 KSEQVIAEIRAGTSTLHFKERVQKHIYSESDGEMHWSTDVYHAPEYQYGNLRRLPKTSHL 479
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAK---RNTSNFLVSNNQVRLCPDHCHFMH 531
WILS + +S S SL KDQDQM+T+ + +TS+ ++SN H +F++
Sbjct: 480 WILSVSMCRSSIASFSLHKDQDQMNTYGKKDREILDYSTSDRIMSNG-------HWNFIY 532
Query: 532 PTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDD 591
P+I D S+LLAKKRRNRF+IP + +E+ IS+EIP+ G++ +N+I AYFDD
Sbjct: 533 PSIFQDNSDLLAKKRRNRFVIPLQYHQEQEKELISCFGISIEIPLMGVLRRNTIFAYFDD 592
Query: 592 PQYR--TQSSGIAKYK 605
P+YR + SGI K++
Sbjct: 593 PRYRKDKKGSGIVKFR 608
Score = 811 bits (2072), Expect = 0.0
Identities = 449/730 (61%), Positives = 545/730 (74%), Gaps = 30/730 (4%)
Query: 603 KYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSSIMVRNNSII 662
+Y++ SI +KE LIE+RG +EF KYQ +VDRFFFI QE+HIL SSS+ + +NSII
Sbjct: 742 EYESPEEDSILKKEGLIEHRGTKEFSLKYQKEVDRFFFILQELHILPRSSSLKILDNSII 801
Query: 663 GVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQHSAILIPPEMVKK 722
GV+T +T N +SR+GGLVRV++ K ELKIFSGDIHFP E DKI LIPPE +K
Sbjct: 802 GVDTQLTKNTRSRLGGLVRVKRKKSHTELKIFSGDIHFPEEADKIL--GGCLIPPER-QK 858
Query: 723 KNSKESKKKTNWRYIQW--ITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFKEWDNL 780
K+SKESKK+ NW Y+Q I +K+KYFV VRP + Y++ + NL LFPQDL +E +NL
Sbjct: 859 KDSKESKKRKNWVYVQRKKILKSKEKYFVSVRPTVAYEMDEGRNLATLFPQDLLQEENNL 918
Query: 781 ELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVSTNGLI 840
+++++NFI + N K + I T+ Q VRTCLV+NW ++EK E+A AS VEV N LI
Sbjct: 919 QIRLVNFISHENSKLTQRIYHTNSQFVRTCLVVNWEQEEK----EKAGASLVEVRANDLI 974
Query: 841 RYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININPFFSIYKENIQQSLSQKHGTI 900
R FLRI+LVKS ISY RKR D +S+G I +N DR NIN F+S K +SLSQ I
Sbjct: 975 RDFLRIELVKSTISYTRKRYDRTSAGPIPHNRLDRANINSFYSKAKI---ESLSQHPEAI 1031
Query: 901 RMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGIKEEINQFKRNHKIPIKISLGPLG- 959
LLNRNKE S +ILS+SNC ++G F N K+ N IKE N +IPI+ GPLG
Sbjct: 1032 GTLLNRNKEYHSLMILSASNCSRIGLFKNSKHPNAIKEW------NPRIPIREIFGPLGA 1085
Query: 960 VAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVI---KYYLMDENERIYKPDLYN 1016
+ I++F S Y+L+THNKI +KK L ++ K+TFQV+ KY L+DEN+RI D +
Sbjct: 1086 IVASISHFSSSYYLLTHNKIL-LKKYLFVDNLKQTFQVLQELKYSLIDENKRISNFD--S 1142
Query: 1017 NIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPNLKSGQVITVQMDFV 1076
NI+L+PF LN F+H + E+T II LGQFICENVC+ ++ KSGQ+ V M+
Sbjct: 1143 NIMLDPFLLNCHFVHHDSWEETLAIIHLGQFICENVCLFKSHIK---KSGQIFIVNMNSF 1199
Query: 1077 GIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSID 1136
IR A PYLAT GAT++GHYGE+LY+GD LVTFIYEKSRS DITQGLPKVEQ+ E RSID
Sbjct: 1200 VIRAAKPYLATTGATVNGHYGEILYKGDRLVTFIYEKSRSSDITQGLPKVEQIFEARSID 1259
Query: 1137 SISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNR 1196
S+S NLE+RI+ WNERI ILG+PW FLIGAELTIAQSRISLVNKIQ+VYRSQGV IHNR
Sbjct: 1260 SLSPNLERRIEDWNERIPRILGVPWGFLIGAELTIAQSRISLVNKIQKVYRSQGVQIHNR 1319
Query: 1197 HIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSL 1256
HIEII+RQ+TSKV VSEDGMSNVFSPGELIGLLRA+R GRAL+ESI YR +LLGIT+ SL
Sbjct: 1320 HIEIIIRQVTSKVRVSEDGMSNVFSPGELIGLLRAERAGRALDESIYYRAILLGITRASL 1379
Query: 1257 NTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSARQ 1316
NTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+VLGGIIPVGTGF+K RS Q
Sbjct: 1380 NTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVVLGGIIPVGTGFQKFVHRSP--Q 1437
Query: 1317 DTKITLETIK 1326
D + E K
Sbjct: 1438 DKNLYFEIKK 1447
>gi|11467184 RNA polymerase beta' subunit-2 [Zea mays]
sp|P16025|RPOD_MAIZE DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||RNZMB2 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - maize
chloroplast
emb|CAA35197.1| (X17318) RNA polymerase beta-2 subunit (AA 1-1527) [Zea mays]
emb|CAA60278.1| (X86563) RNA polymerase beta' subunit-2 [Zea mays]
Length = 1527
Score = 903 bits (2307), Expect = 0.0
Identities = 450/653 (68%), Positives = 532/653 (80%), Gaps = 33/653 (5%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGM YTSHILDQ+KTLGF QATTTSISLGI+
Sbjct: 1 MAERANLVFHNKEIDGTAMKRLISRLIDHFGMGYTSHILDQIKTLGFHQATTTSISLGIE 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQS +LEKH++YG +HAVEKLRQS+EIWYATSEYL+QEMN NF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSFLLEKHYYYGAIHAVEKLRQSVEIWYATSEYLKQEMNSNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPV++MSFSGARGNASQVHQLVGMRGLM+DPQGQMI LPIQSNLREGLSLTEYII
Sbjct: 121 ITDPSNPVYLMSFSGARGNASQVHQLVGMRGLMADPQGQMIHLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+VRR DCGT++GISV+ +N M+E++
Sbjct: 181 SCYGARKGVVDTAVRTADAGYLTRRLVEVVQHIIVRRRDCGTIQGISVSPQNG-MTEKLF 239
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFIN------FQTQPIFIRTPFTCRNT 294
+QTLIGRVLADDIYIGSRCI RNQDIGIGL+NRFI F+ QPI+IRTPFTCR+T
Sbjct: 240 VQTLIGRVLADDIYIGSRCIASRNQDIGIGLVNRFITAFRAQPFRAQPIYIRTPFTCRST 299
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRS 354
SWIC+LCYGRSP HG+LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTA+ +RS
Sbjct: 300 SWICQLCYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTADLIRS 359
Query: 355 PSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYV 414
PSNGKI+FNE+ +PTRTRHG PAFLCYIDL+VTI+S DI+H+V IP KS +LVQNDQYV
Sbjct: 360 PSNGKIQFNEDLVHPTRTRHGQPAFLCYIDLHVTIQSQDILHSVNIPLKSLILVQNDQYV 419
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL 474
+SEQ+IAEIRAGT TL+ KEKV+KHI+S+S+GEMHWST++YH E+ Y N+ LPKTSHL
Sbjct: 420 ESEQVIAEIRAGTSTLHFKEKVQKHIYSESDGEMHWSTDVYHAPEYQYGNLRRLPKTSHL 479
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR------------- 521
WILS + +S S SL KDQDQM+T+S R +F ++N+QV
Sbjct: 480 WILSVSMCRSSIASFSLHKDQDQMNTYSFSVDGRYIFDFSMANDQVSHRLLDTFGKKDRE 539
Query: 522 ----LCPD------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDIS 571
L PD H + +P+I D S+LLAKKRRNR ++P + +E+ IS
Sbjct: 540 ILDYLTPDRIVFNGHWNCFYPSILQDNSDLLAKKRRNRLVVPLQYHQEQEKERISCLGIS 599
Query: 572 VEIPIDGIIHKNSILAYFDDPQYR--TQSSGIAKYKTIGIHSIFQKEDLIEYR 622
+EIP G++ +N+I AYFDDP+YR + SGI K++ + ++ ++ EYR
Sbjct: 600 MEIPFMGVLRRNTIFAYFDDPRYRKDKRGSGIVKFRYRTLEEEYRTQE-EEYR 651
Score = 818 bits (2089), Expect = 0.0
Identities = 454/743 (61%), Positives = 544/743 (73%), Gaps = 30/743 (4%)
Query: 590 DDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILS 649
+D + ++ +Y + SI +KE IE+RG +EF KYQ +VDRFFFI QE+HIL
Sbjct: 766 EDSEEDSEEDSEDEYGSPEEDSILKKEGFIEHRGTKEFSLKYQKEVDRFFFILQELHILP 825
Query: 650 ESSSIMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQ 709
SSS+ V +NSIIGV+T +T N +SR+GGLVRV++ K ELKIFSGDIHFP E DKI
Sbjct: 826 RSSSLKVLDNSIIGVDTQLTKNTRSRLGGLVRVKRKKSHTELKIFSGDIHFPEEADKILG 885
Query: 710 HSAILIPPEMVKKKNSKESKKKTNWRYIQW--ITTTKKKYFVLVRPVILYDIADSINLVK 767
S LIPPE +KK+SKESKK+ NW Y+Q +K+KYFV VRP + Y++ + INL
Sbjct: 886 GS--LIPPER-EKKDSKESKKRKNWVYVQRKKFLKSKEKYFVSVRPAVAYEMDEGINLAT 942
Query: 768 LFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEA 827
LFPQDL +E DNL+L+++NFI + N K + I T+ Q VRTCLV+NW ++EK E A
Sbjct: 943 LFPQDLLQEEDNLQLRLVNFISHENSKLTQRIYHTNSQFVRTCLVVNWEQEEK----EGA 998
Query: 828 LASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININPFFSIYKE 887
AS VEV TN LIR FLRI+LVKS I Y R+R D +S GLI N DR N N F+S K
Sbjct: 999 RASLVEVKTNDLIRDFLRIELVKSTILYTRRRYDRTSVGLIPNNRLDRNNTNSFYSKAKI 1058
Query: 888 NIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGIKEEINQFKRNH 947
QSLSQ I LLNRNKE S +IL +SNC ++G F N KY N +KE N
Sbjct: 1059 ---QSLSQHQEVIGTLLNRNKEYPSLMILLASNCSRIGLFKNSKYPNAVKES------NP 1109
Query: 948 KIPIKISLGPLGV-APQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVI---KYYLM 1003
+IPI+ G LGV P I+NF S Y+L+THN+I +KK L L+ K+T QV+ KY L+
Sbjct: 1110 RIPIRDIFGLLGVIVPSISNFSSSYYLLTHNQIL-LKKYLFLDNLKQTLQVLQGLKYSLI 1168
Query: 1004 DENERIYKPDLYNNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPNL 1063
DEN+RI D +NI+L PFHLNW F+H + E+T II LGQFICEN+C+ +
Sbjct: 1169 DENKRISNFD--SNIMLEPFHLNWHFLHHDSWEETLAIIHLGQFICENLCLFKLHIK--- 1223
Query: 1064 KSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGL 1123
KSGQ+ V MD +R A PYLAT GAT+HGHYG++LY+GD LVTFIYEKSRS DITQGL
Sbjct: 1224 KSGQIFIVNMDSFVLRAAKPYLATIGATVHGHYGKILYKGDRLVTFIYEKSRSSDITQGL 1283
Query: 1124 PKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQ 1183
PKVEQ+ E RSIDS+S NLE+RI+ WNERI ILG+PW FLIGAELTIAQSRISLVNKIQ
Sbjct: 1284 PKVEQIFEARSIDSLSPNLERRIEDWNERIPRILGVPWGFLIGAELTIAQSRISLVNKIQ 1343
Query: 1184 RVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESIC 1243
+VYRSQGV IHNRHIEII+RQ+TSKV VSEDGMSNVF PGELIGLLRA+R GRAL+ESI
Sbjct: 1344 KVYRSQGVQIHNRHIEIIIRQVTSKVRVSEDGMSNVFLPGELIGLLRAERAGRALDESIY 1403
Query: 1244 YRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGT 1303
YR +LLGIT+ SLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+VLGGIIPVGT
Sbjct: 1404 YRAILLGITRASLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVVLGGIIPVGT 1463
Query: 1304 GFKKIGDRSSARQDTKITLETIK 1326
GF+K RS QD + LE K
Sbjct: 1464 GFQKFVHRSP--QDKNLYLEIQK 1484
>prf||1603356R RNA polymerase beta'-2 [Oryza sativa]
Length = 1000
Score = 883 bits (2258), Expect = 0.0
Identities = 438/636 (68%), Positives = 519/636 (80%), Gaps = 32/636 (5%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVF NK I GTA+KR+ISRLIDHFGM YTSHILDQ+KTLGF QATTTSISLGI+
Sbjct: 1 MAERANLVFQNKEIDGTAMKRLISRLIDHFGMGYTSHILDQIKTLGFHQATTTSISLGIE 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQS +LEKH++YG VHAVEKLRQS+EIWYATSEYL+ EMN NF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSFLLEKHYYYGAVHAVEKLRQSVEIWYATSEYLKHEMNSNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPV++MSFSGARGNASQVHQLVGMRGLM+DPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 ITDPSNPVYLMSFSGARGNASQVHQLVGMRGLMADPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+VRR DCGT++ ISV+ +N M+E++
Sbjct: 181 SCYGARKGVVDTAVRTADAGYLTRRLVEVVQHIIVRRRDCGTIQAISVSPQNG-MTEKLF 239
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFIN------FQTQPIFIRTPFTCRNT 294
+QTLIGRVLA+DIYIGSRCI RNQDIGIGL+NRFI F+ QPI+IRTPFTCR+T
Sbjct: 240 VQTLIGRVLANDIYIGSRCIATRNQDIGIGLVNRFITTFRAQPFRAQPIYIRTPFTCRST 299
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRS 354
SWIC+LCYGRS HG+LVELGEAVG+IAGQSIGEPGTQLTLRTFHTGGVFTGGTA+ VRS
Sbjct: 300 SWICQLCYGRSSTHGDLVELGEAVGVIAGQSIGEPGTQLTLRTFHTGGVFTGGTADLVRS 359
Query: 355 PSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYV 414
PSNGKI+FN + +PTRTRHG PAFLCYIDL++TI+S DI+H+V IP KS +LVQNDQYV
Sbjct: 360 PSNGKIQFNGDLVHPTRTRHGQPAFLCYIDLHITIQSQDILHSVTIPSKSLILVQNDQYV 419
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL 474
+SEQ+IAEIRAGT L+ KEKV+KHI+S+S+GEMHWST++YH E+ Y N+ LPKTSHL
Sbjct: 420 ESEQVIAEIRAGTSALHFKEKVQKHIYSESDGEMHWSTDVYHAPEYQYGNLRRLPKTSHL 479
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR------------- 521
WILS + +S S SL KDQDQM+T+S R +++++VR
Sbjct: 480 WILSVSMCRSSIASFSLHKDQDQMNTYSFSVDGRYIFGLSMADDEVRHRLLDTFGKKDRE 539
Query: 522 ----LCPD------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDIS 571
PD H +F++P+I + +LLAKKRRNRF IP + +E+ IS
Sbjct: 540 ILDYSTPDRIMSNGHWNFVYPSILQNNFDLLAKKRRNRFAIPLQYHQEQEKEPISCFGIS 599
Query: 572 VEIPIDGIIHKNSILAYFDDPQYR--TQSSGIAKYK 605
+EIP G++ +N+I+AYFDDP+Y+ + SGI K++
Sbjct: 600 IEIPFMGVLRRNTIVAYFDDPRYKKDKKGSGIVKFR 635
Score = 257 bits (650), Expect = 6e-67
Identities = 140/240 (58%), Positives = 175/240 (72%), Gaps = 9/240 (3%)
Query: 611 SIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITL 670
S+ +K LIE+RG +EF KYQ +VDRFFFI QE+HIL SSS+ V +NSIIGV+T +T
Sbjct: 768 SVLKKGVLIEHRGTKEFSLKYQKEVDRFFFILQELHILPRSSSLKVLDNSIIGVDTQLTK 827
Query: 671 NKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKK 730
N +SR+GGLVRV++ K ELKIFSGDIHFP E DKI S LIP E +KK+SKESKK
Sbjct: 828 NTRSRLGGLVRVKRKKSHTELKIFSGDIHFPEEADKILGGS--LIPLER-EKKDSKESKK 884
Query: 731 KTNWRYIQW--ITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFKEWDNLELKVLNFI 788
+ NW Y+QW I +K+KYFVLVRP + Y++ + NL LFPQDLF+E NL+L+++NFI
Sbjct: 885 RENWVYVQWKKILKSKEKYFVLVRPAVAYEMNEGRNLATLFPQDLFEEEGNLQLRLVNFI 944
Query: 789 LYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDL 848
+ N K + I T+ Q VRTCLVLNW ++EK EEA AS VE+ NGLIR FLRI L
Sbjct: 945 SHENSKLTQRIYHTNSQFVRTCLVLNWEQEEK----EEARASLVEIRANGLIRDFLRIGL 1000
>gi|11466779 RNA polymerase beta' subunit-2 [Oryza sativa]
sp|P12093|RPOD_ORYSA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||RNRZC2 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - rice
chloroplast
emb|CAA33988.1| (X15901) RNA polymerase beta' subunit-2 [Oryza sativa]
Length = 1513
Score = 883 bits (2258), Expect = 0.0
Identities = 438/636 (68%), Positives = 519/636 (80%), Gaps = 32/636 (5%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVF NK I GTA+KR+ISRLIDHFGM YTSHILDQ+KTLGF QATTTSISLGI+
Sbjct: 1 MAERANLVFQNKEIDGTAMKRLISRLIDHFGMGYTSHILDQIKTLGFHQATTTSISLGIE 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQS +LEKH++YG VHAVEKLRQS+EIWYATSEYL+ EMN NF
Sbjct: 61 DLLTIPSKGWLVQDAEQQSFLLEKHYYYGAVHAVEKLRQSVEIWYATSEYLKHEMNSNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPV++MSFSGARGNASQVHQLVGMRGLM+DPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 121 ITDPSNPVYLMSFSGARGNASQVHQLVGMRGLMADPQGQMIDLPIQSNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+VRR DCGT++ ISV+ +N M+E++
Sbjct: 181 SCYGARKGVVDTAVRTADAGYLTRRLVEVVQHIIVRRRDCGTIQAISVSPQNG-MTEKLF 239
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFIN------FQTQPIFIRTPFTCRNT 294
+QTLIGRVLA+DIYIGSRCI RNQDIGIGL+NRFI F+ QPI+IRTPFTCR+T
Sbjct: 240 VQTLIGRVLANDIYIGSRCIATRNQDIGIGLVNRFITTFRAQPFRAQPIYIRTPFTCRST 299
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRS 354
SWIC+LCYGRS HG+LVELGEAVG+IAGQSIGEPGTQLTLRTFHTGGVFTGGTA+ VRS
Sbjct: 300 SWICQLCYGRSSTHGDLVELGEAVGVIAGQSIGEPGTQLTLRTFHTGGVFTGGTADLVRS 359
Query: 355 PSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYV 414
PSNGKI+FN + +PTRTRHG PAFLCYIDL++TI+S DI+H+V IP KS +LVQNDQYV
Sbjct: 360 PSNGKIQFNGDLVHPTRTRHGQPAFLCYIDLHITIQSQDILHSVTIPSKSLILVQNDQYV 419
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL 474
+SEQ+IAEIRAGT L+ KEKV+KHI+S+S+GEMHWST++YH E+ Y N+ LPKTSHL
Sbjct: 420 ESEQVIAEIRAGTSALHFKEKVQKHIYSESDGEMHWSTDVYHAPEYQYGNLRRLPKTSHL 479
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR------------- 521
WILS + +S S SL KDQDQM+T+S R +++++VR
Sbjct: 480 WILSVSMCRSSIASFSLHKDQDQMNTYSFSVDGRYIFGLSMADDEVRHRLLDTFGKKDRE 539
Query: 522 ----LCPD------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDIS 571
PD H +F++P+I + +LLAKKRRNRF IP + +E+ IS
Sbjct: 540 ILDYSTPDRIMSNGHWNFVYPSILQNNFDLLAKKRRNRFAIPLQYHQEQEKEPISCFGIS 599
Query: 572 VEIPIDGIIHKNSILAYFDDPQYR--TQSSGIAKYK 605
+EIP G++ +N+I+AYFDDP+Y+ + SGI K++
Sbjct: 600 IEIPFMGVLRRNTIVAYFDDPRYKKDKKGSGIVKFR 635
Score = 802 bits (2048), Expect = 0.0
Identities = 443/730 (60%), Positives = 540/730 (73%), Gaps = 35/730 (4%)
Query: 611 SIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSSIMVRNNSIIGVNTPITL 670
S+ +K LIE+RG +EF KYQ +VDRFFFI QE+HIL SSS+ V +NSIIGV+T +T
Sbjct: 768 SVLKKGVLIEHRGTKEFSLKYQKEVDRFFFILQELHILPRSSSLKVLDNSIIGVDTQLTK 827
Query: 671 NKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQHSAILIPPEMVKKKNSKESKK 730
N +SR+GGLVRV++ K ELKIFSGDIHFP E DKI S LIP E +KK+SKESKK
Sbjct: 828 NTRSRLGGLVRVKRKKSHTELKIFSGDIHFPEEADKILGGS--LIPLER-EKKDSKESKK 884
Query: 731 KTNWRYIQW--ITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFKEWDNLELKVLNFI 788
+ NW Y+QW I +K+KYFVLVRP + Y++ + NL LFPQDLF+E NL+L+++NFI
Sbjct: 885 RENWVYVQWKKILKSKEKYFVLVRPAVAYEMNEGRNLATLFPQDLFEEEGNLQLRLVNFI 944
Query: 789 LYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDL 848
+ N K + I T+ Q VRTCLVLNW ++EK EEA AS VE+ NGLIR FLRI L
Sbjct: 945 SHENSKLTQRIYHTNSQFVRTCLVLNWEQEEK----EEARASLVEIRANGLIRDFLRIGL 1000
Query: 849 VKSHISYIRKRNDPSSSGLISYNESDRININPFFSIYKENIQQSLSQKHGTIRMLLNRNK 908
+KS ISY RKR D S+GLI +N DR N N F+S K QSLSQ I LLNRNK
Sbjct: 1001 IKSTISYTRKRYDSRSAGLILHNRLDRTNTNSFYSKAKI---QSLSQHQEAIGTLLNRNK 1057
Query: 909 ENRSFIILSSSNCFQMGPFNNVKYHNGIKEEINQFKRNHKIPI-------KISLGPLG-V 960
E +S ++LS+SNC ++G F N K NG+KE N +IPI + G LG +
Sbjct: 1058 EYQSLMVLSASNCSRIGFFKNSKNPNGVKES------NPRIPIPKFWGLFRNFSGLLGTI 1111
Query: 961 APQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVI---KYYLMDENERIYKPDLYNN 1017
AP I+NF S Y+L+T+N+I +KK+L L+ K+ F+V+ K+ L++EN+R D +N
Sbjct: 1112 APSISNFSSSYYLLTYNQIL-LKKHLLLDNLKQNFKVLQGLKHSLINENQRTSNFD--SN 1168
Query: 1018 IILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPNLKSGQVITVQMDFVG 1077
I+L+PF LNW F+ + E+T I LGQFICENVC+ ++ KSGQ+ V +D
Sbjct: 1169 IMLDPFQLNWHFLPHDSWEETSAKIHLGQFICENVCLFKSHIK---KSGQIFIVNIDSFV 1225
Query: 1078 IRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDS 1137
IR A PYLAT GAT+HGHYGE+LY+GD LVTFIYEK+RS DITQGLPKVEQ+ E RSIDS
Sbjct: 1226 IRAAKPYLATTGATVHGHYGEILYKGDRLVTFIYEKARSSDITQGLPKVEQIFEARSIDS 1285
Query: 1138 ISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRH 1197
+S NLE+RI+ WNERI ILG PW FLIGAELTIAQSRISLVNKIQ+VYRSQGV IHNRH
Sbjct: 1286 LSPNLERRIEDWNERIPRILGGPWGFLIGAELTIAQSRISLVNKIQKVYRSQGVQIHNRH 1345
Query: 1198 IEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLN 1257
IEII+RQ+TSKV VSEDGMSNVFSPGELIGLLRA+R GRAL+ESI YR +LLGIT+ SLN
Sbjct: 1346 IEIIIRQVTSKVRVSEDGMSNVFSPGELIGLLRAERAGRALDESIYYRAILLGITRVSLN 1405
Query: 1258 TQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSARQD 1317
TQSFISEASFQETARVLAKAALRGRIDWLKGLKEN+VLGGIIPVGTGF+K R ++
Sbjct: 1406 TQSFISEASFQETARVLAKAALRGRIDWLKGLKENVVLGGIIPVGTGFQKFVHRYPQNKN 1465
Query: 1318 TKITLETIKI 1327
++ K+
Sbjct: 1466 LYFEIQKKKL 1475
>gi|7524613 RNA polymerase beta'' subunit [Pinus thunbergii]
sp|P41606|RPOD_PINTH DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||T07446 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - Japanese
black pine chloroplast
dbj|BAA04325.1| (D17510) RNA polymerase beta'' subunit [Pinus thunbergii]
Length = 1224
Score = 761 bits (1943), Expect = 0.0
Identities = 389/610 (63%), Positives = 460/610 (74%), Gaps = 29/610 (4%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
NL F+NKV+ TAIK++ISRLIDHFGM YTSHILDQ+KT GF+QAT T+ISLGIDDLLT
Sbjct: 19 NLPFYNKVMDKTAIKKLISRLIDHFGMTYTSHILDQLKTSGFQQATDTAISLGIDDLLTA 78
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
PSKGWLVQDAEQQ + EK +HYGNVHAVEKLRQSIEIWYATSEYLR+EMNPNFSMTDP
Sbjct: 79 PSKGWLVQDAEQQGSVSEKQNHYGNVHAVEKLRQSIEIWYATSEYLRKEMNPNFSMTDPL 138
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NPVH+MSFSGARG+ SQVHQLVGMRGLMSDPQGQ+IDLPI+ NLREGLSLTEYIISCYGA
Sbjct: 139 NPVHVMSFSGARGSTSQVHQLVGMRGLMSDPQGQIIDLPIRRNLREGLSLTEYIISCYGA 198
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT---RNRMMSERIL-I 241
RKGVVDTAVRT+DAGYLTRRLVEVVQHIVVRRTDCGT++GI V+ R R +E ++
Sbjct: 199 RKGVVDTAVRTADAGYLTRRLVEVVQHIVVRRTDCGTIQGIFVSPIRGRERDRNEIVVRT 258
Query: 242 QTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLC 301
Q LIGRVLADD+YI RCI RNQDIG+GL N+ IN +TQPI+IRTPFTC++ S IC+LC
Sbjct: 259 QILIGRVLADDVYINRRCIATRNQDIGVGLANQLINLRTQPIYIRTPFTCKSISRICQLC 318
Query: 302 YGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIK 361
YGRS H +L+ELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG AE++R+P NGKI+
Sbjct: 319 YGRSTTHSHLIELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGDIAEHIRAPFNGKIE 378
Query: 362 FNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIA 421
FNEN YPTRTR+GHPA+LC+ +L +TI+ D + N+ IPP+S LLVQNDQYV+SEQ+IA
Sbjct: 379 FNENLVYPTRTRNGHPAYLCHNNLSITIDGQDQVQNLTIPPQSLLLVQNDQYVESEQLIA 438
Query: 422 EIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGNS 481
E+RA T + KEKVRK+I+SD EGEMHWSTN+ H E+ NVH + +T +LWILSG
Sbjct: 439 EVRA--RTSSFKEKVRKNIYSDLEGEMHWSTNVCHAPEYVQGNVHPILRTGYLWILSGGI 496
Query: 482 HKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVRLCPDHCHFMHP--------- 532
+ S V K QDQ+ ++ S+ V + R +C+
Sbjct: 497 YGSRVVPFPFHKYQDQVYVQPFVAKHQSLSDSYVDQVEHRSGDSNCYEKEEQIFSYSETE 556
Query: 533 ---TIS-----------PDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDG 578
TIS P+ N+ KK+ NRFI+ E+ PD + IP G
Sbjct: 557 TDRTISNKHRDSIYVFYPNNYNIKGKKQMNRFIVSLQCDKEWEKKIIPCPDAILRIPKSG 616
Query: 579 IIHKNSILAY 588
I+ +NSI Y
Sbjct: 617 ILQRNSIFGY 626
Score = 461 bits (1173), Expect = e-128
Identities = 270/555 (48%), Positives = 362/555 (64%), Gaps = 25/555 (4%)
Query: 757 YDIADSINLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWN 816
+ I D N+ F DL +E DNL++++ I Y +G+ I+ + D SI LVRTC+ +W
Sbjct: 631 HGIPDGSNMTTPFSLDLSREGDNLQIQISYSISYEDGERIQVMSDISIPLVRTCIGFDW- 689
Query: 817 EDEKSSSIE-EALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDR 875
E+ SIE EA S + V TN ++ ++I L+K ++ +R++ +S L+ +N D
Sbjct: 690 --EQIDSIESEAYVSLISVRTNKIVNNMVQISLMKYPPFFMGRRDNKTSPNLMFHNNLDH 747
Query: 876 ININPFFSIYKENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNNVK-YHN 934
N+ + Q +S+ G I L N +++ SF++LS S+ F++ FN+ K Y
Sbjct: 748 TNL-----LSSNGASQLISKHQGIICSLSNGEEDSGSFMVLSPSDYFRIVLFNDSKCYDT 802
Query: 935 GIKEEINQFKRNHKIPIKISL---GPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKF 991
G NQ N K P++ + G LG I N F H +T+ K+ S K ++ N F
Sbjct: 803 G-----NQ--SNRKDPMRKIIEFSGLLGNLHSITNRFPSSHFLTYKKVLSKKHSIFHNSF 855
Query: 992 KETFQVIKYYLMDENERIYKPDLYNNIILNPFHLNW--DFIHPNYCEKTFPIISLGQFIC 1049
TFQV KYY MDEN IY D NII N NW +CEKTFP++SLGQ I
Sbjct: 856 N-TFQVPKYYFMDENMIIYHFDPCRNIISNLLGPNWCSSSSESEFCEKTFPVVSLGQLIP 914
Query: 1050 ENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTF 1109
E+V I +++ P +SGQ+I V + + IR A PYLAT AT+H HYG++L +GD L+T
Sbjct: 915 ESVWI--SEDEPLPESGQIIAVDEESLVIRSAKPYLATRKATVHSHYGKILDKGDTLITL 972
Query: 1110 IYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAEL 1169
IYE+ +S DI QGLPKVEQ+ E R +SISMNL++ + W +T LG W I A +
Sbjct: 973 IYERFKSSDIIQGLPKVEQLSEARLNNSISMNLKESFENWTGDMTRFLGSLWGLFISARI 1032
Query: 1170 TIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLL 1229
T+ QS+I LVN+IQ+VYRSQGV I ++HIE+IVRQ+TSKVL+SEDG +NVFSPGELI L
Sbjct: 1033 TMEQSQIHLVNQIQKVYRSQGVRIGDKHIEVIVRQMTSKVLISEDGTANVFSPGELIVLS 1092
Query: 1230 RAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGL 1289
RAQR RALEE+I Y+T+LLGIT+ SLNTQSFISEASFQETARVLAKAAL+GRIDWLKGL
Sbjct: 1093 RAQRMDRALEEAIYYQTMLLGITRASLNTQSFISEASFQETARVLAKAALQGRIDWLKGL 1152
Query: 1290 KENLVLGGIIPVGTG 1304
KEN++LGG+IP GTG
Sbjct: 1153 KENVILGGMIPAGTG 1167
>gi|11465575 unknown; DNA-directed RNA polymerase beta [Cyanidium caldarium]
gb|AAF13013.1|AF022186_185 (AF022186) unknown; DNA-directed RNA polymerase beta [Cyanidium
caldarium]
Length = 1269
Score = 513 bits (1308), Expect = e-144
Identities = 418/1343 (31%), Positives = 668/1343 (49%), Gaps = 152/1343 (11%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F N++I + ++ II + G+A S I D +K +GF AT IS+ I+DL P+K
Sbjct: 15 FLNRIIEKSELREIIEVVFHKNGIAKASLIADNLKEIGFGFATKAGISISIEDLKIPPNK 74
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++Q Q+ E + +EK ++S + W SE L+ E+ + +TDP NPV
Sbjct: 75 SRILQITNQELRKTEISFKRAEITTIEKSQKSTDTWNNASEALKDEIIKYYRLTDPLNPV 134
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
++M+FSGARGN SQV QLVGMRGLM+DP GQ+I+LPI SN REGL++TEY+IS YGARKG
Sbjct: 135 YMMAFSGARGNLSQVKQLVGMRGLMADPNGQIIELPILSNFREGLNVTEYLISSYGARKG 194
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILI---QTLI 245
+VDT++RT+D+GYLTRRLV+V Q I+VR DC T GI+ + N +E+I+I + LI
Sbjct: 195 LVDTSLRTADSGYLTRRLVDVAQDIIVREIDCKTNNGITFS--NIQNNEKIIIPLYKRLI 252
Query: 246 GRVLADDI---YIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
GR+LADD+ I +N I LI F Q I +R+P TC++ IC+ CY
Sbjct: 253 GRILADDVKNPITPQVNIASKNTLITGNLIKEFKKNNIQKIKLRSPLTCQSYRSICQKCY 312
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKF 362
G S G LV++GEA+GIIA QSIGEPGTQLT+RTFHTGGVFT ++ +++ G IK+
Sbjct: 313 GASLSDGKLVDIGEAIGIIAAQSIGEPGTQLTMRTFHTGGVFTAEFSKPIKTLFEGVIKY 372
Query: 363 NEN-SAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIA 421
N + RTRHG A + I + + + + LLV+++ ++K Q+IA
Sbjct: 373 PSNLKFHHVRTRHGDDAIIIEKSATFDIRTTQSERKITLETGTTLLVKDNSFIKKNQVIA 432
Query: 422 EIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL-WILSGN 480
E T + EK K + S+S GE+++S + N+ + K L WILSG
Sbjct: 433 E--TSTSGRLITEKSTKDLISNSAGEIYFSDITIEERVDRHGNLTKISKQHGLIWILSGE 490
Query: 481 SHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVRLCPDH--CHFMHPTISPDT 538
+ + ++++ +++ L AK + +++R ++ + T++
Sbjct: 491 VYNFPMGANLVVQNSFEVNKGCL-LAKALIKSRHSGISRIRCAANYYAIDIILGTVTIRN 549
Query: 539 SNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDDPQYRTQS 598
+NL K F +L ++ ++N V+ + + + I+A D QY T +
Sbjct: 550 ANLY--KDSKLFNNNYLLKTSNKKN------FVVKALVGQKLSHSDIIAELIDDQYLTNT 601
Query: 599 SGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSSIMVRN 658
GI KY + + + + GI FFIPQE H +++ +SI++ N
Sbjct: 602 GGIVKYVNLKLAKTHKDDSEYTLSGI-----------GYIFFIPQETHQINKDASILLAN 650
Query: 659 N-SIIGVNTPITLNKKSRVGGLVRVEKNKKKIELKIFSGDIHFPGEIDKISQHSAILIPP 717
+ + NT I + GL+ + K+ I+ I + +P + + + I P
Sbjct: 651 SGDYVNKNTEIAKGVFCKCSGLLEIIKSNNIIKEIIIKPGVVYPVSNNLSTFTNKIFYPG 710
Query: 718 EMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFKEW 777
E K ++ + K +I+ I K +L+RPV Y ++++ +L + K
Sbjct: 711 E--KIIDNIVTNKIVYVEHIKLI----NKSCILIRPVNQYKVSNTESLFDFVTKGENK-- 762
Query: 778 DNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVSTN 837
D + LKV+N + +G+ I+ + + LV L+ + + + ++ STN
Sbjct: 763 DLISLKVVNKSFFKDGEVIKSV--KGVSLVNIQLIFYTKPSATAVTTKMEFVKDLDKSTN 820
Query: 838 GLIRYFLRIDLVK-SHISYIRKRNDPSSSGLISYNESDRININPFFSIYKENIQQSLSQK 896
LRI + + I Y +++N S I E I + F I + LS+
Sbjct: 821 STSEIKLRITATETTKIKYKQQKNIISQ---ILIKEGQYITKD--FPIIETLF---LSRH 872
Query: 897 HGTIRMLLN-RNKENRSFIILSSSNCFQMGPFNNVKYHNGIKEEINQFKRNHKIPIKISL 955
G + + N + K N II+S SN K+EI K+ HK+
Sbjct: 873 DGRVVIKSNFKQKNNACLIIISPSN----------------KKEIYINKKEHKL------ 910
Query: 956 GPLGVAPQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVIKYYLMDENERIYKPDLY 1015
+I +F + NK FK + ++D N+++ +
Sbjct: 911 -------KIGDFIRVGDHLGTNK-----------NFKSPY---SGEVLDINDKLITIRIA 949
Query: 1016 NNIILNPFHLNWDFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPNLKSGQVITVQMDF 1075
+++P L IH N+ E +I G ++ V +K+G +I
Sbjct: 950 EPYLISPGTL----IHVNHGE----LIRKGDYLALLVF-------DKIKTGDIIQGLPRI 994
Query: 1076 VGIRLANP-----YLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVL 1130
I A +LA I+ HY + +G+ L++ +K K +L
Sbjct: 995 EEILEARKPRETCHLAKFDGKIYVHYND---KGESLISLESQKKE---------KYVYIL 1042
Query: 1131 EVRSIDSISMNLEKRIDAWNERITGILGIPWRFL-IGAELTIAQS-------------RI 1176
+ + E I E IT L P L I E + Q+ R+
Sbjct: 1043 RLNQRVLVQSGTEVTI---GEPITDGLINPHEMLEIFFEYFLTQTSPIQATKASFEKIRL 1099
Query: 1177 SLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGR 1236
L+ +IQ+VY+SQ + I+++HIE+I+RQ+TSKVL+ E G + +F PGEL+ + + ++
Sbjct: 1100 ELLKEIQQVYQSQKIEINDKHIEVIIRQMTSKVLIQERGDTTLF-PGELVTINQIEKINS 1158
Query: 1237 AL----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKEN 1292
A+ ++ Y+ +LLGITK SLNT SFIS ASFQET R+L +AA+ G++DWLKGLKEN
Sbjct: 1159 AIIAVNKKEAKYKPVLLGITKASLNTDSFISAASFQETTRILTEAAIEGKVDWLKGLKEN 1218
Query: 1293 LVLGGIIPVGTGFKKIGDRSSAR 1315
+++G +IP GTG + ++ S +
Sbjct: 1219 VIIGRLIPGGTGLISLDNKDSIK 1241
>dbj|BAA83433.1| (AB013657) DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain
[Physcomitrella patens]
Length = 318
Score = 480 bits (1221), Expect = e-134
Identities = 235/321 (73%), Positives = 266/321 (82%), Gaps = 3/321 (0%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
++F+NKV+ TAIK++ISRLI HFG+ YT++ILDQ+KT+GF+QAT +ISLGIDDLLT P
Sbjct: 1 MLFYNKVMDRTAIKQLISRLITHFGITYTTYILDQLKTVGFKQATQAAISLGIDDLLTAP 60
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFN 126
SK WL+QDAEQQ I EKH+ YGNVHAVEKLRQ IE WYATSEYL+QEMNPNF MTDP N
Sbjct: 61 SKSWLIQDAEQQGYISEKHYRYGNVHAVEKLRQLIETWYATSEYLKQEMNPNFRMTDPLN 120
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGAR 186
PVH+MSFSGARG+ SQVHQLVGMRGLMSDPQGQ+IDLPIQSN REGLSLTEYIISCYGAR
Sbjct: 121 PVHMMSFSGARGSTSQVHQLVGMRGLMSDPQGQIIDLPIQSNFREGLSLTEYIISCYGAR 180
Query: 187 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIG 246
KGVVDTAVRTSDAGYLTRRLVEVVQHIVVR+ DCGT I V + LIG
Sbjct: 181 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRKVDCGTSENIFVTPLQNNYKKN---NKLIG 237
Query: 247 RVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSP 306
R+LAD+IYI RCI +RNQDI L+ INFQ + IFIR+P C++ WIC+LCYG S
Sbjct: 238 RILADNIYINGRCIAIRNQDITTNLVISLINFQRKGIFIRSPLICKSMLWICQLCYGWSL 297
Query: 307 IHGNLVELGEAVGIIAGQSIG 327
HGNL+ELGEAVGIIAGQSIG
Sbjct: 298 THGNLIELGEAVGIIAGQSIG 318
>dbj|BAA83450.1| (AB013674) DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain
[Sphagnum fallax]
Length = 317
Score = 478 bits (1218), Expect = e-133
Identities = 234/317 (73%), Positives = 266/317 (83%), Gaps = 2/317 (0%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
M E A L+F+NKV+ TAIK++ISRLI HFG+ YT+H+LDQ+K LGF+QAT +ISLGID
Sbjct: 1 MVESAELLFYNKVMDRTAIKQLISRLIAHFGITYTTHVLDQLKNLGFQQATQAAISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLT PSK WL+QDAEQQ EKHH YGNVHAVEKLRQ IE WYATSEYL+QEMNPNF
Sbjct: 61 DLLTAPSKSWLIQDAEQQGYTSEKHHRYGNVHAVEKLRQLIETWYATSEYLKQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDP NPVH+MSFSGARG+ SQVHQLVGMRGL+SDPQGQ+IDLPIQSN REGLSLTEYII
Sbjct: 121 MTDPLNPVHMMSFSGARGSTSQVHQLVGMRGLVSDPQGQIIDLPIQSNFREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERI 239
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR+ DCGT+RGISVN R+ + R
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRKMDCGTIRGISVNPPRDHXKNIRG 240
Query: 240 LIQ-TLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
+ Q LIGRVLAD++YI RCI RNQDI GL N IN QT+PI+IR+P TC++ SWIC
Sbjct: 241 ISQHKLIGRVLADNLYINGRCIATRNQDITAGLANSLINLQTKPIYIRSPLTCKSMSWIC 300
Query: 299 RLCYGRSPIHGNLVELG 315
+ CYG S HG+L+E G
Sbjct: 301 QFCYGWSLTHGDLIEXG 317
>gi|11466380 beta'' subunit of RNA polymerase [Mesostigma viride]
gb|AAF43824.1|AF166114_36 (AF166114) beta'' subunit of RNA polymerase [Mesostigma viride]
Length = 1223
Score = 470 bits (1196), Expect = e-131
Identities = 293/805 (36%), Positives = 456/805 (56%), Gaps = 43/805 (5%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N+++ I+RII+ + + G + T+H++D++K LGF AT ISL IDDL P
Sbjct: 20 LFFCNRIMNKGEIRRIIAWFLFNHGTSRTAHMVDRLKILGFYHATKAGISLSIDDLSIPP 79
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFN 126
+K WL++DAEQ+ +K++ G + AVE+ ++ I+ W++TSE L+ E+ F T+P N
Sbjct: 80 TKKWLLEDAEQEIAKTQKNYSIGKITAVERFQKVIDTWHSTSETLKNEVVQYFEQTNPLN 139
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGAR 186
PV++M+FSGARGN SQV QLVGMRGLMSDPQGQ+IDLPI+SN REGL++TEY+ISCYGAR
Sbjct: 140 PVYMMAFSGARGNLSQVSQLVGMRGLMSDPQGQIIDLPIRSNFREGLTVTEYVISCYGAR 199
Query: 187 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERILIQTLI 245
KG+VDTA+RT+D+GYLTRRLV+V Q +++R TDCGT GI + ++ L + LI
Sbjct: 200 KGLVDTALRTADSGYLTRRLVDVAQDMIIRETDCGTKSGILLGPVKDEQKVVFSLQERLI 259
Query: 246 GRVLADDIYI--GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRVLA++IY + I +NQDI L ++ + I +R+P TC++ +C+LCYG
Sbjct: 260 GRVLAENIYSPKQKQYIAKKNQDISASLSDKICEIKRTNILVRSPLTCKSIRSVCQLCYG 319
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
S HGNLV+LGEAVGIIA QSIGEPGTQLT+RTFHTGGVFTG A+ +RS +GKI ++
Sbjct: 320 WSLAHGNLVDLGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGNIAKQIRSSIDGKIIYS 379
Query: 364 ENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIAEI 423
+ P RTRHG A + ++ + I+ + N+ +P + LLV N V+++Q+IAE+
Sbjct: 380 LTNTIPMRTRHGEIALITQSNINICIQGKNKEFNIEVPINTILLVNNGSMVRAKQLIAEV 439
Query: 424 RAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSH----LWILSG 479
A ++ E K++ SD GE+H+ + + AY H + + LWILSG
Sbjct: 440 SAPVNAQSV-EIASKYVASDFSGEIHFENLLLQEKKSAYG--HKMNRAGQYGGLLWILSG 496
Query: 480 NSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSN-----FLVSNNQVRLCPDHCHFMHPTI 534
+K ++ + L+ D + A+ N + S N + + + +
Sbjct: 497 QVYKF-SLDVPLMFDTADYIHNGSCMAEHNIISQYGGILQTSENNLTIDNSNSYLYVLNS 555
Query: 535 SPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDDPQY 594
S N +N ++ ++L +++ + +I N I+A F Y
Sbjct: 556 SMTIINAYLSHIKNARSEAYIL------TDDLNQKFFMQVESNNVIKNNQIIAKFVTKTY 609
Query: 595 RTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESSS- 653
T + GI KY + + ++ EY + + P K +IP+E H++++ +S
Sbjct: 610 LTNTGGILKYSS--------EIEVDEYDIVTQSYPVR--KGGIIMWIPEETHLINKDASL 659
Query: 654 IMVRNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKI-ELKIFSGDIHFPGEIDKI-SQHS 711
+MVR+ + T I + GL +V + + E+ I G I+ P + ++ +H
Sbjct: 660 LMVRDCEYVEAGTQIIKDLICHSSGLAQVSQTNDILREVVIKPGKIYRPIDFSQVLDKHQ 719
Query: 712 AILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFPQ 771
++ E + E Y++ + + +L+RPV+ + I +S L KL Q
Sbjct: 720 TLIQAGEEICDGIIAEELV-----YLENVNLSSGS-ALLIRPVVQFLIPNSTELKKLEAQ 773
Query: 772 DLFKEWDNLELKVLNFILYGNGKSI 796
K+ N+ ++ I Y +G+ I
Sbjct: 774 YQLKQ--NISIQPSIHICYKDGQRI 796
Score = 215 bits (543), Expect = 2e-54
Identities = 118/275 (42%), Positives = 176/275 (63%), Gaps = 10/275 (3%)
Query: 1034 YCEKTFPIISLGQFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIH 1093
+ + + LG + + IV P +SGQVI +Q + V +RLA PYL + A ++
Sbjct: 911 FVKNAYEFFQLGDLVHKGKEIVPGILAP--QSGQVIQLQANRVTLRLARPYLVSSEAVLY 968
Query: 1094 GHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVR---SIDSISMNLEKRIDAWN 1150
G+ + GD LV I+E+S++GDI QGLP++E++LE R + + NL + ++
Sbjct: 969 VDDGDFVKSGDTLVMLIFEQSKTGDIVQGLPRIEELLEARRTKGLKPLPNNLHDLLQSFF 1028
Query: 1151 ERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVL 1210
+ T GI A+ + + ++ LVN++Q VY++QGVHI ++HIE+IVRQ+TSKV+
Sbjct: 1029 DEATEKYGIQK----AAKKSFEKLQLFLVNEVQSVYKAQGVHISDKHIEVIVRQMTSKVM 1084
Query: 1211 VSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQET 1270
+ E G + + PGELI L R + R + Y+ ++LGITK SLNT+SFIS ASFQET
Sbjct: 1085 IEEGGDTTLL-PGELIELHRIENMNRNVSVHAKYKPIVLGITKASLNTESFISAASFQET 1143
Query: 1271 ARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGF 1305
RVL KAA+ G+ DWL+GLKEN+++G +IP GTGF
Sbjct: 1144 TRVLTKAAIEGKTDWLRGLKENVIIGRLIPAGTGF 1178
>dbj|BAA83455.1| (AB013679) DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain
[Haplomitrium mnioides]
Length = 311
Score = 450 bits (1145), Expect = e-125
Identities = 216/315 (68%), Positives = 260/315 (81%), Gaps = 4/315 (1%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAE A +F+N+V+ TAIK++IS+LI FG+ YT+HILDQ+KTLGFR+AT +ISLGID
Sbjct: 1 MAEPAESIFYNEVMDRTAIKQLISKLISRFGITYTTHILDQLKTLGFREATPEAISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLT PSKGWL++DAEQ + +KHH YG++HAVEKLRQ IE WYATSEYL++EMNPNF
Sbjct: 61 DLLTAPSKGWLIRDAEQYANTSDKHHDYGSLHAVEKLRQLIETWYATSEYLKREMNPNFG 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPVH+MSFSGARG+ SQVHQLVGMRGLMSDPQGQ+IDLPIQSN REGLSLTEYII
Sbjct: 121 VTDPSNPVHMMSFSGARGSTSQVHQLVGMRGLMSDPQGQIIDLPIQSNFREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT R + +N +S+
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTTRSLFLNNLGGSVSQ--- 237
Query: 241 IQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
LIGRVLA+DIY+ +RC+ RNQDIG L N+ + + + I +R+P TC + WIC+L
Sbjct: 238 -HRLIGRVLANDIYLSNRCLATRNQDIGTSLANKLLAHKAEAIPVRSPLTCESILWICQL 296
Query: 301 CYGRSPIHGNLVELG 315
CYG S HG+L+++G
Sbjct: 297 CYGWSLTHGDLIDVG 311
>dbj|BAA83445.1| (AB013669) DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain
[Anthoceros punctatus]
Length = 328
Score = 442 bits (1125), Expect = e-122
Identities = 224/326 (68%), Positives = 260/326 (79%), Gaps = 3/326 (0%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
+AE A L+F+NKVI GTAIK+ I RL+ HFG+ YT+HILDQ KTLGF+QAT LGID
Sbjct: 1 VAESAKLLFYNKVIDGTAIKQFIGRLVAHFGITYTAHILDQPKTLGFQQATYAVTLLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLT+ SKGWL+QDAE S LEKHH YGNVHA EKLRQ IE WYATSEY +QEMNPNF
Sbjct: 61 DLLTVLSKGWLIQDAEHHSYTLEKHHRYGNVHAAEKLRQLIETWYATSEYSKQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDP NPVH+MSFSGARG+ASQV+QLVGMRGL+SD QGQ+IDL I+SN REGLSLTEYII
Sbjct: 121 MTDPLNPVHMMSFSGARGSASQVYQLVGMRGLVSDFQGQIIDLLIKSNFREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERI 239
SCYGA KGVVDT VR DAGYLT RLVEVVQHIVVR+TDC T RGIS+N T ++ + +I
Sbjct: 181 SCYGACKGVVDTVVRILDAGYLTCRLVEVVQHIVVRKTDCNTFRGISLNSTEDKKKNLQI 240
Query: 240 LI-QTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
Q L+GRVLAD++YI +RC+ + NQDI I + I +T I IR+P TC++ WIC
Sbjct: 241 FTQQKLVGRVLADNLYINARCLAICNQDINTNFIEKSITLKTPSISIRSPLTCKSMLWIC 300
Query: 299 RLCYGRSPIH-GNLVELGEAVGIIAG 323
+LCYG S H G+LVELGEAVGII G
Sbjct: 301 QLCYGWSLTHYGDLVELGEAVGIIXG 326
>dbj|BAA83439.1| (AB013663) DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain
[Coleochaete nitellarum]
Length = 320
Score = 430 bits (1094), Expect = e-119
Identities = 207/319 (64%), Positives = 254/319 (78%), Gaps = 1/319 (0%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
M E+ ++F+N+ + A+K++IS+L+ + G+ +HILD +KT+GF AT + ISLGID
Sbjct: 1 MPEKIKILFYNQAMDRPAMKQLISKLVGYLGVTSVAHILDHLKTIGFHYATQSGISLGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLT PSK WL+QDAE Q+LI + H+ YG++HAVEKLRQ IE WY TSEYL+QEMNPNF
Sbjct: 61 DLLTAPSKSWLIQDAENQALISDIHNRYGSIHAVEKLRQLIETWYITSEYLKQEMNPNFR 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
+TDP NPVH+MSFSGARG+ SQVHQLVGMRGLM+DPQGQ+IDLPIQ+NLREGLSLTEYII
Sbjct: 121 ITDPLNPVHLMSFSGARGSTSQVHQLVGMRGLMTDPQGQIIDLPIQNNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISV-NTRNRMMSERI 239
SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQH V+R+ DC T++GI NT ++ +
Sbjct: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHAVIRQRDCQTLKGIHFKNTNKKINVYNL 240
Query: 240 LIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICR 299
LIGRVLAD IYI +RCI RNQDI L + +N + Q FIR+P TC+N WIC+
Sbjct: 241 SSVRLIGRVLADHIYINNRCIAKRNQDISTKLATQLLNSKQQSFFIRSPLTCKNRHWICQ 300
Query: 300 LCYGRSPIHGNLVELGEAV 318
LCYG S HG+LV++GEAV
Sbjct: 301 LCYGWSLNHGDLVQIGEAV 319
>gi|11467688 RNA polymerase b''-chain [Guillardia theta]
sp|O78483|RPOD_GUITH DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
gb|AAC35674.1| (AF041468) RNA polymerase b''-chain [Guillardia theta]
Length = 1286
Score = 413 bits (1049), Expect = e-113
Identities = 302/937 (32%), Positives = 506/937 (53%), Gaps = 67/937 (7%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NKVI +K++++ ++G S + D++K LGF AT +SL ++DL P K
Sbjct: 14 FTNKVIDKKELKKLMAWAFSNYGTGRASFMADKIKDLGFHYATKAGLSLSVEDLRVPPIK 73
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
L+ A ++ E+ + G + +E+ ++ I+ W TSE L+ E+ F DP NP+
Sbjct: 74 RDLLLQANREIQQTEQLYERGEITTIERFQKVIDTWNNTSEQLKDEVIKYFKQNDPLNPI 133
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+IM+FSGARGN SQV QLVGMRGLM+DPQGQ+IDLPI+SN REGL++TEY+IS YGARKG
Sbjct: 134 YIMAFSGARGNISQVRQLVGMRGLMADPQGQIIDLPIKSNFREGLTVTEYLISSYGARKG 193
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILI---QTLI 245
+VDTA+RT+D+GYLTRRLV+V Q I++R DCGT RGI + R+ + + +IL+ LI
Sbjct: 194 LVDTALRTADSGYLTRRLVDVAQDIIIREIDCGTQRGIVL--RDMVDNNQILVSLKNRLI 251
Query: 246 GRVLADDIYIGSRCIVVR--NQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRVL + +Y+ + V+ NQD+ + N I + + +R+P TC +C+ CYG
Sbjct: 252 GRVLFETLYLPNDASVIGHINQDLDHDITNSIIKCGIKSVIVRSPLTCEAPRSVCQFCYG 311
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
+ HG+LV+LGEAVGIIA QSIGEPGTQLT+RTFHTGGVFTG AE +R+P NG I++
Sbjct: 312 WNLAHGSLVDLGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGELAEQIRAPFNGIIRYP 371
Query: 364 EN-SAYPTRTRHGHPAFLCYIDLYVTI-ESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIA 421
+N RTRHG+ + + + I + + L + +++ K QII
Sbjct: 372 KNLKIRIIRTRHGNEGVILDENYKLNILNQRGEKTRLEFKQGTTLFISDNEEFKKGQIIG 431
Query: 422 EIRAGTYTLNLKEKVRKHIFSDSEGE-MHWSTNIYHVSEFAYSNVHILPKTSHLWILSGN 480
E ++ + TL + EK + + +++ GE ++ + NI + + ++ I K LWIL G+
Sbjct: 432 ETKSRS-TL-VTEKATRDLVTETSGEVIYTNLNIENKIDRQGNSTLITNKGGLLWILKGD 489
Query: 481 SHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVRLCP--DHCHFMHPTISPDT 538
+ + LK D+++ ++ + + S + N VRL + + IS +
Sbjct: 490 VYNIPYNTDIQLKIGDKIAKDTIISTFKTISEY---NGIVRLNEKNEEIQILTDFISLEN 546
Query: 539 SNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDDPQYRTQS 598
+ + + P ++R + +++ + V P + I + I Y +D Y+T +
Sbjct: 547 AEIEYNELDVNIECPI---NLRFEDGKILNLLCV--PGNKITNSQVIGEYIED-NYKTTT 600
Query: 599 SGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDR-FFFIPQEVH-ILSESSSIMV 656
GI KYK ++ +KE + K Y+I + ++IP+E H I + S +++
Sbjct: 601 GGIIKYKN---YAELKKE---------KNKKGYEINDNEVIYWIPEETHEINKDLSLLLI 648
Query: 657 RNNSIIGVNTPITLNKKSRVGGLVRVEKNKKKI-ELKIFSGDIHFPGEIDKISQHSAILI 715
+NN++I T I + G V + + + + E+ I G I+ E++ I
Sbjct: 649 KNNTLINSGTEIIKDVYCLNSGYVEIIQEDEIVKEVIIKPGIIYDSSELNTKRNIGTICD 708
Query: 716 PPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFPQDLFK 775
E++ S E+K+ ++ +K F +RPV Y+I ++ + L + L
Sbjct: 709 IKEVI--STSTENKQ-------IFLDVIGEKLF--LRPVESYNI--KMSHINLKTKRLTN 755
Query: 776 EWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVEVS 835
D L LKV+N LY +G+ I+ + + LV+T L++N+N ++ +S + A +E S
Sbjct: 756 LEDILNLKVVNRSLYKDGEKIKSVY--GLDLVKTYLIVNFNSNKPYASADIEFAP-IENS 812
Query: 836 TNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRININPFFSIYKENI---QQS 892
T + + + ++ + N+ + L+ + RI KE++
Sbjct: 813 TKYKLNLTITESIQLNYDIFGAINNEDVKTSLV-IKDGQRIK--------KEDLIAETHL 863
Query: 893 LSQKHGTIRMLLNRNKENRSFIILSSSNCFQMGPFNN 929
+++ G ++ +L ++ + +I+ + F++ P NN
Sbjct: 864 VARNKGILKNILISSQSTKKLLIMREEDTFRV-PTNN 899
Score = 177 bits (445), Expect = 6e-43
Identities = 111/317 (35%), Positives = 169/317 (53%), Gaps = 60/317 (18%)
Query: 1064 KSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGL 1123
+SGQV + + + +R A PYL + GA + E++ D L ++E+S++GDI QGL
Sbjct: 924 ESGQVFEITKNEIILRKAYPYLVSAGAILQIKDHELVQRNDTLAILVFERSKTGDIVQGL 983
Query: 1124 PKVEQVLEVR-----------------------------------SIDSISMNLEKRIDA 1148
P++E++LE R + D I N +K I +
Sbjct: 984 PRIEEILEARKPKEPCKLSQKPGKINTTNSNDETEVIQLIDTDGYTTDYIINNNQKLIIS 1043
Query: 1149 WNERIT-------------GILGIPWRFLIG-------AELTIAQSRISLVNKIQRVYRS 1188
E + +L + + F A+L++ + + LV+++Q+VY+S
Sbjct: 1044 NGENVLLAEPLTDGAPNPHEMLNLYFNFYTSIITLYESAKLSLQKVQTYLVDEVQKVYQS 1103
Query: 1189 QGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEES----ICY 1244
Q V I ++HIE+IVRQ+TSKV V EDG PGEL+ L + + A+ + Y
Sbjct: 1104 QNVDISDKHIEVIVRQMTSKVKV-EDGGDTTLLPGELVELQQIENINEAMMLTKGVPATY 1162
Query: 1245 RTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
+LLGITK SLNT SFIS ASFQET RVL +AA+ G+ DWL+GLKEN+++G +IP GTG
Sbjct: 1163 CPILLGITKASLNTDSFISAASFQETTRVLTEAAIEGKADWLRGLKENVIIGRLIPAGTG 1222
Query: 1305 FKKIGDRSSARQDTKIT 1321
F ++ + + K+T
Sbjct: 1223 FNAYNEQHKSSKSMKLT 1239
>gi|11465716 DNA-directed RNA polymerase beta [Porphyra purpurea]
sp|P51250|RPOD_PORPU DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||S73171 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - red alga
(Porphyra purpurea) chloroplast
gb|AAC08136.1| (U38804) DNA-directed RNA polymerase beta [Porphyra purpurea]
Length = 1224
Score = 411 bits (1044), Expect = e-113
Identities = 301/948 (31%), Positives = 483/948 (50%), Gaps = 76/948 (8%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NKVI +K +I ++G+A +++ D++K LGF AT ISL ++DL PSK
Sbjct: 12 FSNKVIDKNQLKNLIVWAFRNYGIARAANMADKLKDLGFHYATQAGISLSLEDLRIPPSK 71
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
L+ ++ E + G + VE+ ++ I+ W SE L+QE+ F TDP N V
Sbjct: 72 KSLLLSTIEEIKNTENKYRRGEITTVERFQKVIDTWNNASESLKQEVIEYFKETDPLNSV 131
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
++M+FSGARGN SQV QLVGMRGLM+DPQGQ+IDLPI SN REGL++T+Y IS YGARKG
Sbjct: 132 YMMAFSGARGNISQVRQLVGMRGLMADPQGQIIDLPISSNSREGLTVTDYFISSYGARKG 191
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILI---QTLI 245
+VDTA+RT+D+GYLTRRLV+V Q +++R DC T +GI + + + ++++LI Q L
Sbjct: 192 LVDTALRTADSGYLTRRLVDVSQDVIIREVDCKTKKGIIL--EDLVDTQKVLINLEQALA 249
Query: 246 GRVLADDIYIGSR--CIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRVLA++++ + I QDI L + + + +R+P TC + S +C+ CYG
Sbjct: 250 GRVLAENVFHPEKGSLIAHTRQDISPNLAQEIVRAGIKKVLVRSPVTCNSRSSVCQYCYG 309
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
+ HG LV+LGEAVGIIA QSIGEPGTQL +RTFHTGGVFTG AE + SP +GK+
Sbjct: 310 WNLAHGRLVDLGEAVGIIAAQSIGEPGTQLAMRTFHTGGVFTGELAEQIYSPIDGKLTNL 369
Query: 364 ENSAY-PTRTRHGHPAFLCYIDLYVTIESNDIMHNVI-IPPKSFLLVQNDQYVKSEQIIA 421
+ +Y RTRHG A + V IES+ ++I + + LLV N++ V +Q+IA
Sbjct: 370 DFLSYMEVRTRHGEQALMTEKPTQVIIESSGKQKSIINLSKGTTLLVDNNEVVSKDQVIA 429
Query: 422 EIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSGNS 481
E + + E+ +KH+ SD G++ +S ++ I +W+LSG
Sbjct: 430 E--SPRRNRLMIERAQKHVLSDLSGKICFSNLTVEETDNNQYTTRITKTGGLIWVLSGEV 487
Query: 482 H-----------KSDTVSLSLLKDQDQMSTHSLPTAK--RNTSNFLVSNNQV---RLCPD 525
+ K+D V+ + Q ++ + +NTS+ ++N Q+ +
Sbjct: 488 YNIPDSANIPVNKADQVNPGTILAQTELINQYSGKVRIYQNTSS-SITNIQIITESVTVP 546
Query: 526 HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSI 585
C+ I+ S +L ++ R FLF+S ++ I I
Sbjct: 547 ACYIRTDVINKKESYILETDKKQR----FLFKSFPDQK----------------ISDGHI 586
Query: 586 LAYFDDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEV 645
+A Y+T S GI KY + ++ +K+ E P Y +I +E
Sbjct: 587 VAELISDTYKTTSGGIIKYLDL---NVSKKKTGPEKDAYDILSPGY------ILWISEET 637
Query: 646 H-ILSESSSIMVRNNSIIGVNTPITLNKKSRVGGLVR-VEKNKKKIELKIFSGDIHFPGE 703
H I +SS ++V N +I T + N S+ G++ ++K+ E+ I G I+ +
Sbjct: 638 HEINKDSSLLLVNNGDVIESGTELVKNIFSKSSGIIEIIQKDGIVREIIIKPGFIYKLTD 697
Query: 704 IDKISQHSAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSI 763
I S + P N + K W YI+ ++ ++L+RPVI+Y I +
Sbjct: 698 FYSIHDKSRGFLRPGETLHGNI-STDKLVYWEYIE----NEQTPYILIRPVIVYSIPEIK 752
Query: 764 NLVKLFPQDLFKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSS 823
+ L ++ + +LK++ ++ +G+ ++ I + LV T LV N + +
Sbjct: 753 S--SLIENLTSQKVNQTKLKLVKRTVFRDGERVKSI--DGVHLVTTNLVAEINHHD--PN 806
Query: 824 IEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNESDRIN------ 877
+ A+ + ++ L S S K S I ++ + I
Sbjct: 807 LVSAIEFLAKEDSSNCFALGLSTFETLSIKSIDNKVEKEQSQTRIIVSDGEYIQPLTVVA 866
Query: 878 INPFFSIYKENIQQSLSQKHGTIRMLLNRNKENRSFIILSSSNCFQMG 925
S+ K +++ +K+ + R+LL + +N+ F + + Q+G
Sbjct: 867 STEIISMSKGFVEEIHVEKNTSRRILLTTSIDNKVFDLHQQNTLVQVG 914
Score = 199 bits (500), Expect = 2e-49
Identities = 102/249 (40%), Positives = 166/249 (65%), Gaps = 10/249 (4%)
Query: 1062 NLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQ 1121
+L SGQ+ + + +R+A PYL + A +H ++ +G+ L +++++++GDI Q
Sbjct: 929 SLDSGQITHISQESATLRIARPYLVSNAAILHVDNNALIRKGETLAVLVFDRAKTGDIIQ 988
Query: 1122 GLPKVEQVLEVRSIDSISMNLEKRIDA-WNERITGILGIPWRFLIGAELTIAQSRISLVN 1180
GLP++E++LE R + +N +DA +N I L + A L+ + ++ LV
Sbjct: 989 GLPRIEEILEARKKTDVLLNPHDILDASFNLYIECGLAL----YEAARLSFQEIQLLLVK 1044
Query: 1181 KIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEE 1240
++Q VY+SQGV+I ++HIE+IVRQ+TSKV + E+G + PGEL+ L + ++T +++
Sbjct: 1045 EVQLVYQSQGVNISDKHIEVIVRQMTSKVKI-ENGEETGYLPGELVELQKIEQTNKSMTS 1103
Query: 1241 ----SICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLG 1296
+ YR +LLGIT+ SLNT+SFIS ASFQET +VL +AA+ G++DWL+GLKEN+++G
Sbjct: 1104 RNKLNASYRPILLGITQASLNTESFISAASFQETTKVLTEAAISGKLDWLRGLKENVIIG 1163
Query: 1297 GIIPVGTGF 1305
+IP GTGF
Sbjct: 1164 RLIPAGTGF 1172
>gi|11467371 beta prime subunit of RNA polymerase [Cyanophora paradoxa]
sp|P48120|RPOD_CYAPA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||T06916 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Cyanophora
paradoxa cyanelle
gb|AAA81259.1| (U30821) beta prime subunit of RNA polymerase [Cyanophora paradoxa]
Length = 1265
Score = 394 bits (1002), Expect = e-108
Identities = 279/856 (32%), Positives = 449/856 (51%), Gaps = 68/856 (7%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
+F N+ IG +K +I+ +G A T+++++Q+K LGF AT ISL ++DLL P
Sbjct: 11 IFFNQTIGKKEVKNVIAWAFTSYGAARTAYLVEQLKDLGFHYATKAGISLSVEDLLIPPL 70
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNP 127
K L+Q AE + + G + VE+ ++ I+IW+ TSE L+ E+ F TDP N
Sbjct: 71 KDSLLQTAENEIKATLNRYLLGEITEVERFQKVIDIWHRTSETLKDEVVDYFKSTDPLNS 130
Query: 128 VHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARK 187
+++MSFSGARGN SQVHQLVGMRGLM+DPQG++ID PI+SN +EGL+ TEY+IS YGARK
Sbjct: 131 LYMMSFSGARGNLSQVHQLVGMRGLMADPQGEIIDFPIRSNFKEGLTTTEYLISSYGARK 190
Query: 188 GVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILI---QTL 244
GVVDTA+RT+D+GYLTRRLV++ Q +++R DC T RG+ + + +ILI L
Sbjct: 191 GVVDTALRTADSGYLTRRLVDIAQEVIIREIDCETPRGVILTALKE--NGKILISLKDRL 248
Query: 245 IGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
+GRVL ++Y I +N+ I + L + I + ++IR+P TC+ T +C+ CY
Sbjct: 249 VGRVLLHNLYHPKTHSLIAQKNESISVLLADDIIKAGLKEVWIRSPLTCKATRSVCQYCY 308
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKF 362
G + HG LVELGEAVGIIA QSIGEPGTQLT+RTFHTGGVFT A+ + +P G+I +
Sbjct: 309 GWNLAHGRLVELGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTAEVAKQITAPFPGRIYY 368
Query: 363 NENSAY-PTRTRHGHPAFLCYIDLYVTIE-SNDIMHNVIIPPKSFLLVQNDQYVKSEQII 420
N+ + RTR+G A+ + + +E N + + S + +++ +V++ ++
Sbjct: 369 PLNTTFREIRTRYGDNAWWVENNAKLRLEGENGKRVSFNLTQGSIIRIKDQSWVETNDLL 428
Query: 421 AEIRA-GTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILSG 479
AEI + T KEK + + +D GE+++ E + + +WIL G
Sbjct: 429 AEIASTAPNTRRAKEKTTRELRTDIAGEVYFQN-----LEIDEAGGQVDTAGGSIWILGG 483
Query: 480 NSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVRLCPDHCHFMHPTISPDTS 539
N + + +LK+ D + S+ + S + VRL D+ T+ +
Sbjct: 484 NVYNLSSNFDVILKNGDFILNGSILARTQFISQY---GGYVRLTDDNL-----TVEVIPA 535
Query: 540 NLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDDPQYRTQSS 599
+L + + FI + +NNE ++I + + ++A + T+
Sbjct: 536 SLKIQNAK-IFIDETDQPCLHFKNNE---TFELKIQNETQLKHGQVVA---ERYLTTEMG 588
Query: 600 GIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQI-KVDRFFFIPQEVH-ILSESSSIMVR 657
GI +Y + + K Y+I K +IP+E H + +E+ +++V+
Sbjct: 589 GIIRYADLDAKT--------------TNKNGYEITKSGSLLWIPEETHEVNTEAKNVLVK 634
Query: 658 NNSIIGVNTPITLNKKSR---VGGLVRVEKNKKKIELKIFSGDI-HFPGEIDKISQHSAI 713
N I T + NKK R G + V K IE+ I G + + +
Sbjct: 635 NGQYIPSGTQLIKNKKIRNKHSGVVELVHKKNFVIEIIIKPGIVLKIKNNVSFSKKAKRF 694
Query: 714 LIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFPQDL 773
+ P E + K E + RY+ +I T+ +L+RPV+ Y + +++
Sbjct: 695 IQPGEYLFSKFVVE-----DLRYLDYIITS-TGIILLLRPVVEYKVESPKTIIR------ 742
Query: 774 FKEWDNLELKVLNFILYGNGKSIRGILDTSIQLVRTCLVLNWNEDEKSSSIEEALASFVE 833
+ ++L++ + ILY +G+ I+ + I+L + L L + K I+ +F+
Sbjct: 743 -DDKNHLKISSIQSILYKDGERIKSV--QGIELFKIQLKLQVRKGLKHLPIK---TNFIP 796
Query: 834 VSTNGLIRYFLRIDLV 849
S N FL I+ +
Sbjct: 797 SSQNSFELEFLIIESI 812
Score = 178 bits (448), Expect = 3e-43
Identities = 143/508 (28%), Positives = 235/508 (46%), Gaps = 100/508 (19%)
Query: 900 IRMLLNRNKENRSFIILSSSNCFQMGPFNNVKYHNGIK----EEINQFKRNHKIPIKISL 955
+R ++ E+ II N ++ ++ Y +G + + I FK K+ ++ L
Sbjct: 726 LRPVVEYKVESPKTIIRDDKNHLKISSIQSILYKDGERIKSVQGIELFKIQLKLQVRKGL 785
Query: 956 GPLGVA----PQIANFFSFYHLITHNKISSIKKNLQLNKFKETFQVIKYYLMDENERIYK 1011
L + P N F LI + + K + + L+ N+ + K
Sbjct: 786 KHLPIKTNFIPSSQNSFELEFLIIESILPKNDKYFDSTVLESLAKAQTKILVKNNQLVKK 845
Query: 1012 PDLYNNI---ILNPFHLNWDFIHPNYCEK-------------TFPI----------ISLG 1045
+L I +N + W I N ++ T PI ++LG
Sbjct: 846 GELIAQIEIISINQGEIRW--IGDNTAKQIRRLLLITEKQIVTIPIQNLTKLKNKNLNLG 903
Query: 1046 QFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDI 1105
FI I +T PN SGQ+I + ++ +R++ PYL + A I G+++ G+
Sbjct: 904 NFIRAGEEIEETIKIPN--SGQIIEITSTYIRLRISRPYLISARAIIRVLTGDLVQSGES 961
Query: 1106 LVTFIYEKSRSGDITQGLPKVEQVLE----------------------------VRSIDS 1137
L ++E++++GDI QGLP++E++LE ++S+D
Sbjct: 962 LALLVFERAKTGDIIQGLPRIEELLEARKPKDNCVLSTHPGFTQLYYSETIELKIKSLDK 1021
Query: 1138 ISMNLEKR------------------IDAWNERITGILGIPWRFLI-----------GAE 1168
I+ LE + + + + IL I +
Sbjct: 1022 INTLLELQPGVFPTVTNNQFIEAGAPLSEGDISVHEILEIFFNLYFKNRVNCLSLADAIH 1081
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L++ + + LV+++Q VY+SQG+ I ++HIEII++Q+T+KV + E G + + P ELI
Sbjct: 1082 LSLQKIQQFLVSEVQSVYQSQGIDISDKHIEIIIKQMTNKVKIEEGGDTTLL-PNELIEF 1140
Query: 1229 LRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRID 1284
+ ++ S Y +LLGITK+SLNTQSFIS ASFQET RVLAKAA+ G+ID
Sbjct: 1141 QQIEKMNEKFSTSNGQLASYTPILLGITKSSLNTQSFISAASFQETTRVLAKAAVEGKID 1200
Query: 1285 WLKGLKENLVLGGIIPVGTGFKKIGDRS 1312
L+GLKEN+++G +IP GTGF D +
Sbjct: 1201 QLRGLKENVIIGNLIPAGTGFSAYNDNA 1228
>sp|P73334|RPOD_SYNY3 DNA-DIRECTED RNA POLYMERASE DELTA CHAIN
pir||S77517 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Synechocystis sp. (strain PCC 6803)
dbj|BAA17364.1| (D90905) RNA polymerase beta prime subunit [Synechocystis sp.]
Length = 1317
Score = 387 bits (983), Expect = e-106
Identities = 275/820 (33%), Positives = 428/820 (51%), Gaps = 56/820 (6%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
+ F+N I +K++I+ +G A S + D++K LGFR AT +S+ +DDL P
Sbjct: 1 MTFYNYTIDKGRLKKLIALAYRRYGSARCSQLADELKELGFRFATKAGVSISVDDLTIPP 60
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFN 126
K +++ AE++ E+ + G + VE+ ++ I+ W TSE L+ ++ NF TDP N
Sbjct: 61 EKKQMLEAAEKEIRTTEERYARGEITEVERFQKVIDTWNGTSEELKDQVVVNFRKTDPLN 120
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGAR 186
V++M+FSGARGN SQV QLVGMRGLM+DPQG++IDLPI++N REGL++TEY+IS YGAR
Sbjct: 121 SVYMMAFSGARGNMSQVRQLVGMRGLMADPQGEIIDLPIKTNFREGLTVTEYVISSYGAR 180
Query: 187 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQTLI 245
KG+VDTA+RT+D+GYLTRRLV+V Q ++VR DCGT R + V +I L L
Sbjct: 181 KGLVDTALRTADSGYLTRRLVDVSQDVIVREQDCGTERSLRVTAMTDGDQVKISLADRLF 240
Query: 246 GRVLADDIYIG--SRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GR+LA D+ +G I RN +I L NR I T +++R+P TC +C+ CYG
Sbjct: 241 GRLLAKDV-VGPDGEIIAKRNDEIDEALANR-IAAVTDEVYVRSPLTCEAARSVCQNCYG 298
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
S HG+ V+LGEAVGIIA QSIGEPGTQLT+RTFHTGGVFTG A ++P +G +K+
Sbjct: 299 WSLAHGHKVDLGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGEVARQEKAPEDGTVKWG 358
Query: 364 EN-SAYPTRTRHGHPAFLCYI--DLYVTIESND-IMHNVIIPPKSFLLVQNDQYVKSEQI 419
+ S RTRHG A I DL E + P S L VQ+ Q V + Q+
Sbjct: 359 KGLSTRKVRTRHGEDAEQVEIAGDLIWKGEGKKAATQTYSLTPGSLLFVQDGQTVTAGQL 418
Query: 420 IAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSN-VHILPKTSHLWILS 478
+ EI + T E+ K + D GE+ + + N I + +WILS
Sbjct: 419 MTEISL-SKTQRSTERATKDVAGDLAGEVLFDRLVPEEKTDRQGNTTRIAQRGGLVWILS 477
Query: 479 GNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSN-----FLVSNNQVRLCPDHCHFMHPT 533
G + + ++K+ +Q+ S+ + +N LVSN ++ +
Sbjct: 478 GEVYNLPPGAEPVVKNDEQVEVGSIMAETKLVTNDGGVVRLVSNREIEIITASVLLDQAQ 537
Query: 534 ISPDTSNLLAKKRRNRFIIPFLFRSIRERNNELMPDISVEIPIDGIIHKNSILAYFDDPQ 593
+ ++S R +++I + + ++R ++ + +SI+A D +
Sbjct: 538 VKLESSG-----GREQYVI---YTADKQR-------FLLKAAPGTKVQNHSIVAELIDDR 582
Query: 594 YRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQI-KVDRFFFIPQEVHILSESS 652
YRT + G+ +Y + + +G R K Y++ K +IP+E H +++
Sbjct: 583 YRTTTGGMIRYAGVEV-----------AKGGR--KQGYEVTKGGTLLWIPEETHEINKDI 629
Query: 653 SIM-VRNNSIIGVNTPITLNKKSRVGGLVR-VEKNKKKIELKIFSGDIHFPGEIDKISQH 710
S++ V + + T + + + G+V V+KN E+ I GD + + +
Sbjct: 630 SLLIVEDGQYVEAGTEVVKDIFCQSSGIVEVVQKNDILREIIIKPGDFYQDVDPGSVKIE 689
Query: 711 SAILIPPEMVKKKNSKESKKKTNWRYIQWITTTKKKYFVLVRPVILYDIADSINLVKLFP 770
S L+ P ++ + +WI + + +L+RPV Y + D
Sbjct: 690 SGQLLQP----GQDVFPGVTVSTLSQAEWIESPEGN-GLLLRPVEEYKVFDEPAAPSQGS 744
Query: 771 QDLFKEWDNLELKVLNFILYGNG---KSIRGILDTSIQLV 807
Q+ + +EL+ + + Y +G KS+ G S QLV
Sbjct: 745 QN-EEGGRQIELRSVQRLFYKDGDRVKSVEGAPLLSTQLV 783
Score = 169 bits (425), Expect = 1e-40
Identities = 112/336 (33%), Positives = 173/336 (51%), Gaps = 87/336 (25%)
Query: 1054 IVQTKNGPNLKSGQVITVQMDFV-GIRL----------------------ANPYLATPGA 1090
+V + P +K GQ++ + V G++L A PY +PGA
Sbjct: 891 VVDLPSAPEVKPGQLLVAGQELVPGVKLEESGKVLEINGKGDNYQLVLRRARPYRVSPGA 950
Query: 1091 TIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVL------------------EV 1132
+H G+++ GD LV ++E++++GDI QGLP++E++L +V
Sbjct: 951 VLHIEDGDLVQRGDNLVLLVFERAKTGDIVQGLPRIEELLEARKPKEACVLARAPGVCQV 1010
Query: 1133 RSIDSISMNLE------------------------KRIDAWNERITG------ILGIPWR 1162
++ S++++ +RID + G IL + +
Sbjct: 1011 EYLEDESVDIKVVEDDGTVSEYPLLPGQNAMVTDGQRIDVGHALTDGYNNPHEILDVFFS 1070
Query: 1163 FLIGAE---------LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSE 1213
+ + + L AQ LVN++Q VY+SQGV I ++HIE+IVRQ+T+KV + +
Sbjct: 1071 YYVDKDGCYQAALRGLQAAQK--FLVNEVQTVYQSQGVDISDKHIEVIVRQMTAKVRI-D 1127
Query: 1214 DGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGITKTSLNTQSFISEASFQE 1269
DG PGEL+ L + ++ A+ Y +LLGITK SLNT SFIS ASFQE
Sbjct: 1128 DGGDTTMLPGELVELRQVEQVNEAMGITGSAPARYTPVLLGITKASLNTDSFISAASFQE 1187
Query: 1270 TARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGF 1305
T RVL +AA+ G+ DWL+GLKEN+++G +IP GTGF
Sbjct: 1188 TTRVLTEAAIEGKSDWLRGLKENVIIGRLIPAGTGF 1223
>dbj|BAA83459.1| (AB013683) DNA-directed RNA polymerase beta'-2 chain [Adiantum
capillus-veneris]
Length = 317
Score = 379 bits (964), Expect = e-104
Identities = 195/318 (61%), Positives = 237/318 (74%), Gaps = 6/318 (1%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
M +R L F NK I A+KR+I +L+ FG+A T++I DQVK LGF+QAT SIS GID
Sbjct: 1 MMDRNELPFCNKTIDRAAMKRLIGKLVVCFGIASTTNISDQVKVLGFQQATEASISSGID 60
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DL +P++GWLV+DAE+Q + E H+ G++HA+EKLRQSIE WYATSE L++EM+P+F
Sbjct: 61 DLSAVPTRGWLVRDAEKQGYVSEGHYRCGSLHAIEKLRQSIEAWYATSECLKREMSPSFK 120
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
M DP NPVH+MS SGARG SQVHQL+GMRGLM+DP+GQ+IDLPI+ NLREGLSLTEYII
Sbjct: 121 MIDPLNPVHMMSVSGARGTISQVHQLLGMRGLMADPRGQVIDLPIRRNLREGLSLTEYII 180
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
S YGARKGVVDTAVRTSDAGYLTRRLVEVVQHI VRR DC T R ++ T N R
Sbjct: 181 SRYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIAVRRRDCETPRSLAFLTSNTGERRRGF 240
Query: 241 I-----QTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTS 295
+ Q L+GRVLAD +Y RCI RNQDI GL + + +QPI +R+P TC++
Sbjct: 241 LGTMPHQGLVGRVLADHVYWDVRCIATRNQDISDGLASNLM-ASSQPIHVRSPLTCKSIF 299
Query: 296 WICRLCYGRSPIHGNLVE 313
IC+ CYG S H NLVE
Sbjct: 300 RICQFCYGWSLAHCNLVE 317
>prf||1211235P rpoC-like ORF 236 [Nicotiana tabacum]
Length = 236
Score = 361 bits (918), Expect = 2e-98
Identities = 176/183 (96%), Positives = 179/183 (97%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 52 MAERANLVFHNKAINGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 111
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 112 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 171
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 172 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 231
Query: 181 SCY 183
SCY
Sbjct: 232 SCY 234
>pir||A05030 rpoC protein homolog - common tobacco chloroplast
Length = 236
Score = 361 bits (918), Expect = 2e-98
Identities = 176/183 (96%), Positives = 179/183 (97%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
MAERANLVFHNK I GTA+KR+ISRLIDHFGMAYTSHILDQVKTLGF+QAT TSISLGID
Sbjct: 52 MAERANLVFHNKAINGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 111
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNF
Sbjct: 112 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFR 171
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII
Sbjct: 172 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 231
Query: 181 SCY 183
SCY
Sbjct: 232 SCY 234
>pir||S26874 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain -
Chlamydomonas reinhardtii chloroplast
Length = 1175
Score = 360 bits (914), Expect = 7e-98
Identities = 219/556 (39%), Positives = 316/556 (56%), Gaps = 50/556 (8%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGID 60
+ + A F N +K ++S ++++G T +L+Q+K GF AT ISLG+D
Sbjct: 104 VTKNATAPFFNFTFDKGRLKNLVSWTLENYGQYKTVELLEQLKKTGFEYATKAGISLGLD 163
Query: 61 DLLTIPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFS 120
DL P K L+ +AEQ + + + G++ AVE+ ++ I+ W+ TSE L+QE+ F
Sbjct: 164 DLKIPPKKKILLLEAEQLTKLTIHQYQRGDITAVERFQRLIDTWHRTSEQLKQEVINYFE 223
Query: 121 MTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYII 180
TD NPV++M+FSGARGN SQV QLVGMRGLMSDPQGQ+ID PIQSN REGL+LTEYII
Sbjct: 224 ETDILNPVYMMAFSGARGNISQVRQLVGMRGLMSDPQGQIIDFPIQSNFREGLTLTEYII 283
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERIL 240
S YGARKG+VDTA+RT++AGYLTRRLV+V QH+++ DCGT +GI + +
Sbjct: 284 SSYGARKGIVDTALRTANAGYLTRRLVDVAQHVIISHYDCGTHKGIFLTDMKEGNKTIVS 343
Query: 241 IQT-LIGRVLADDIYIGSRCIVV--RNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWI 297
Q+ +IGRVLA DIY + I + RNQ+I + I T IF+R+ TC T +
Sbjct: 344 AQSRIIGRVLARDIYKPNSTITIAKRNQEISTDVAFE-IGKVTNRIFVRSALTCNTTKLL 402
Query: 298 CRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSN 357
C+LCYG S GNLV +GEAVG+IA QSIGEPGTQLT+RTFHTGGVF+G ++ +R+P N
Sbjct: 403 CQLCYGWSLAQGNLVSVGEAVGVIAAQSIGEPGTQLTMRTFHTGGVFSGDVSDEIRAPYN 462
Query: 358 GKIKF-NENSAYPTRTRHGHPAFLCYID--LYVTIESNDIMHNVI--------------- 399
G + + N+ RT G FL + L T + N +
Sbjct: 463 GFVYYDNKIPGILIRTLDGKILFLTKSEGTLIFTADPNFNKPQALTDSFLNSGHGEKEKY 522
Query: 400 ------IPPKSFLLVQNDQYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTN 453
IP + L ++N + V +Q++A+I + N+++ I ++ EG + ++ N
Sbjct: 523 EIKKYKIPAYTLLFIRNGESVLQKQVLAQITMISTKPNMRDTAELVIKAELEG-LFYAKN 581
Query: 454 IYHVSEF----------AYSNVHILPKTSHL----------WILSGNSHKSDTVSLSLLK 493
+ + NV + PK + W+LSG ++ + S
Sbjct: 582 LQVQKKILGPKPKFIGEGKQNVLLDPKAMEIIVKARGWNFAWVLSGKRYEFPLLLKSFAS 641
Query: 494 DQDQMSTHSLPTAKRN 509
D ++ +++ AK N
Sbjct: 642 SGDLITPNTI-MAKHN 656
>sp|P14564|RPOD_NOSCO DNA-DIRECTED RNA POLYMERASE DELTA CHAIN
gb|AAA25518.1| (M29747) DNA-dependent RNA polymerase beta subunit (EC 2.7.7.6)
[Nostoc commune]
Length = 717
Score = 340 bits (863), Expect = 6e-92
Identities = 200/509 (39%), Positives = 294/509 (57%), Gaps = 14/509 (2%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
++F N+V+ ++ +IS ++G A T+ + D++K LGFR AT +S+ +DDL+ P
Sbjct: 6 MIFRNRVVDKGQLRNLISWAFTYYGTARTAVMADKLKDLGFRYATKAGVSISVDDLMVPP 65
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFN 126
+K L++ AE++ E + G + VE+ ++ I+ W TSE L+ E+ +F T+P +
Sbjct: 66 TKRLLLEAAEEEIRATETRYQRGEITEVERFQKVIDTWNGTSEALKDEVVVHFKKTNPLS 125
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGAR 186
V++M+FSGARGN SQV QLVGMRGLM+DPQG++IDLPI++N REGL++TEYIIS YGAR
Sbjct: 126 SVYMMAFSGARGNISQVRQLVGMRGLMADPQGEIIDLPIKTNFREGLTVTEYIISSYGAR 185
Query: 187 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQT-LI 245
KG+V RT+D+GYLTRRLV+V Q + DCGT +S+ I + T L+
Sbjct: 186 KGLVVQPSRTADSGYLTRRLVDVSQ-VYYSGFDCGTPE-LSIRPMTEGAKTLIPLATRLM 243
Query: 246 GRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRV+ +D+ + I RN I L + + +R+P TC +C+ CYG
Sbjct: 244 GRVIGEDVLHPVTKEVIAARNSPISEDLAKKIEKSGVGEVVVRSPLTCEAARSVCQHCYG 303
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
S H ++V+LGEAVGIIA QSIGEPGTQLT+RTFHTGGVFTG A+ VRS +G +K
Sbjct: 304 WSLAHASMVDLGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGEVAQQVRSKIDGTVKLP 363
Query: 364 ENSAYPT-RTRHGHPAFLCYIDLYVTIESNDI------MHNVIIPPKSFLLVQNDQYVKS 416
T RTRHG A + + +E + V + S L V + V
Sbjct: 364 RKLKTRTYRTRHGEDALYVEANGIMLLEPTKVGDVTPENQEVHLTQGSTLYVFDGNKVNK 423
Query: 417 EQIIAEIRAGTYTLNLK-EKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL- 474
Q++AE+ G T EK K + SD GE+ ++ + N +T L
Sbjct: 424 VQLLAEVALGGRTTRTNTEKAVKDVASDLAGEVQFAEVVPEQKTDRQGNTTTTRRTRGLI 483
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSL 503
WILSG + + ++K+ D ++++ +
Sbjct: 484 WILSGEVYNLPPGAELVVKNGDAIASNGV 512
>pir||B32838 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Nostoc
commune (fragment)
Length = 717
Score = 340 bits (863), Expect = 6e-92
Identities = 200/509 (39%), Positives = 294/509 (57%), Gaps = 14/509 (2%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
++F N+V+ ++ +IS ++G A T+ + D++K LGFR AT +S+ +DDL+ P
Sbjct: 6 MIFRNRVVDKGQLRNLISWAFTYYGTARTAVMADKLKDLGFRYATKAGVSISVDDLMVPP 65
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFN 126
+K L++ AE++ E + G + VE+ ++ I+ W TSE L+ E+ +F T+P +
Sbjct: 66 TKRLLLEAAEEEIRATETRYQRGEITEVERFQKVIDTWNGTSEALKDEVVVHFKKTNPLS 125
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGAR 186
V++M+FSGARGN SQV QLVGMRGLM+DPQG++IDLPI++N REGL++TEYIIS YGAR
Sbjct: 126 SVYMMAFSGARGNISQVRQLVGMRGLMADPQGEIIDLPIKTNFREGLTVTEYIISSYGAR 185
Query: 187 KGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQT-LI 245
KG+V RT+D+GYLTRRLV+V Q + DCGT +S+ I + T L+
Sbjct: 186 KGLVVQPSRTADSGYLTRRLVDVSQ-VYYSGFDCGTPE-LSIRPMTEGAKTLIPLATRLM 243
Query: 246 GRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRV+ +D+ + I RN I L + + +R+P TC +C+ CYG
Sbjct: 244 GRVIGEDVLHPVTKEVIAARNSPISEDLAKKIEKSGVGEVVVRSPLTCEAARSVCQHCYG 303
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFN 363
S H ++V+LGEAVGIIA QSIGEPGTQLT+RTFHTGGVFTG A+ VRS +G +K
Sbjct: 304 WSLAHASMVDLGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGEVAQQVRSKIDGTVKLP 363
Query: 364 ENSAYPT-RTRHGHPAFLCYIDLYVTIESNDI------MHNVIIPPKSFLLVQNDQYVKS 416
T RTRHG A + + +E + V + S L V + V
Sbjct: 364 RKLKTRTYRTRHGEDALYVEANGIMLLEPTKVGDVTPENQEVHLTQGSTLYVFDGNKVNK 423
Query: 417 EQIIAEIRAGTYTLNLK-EKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHL- 474
Q++AE+ G T EK K + SD GE+ ++ + N +T L
Sbjct: 424 VQLLAEVALGGRTTRTNTEKAVKDVASDLAGEVQFAEVVPEQKTDRQGNTTTTRRTRGLI 483
Query: 475 WILSGNSHKSDTVSLSLLKDQDQMSTHSL 503
WILSG + + ++K+ D ++++ +
Sbjct: 484 WILSGEVYNLPPGAELVVKNGDAIASNGV 512
>gi|11467790 beta'' subunit of RNA polymerase [Nephroselmis olivacea]
gb|AAD54812.1|AF137379_35 (AF137379) beta'' subunit of RNA polymerase [Nephroselmis olivacea]
Length = 1463
Score = 334 bits (848), Expect = 4e-90
Identities = 198/486 (40%), Positives = 291/486 (59%), Gaps = 21/486 (4%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
+F N+ IKR+I+ + H+G+A T +++ +K +GF+ AT ISLGI+DL P+
Sbjct: 27 IFFNRTADKGMIKRLIAWFLVHYGLADTVSMIEDLKQVGFQYATRAGISLGIEDLRIPPT 86
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNP 127
K L+Q+A ++ +E + G V VE+ ++ I+ W TSE L+ ++ NF TDP NP
Sbjct: 87 KPRLLQEAHREINRMEFRYQQGYVSLVERFQKVIDTWNGTSELLKDDVVENFLATDPLNP 146
Query: 128 VHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARK 187
V++M+FSGARGN SQV QLVGMRGLMS+PQG++IDLPI+SN REGL++TEYIISCYGARK
Sbjct: 147 VYMMAFSGARGNLSQVRQLVGMRGLMSNPQGEIIDLPIRSNFREGLTVTEYIISCYGARK 206
Query: 188 GVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCG-TVRGISVNTRNRMMSERILIQTLIG 246
G+VDTA+RT+++GYLTRRLV+V Q IV+R T C + + T++ L + L+G
Sbjct: 207 GLVDTALRTANSGYLTRRLVDVAQDIVIRMTSCSPSAYPLISFTKSGKEVVYPLEERLLG 266
Query: 247 RVLADDIYIGSRCIVVRNQDIGIG--LINRFINFQTQPIFIRTPFTCRNTSWICRLCYGR 304
RVLA + ++ D I + + ++ + I +R+ C++ +CRLCYG
Sbjct: 267 RVLAIGAF-NQEGELISGPDTAISQEIAVQLMDCDPKEILVRSVLLCKSKRGLCRLCYGW 325
Query: 305 SPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFNE 364
+ G +V +GEAVGIIA QSIGEPGTQLT+RTFHTGGVF GG +R+P G + +
Sbjct: 326 NLGTGTIVSIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFAGGVTNEIRAPHAGLVHY-P 384
Query: 365 NSAYP--TRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIAE 422
+P RTRHG L + + E + + L + + V + Q+I E
Sbjct: 385 RPIHPKWVRTRHGQFGILISEKIEIIFEHESKKTIQVFDAGTVLTIHEGEKVHTNQLIGE 444
Query: 423 IRA-GTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSN----VHILPKT---SHL 474
I A GT + + S +GE+ + + + + S+ V + P+ +HL
Sbjct: 445 IPAHGTLVTGWRS-----LKSGVDGEVRFD-ELELLKQRPRSDRTSPVRLDPRVCNKAHL 498
Query: 475 WILSGN 480
WIL G+
Sbjct: 499 WILQGH 504
Score = 154 bits (386), Expect = 5e-36
Identities = 93/243 (38%), Positives = 142/243 (58%), Gaps = 8/243 (3%)
Query: 1065 SGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLP 1124
SGQ+I ++ D V +R+ PY + + +++ +L +Y K+++GDI QGLP
Sbjct: 1105 SGQLIEIRRDRVTLRIGQPYRVGWQSRLMVTRDQIVKAEKVLAHLLYFKTKTGDIVQGLP 1164
Query: 1125 KVEQVLEVR---SIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNK 1181
K+E++LE R + I NL+ + + + L + + T+ ++ ++ +
Sbjct: 1165 KIEEILEARRKKGNEIIRSNLQDFVQQFYQ---DNLDEGFSRKYASTRTMRAMQVLILRR 1221
Query: 1182 IQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEES 1241
+Q VYRSQGV I ++H+EII ++TS+VLV E PGE+I RA +
Sbjct: 1222 VQLVYRSQGVQISDKHLEIISLRMTSRVLV-EKAYGTGILPGEIIEKRRADMLNQG-RTR 1279
Query: 1242 ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPV 1301
I Y ++LGITK SL T+ FIS ASFQET RVL +A L+G+ DWL GLKEN++LG +IP
Sbjct: 1280 IRYCPIVLGITKASLTTKGFISSASFQETTRVLTQAVLQGKSDWLLGLKENVILGRLIPA 1339
Query: 1302 GTG 1304
G G
Sbjct: 1340 GVG 1342
>gi|11467042 RNA polymerase subunit [Euglena gracilis]
sp|P23581|RPOD_EUGGR DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||RNEGB2 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - Euglena
gracilis chloroplast
emb|CAA35054.1| (X17191) RNA polymerase subunit [Euglena gracilis]
emb|CAA50136.1| (X70810) RNA polymerase subunit [Euglena gracilis]
Length = 830
Score = 321 bits (815), Expect = 3e-86
Identities = 187/496 (37%), Positives = 286/496 (56%), Gaps = 31/496 (6%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N+V N+V I+ +IS + ++G T +LD++K GF ATTT +SLG+ DL
Sbjct: 5 NIVCFNRVFDKNEIRNLISWFLSNYGSIRTKELLDKMKNFGFTYATTTGLSLGLGDLKIP 64
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
SK LV+ +E+ + G ++ + L + +IW +E L++E N +D
Sbjct: 65 SSKANLVKSSEKILFKTRNRYKNGMINFINVLDEERDIWNVVNENLKKESINNLRQSDFL 124
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP++ M+ SGARG+ +QV QL+GMRGLMSD QG +I PI++N +EGL++TEY +SCYGA
Sbjct: 125 NPLYSMTLSGARGSITQVKQLIGMRGLMSDSQGNVIPFPIKTNFKEGLNITEYFVSCYGA 184
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSE-RILIQTL 244
RKG++DTA++T++AGYLTRR++ Q+++V+R+DC T V +N+ E + L + L
Sbjct: 185 RKGLIDTALKTANAGYLTRRMIYTAQNLIVKRSDCFTKYNTCVLLQNQDKEELKFLKEKL 244
Query: 245 IGRVLADDIYIGSR--CIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
IGRVLA I +V QDI + INF ++IRTPF C IC++CY
Sbjct: 245 IGRVLAKTIVNAKTGDILVSAGQDICNYTFKKIINF--PEVYIRTPFNCVLMEGICQICY 302
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKF 362
G + G +VELGE VGI+A QSIGEPGTQLT+RTFHTGGVF+ E + SP NGKI +
Sbjct: 303 GWNLACGKMVELGECVGILAAQSIGEPGTQLTMRTFHTGGVFSAKAKEVITSPLNGKIWY 362
Query: 363 NENSAY-PTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQN------DQYVK 415
+ N+ + AFL + + I ND+ +++ P S LL D+ +
Sbjct: 363 DLNTGLRRVYNKFKEKAFLTLQEKKIVIYENDVSKSIMFLPSSTLLYVKPGRKIFDKQII 422
Query: 416 SEQIIAEIRAGTYTL----NLKEKVRKHIF-----SDSEGEMHW---------STNIYHV 457
E + + ++ + + ++K K+ IF S G++ W ++ +H+
Sbjct: 423 GESVNSNLKNDVFGIEEIRDVKAKISGQIFFPQINSKQFGKIFWIISSIIMSFTSLFFHL 482
Query: 458 S-EFAYSNVHILPKTS 472
+ +F++ N I P T+
Sbjct: 483 TKKFSFKNKLICPTTN 498
Score = 172 bits (431), Expect = 3e-41
Identities = 99/244 (40%), Positives = 144/244 (58%), Gaps = 2/244 (0%)
Query: 1063 LKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQG 1122
L S Q+I + +F R P+ + + + +L + + ++ DI QG
Sbjct: 588 LHSSQIIQERKEFSIFRKVMPFSTNDDTLMRIEDKPFIRKNQLLYRVNFVREKTYDIVQG 647
Query: 1123 LPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKI 1182
LPKVE++LE R S+ + D E L + L+ A + + L++ +
Sbjct: 648 LPKVEKLLEARMTSSLKEIINNPHDILTESFFTFLD-DYENLVAARKSFEVIQKYLIDGV 706
Query: 1183 QRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESI 1242
Q VY+SQGV I ++HIE+IV+QITSKV+V+ G S+ F G+ + L + + L SI
Sbjct: 707 QTVYKSQGVKIADKHIELIVKQITSKVIVTNPGDSS-FMVGDFLDLNLVEVLNKRLVNSI 765
Query: 1243 CYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVG 1302
Y +++G+T+ SL++QSFI++ASFQET RVL KAAL+GR DWL GLKENLVLG IIP G
Sbjct: 766 VYEPIIMGLTRFSLSSQSFIAQASFQETTRVLTKAALQGRADWLSGLKENLVLGNIIPAG 825
Query: 1303 TGFK 1306
TGFK
Sbjct: 826 TGFK 829
>gi|7524893 RNA polymerase beta prime subunit [Chlorella vulgaris]
sp|P12465|RPOD_CHLVU DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||T07323 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - Chlorella
vulgaris chloroplast
dbj|BAA57971.1| (AB001684) RNA polymerase beta prime subunit [Chlorella vulgaris]
Length = 1562
Score = 317 bits (805), Expect = 4e-85
Identities = 170/378 (44%), Positives = 238/378 (61%), Gaps = 15/378 (3%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
+F N +K +I+ +D +G T +++ +K +GF QAT +SLG++DL P
Sbjct: 63 IFFNVSFDKNTLKTVIAWFLDQYGGKATVDLVETLKQVGFHQATRAGVSLGLEDLQIPPQ 122
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNP 127
K + A + + GN+ +VEK ++ I+ W TSE LRQ NF T+P NP
Sbjct: 123 KASFLSAASVSGVEAAQALETGNLTSVEKSQRLIDTWNKTSESLRQAAVHNFRATNPVNP 182
Query: 128 VHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARK 187
V++M+FSGARGN SQV QLV MRGLM+DPQG +++ PIQSN REGL++TEY++SCYGARK
Sbjct: 183 VYMMAFSGARGNISQVRQLVAMRGLMADPQGAILEFPIQSNFREGLTITEYLLSCYGARK 242
Query: 188 GVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIGR 247
G+VDTA+RT+ AGYLTRRLV+ VQH+V+ +C T +GI+ + + Q L+GR
Sbjct: 243 GLVDTALRTASAGYLTRRLVDAVQHVVIYTKNCKTEKGITFKGLH-------IEQNLLGR 295
Query: 248 VLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPI 307
VL D+ + + ++ ++ + L + Q IF+R+P TC+ +C+LCYG
Sbjct: 296 VLLKDVILNTTTVIPKDTLVSSSLAKKLAAI-NQKIFVRSPLTCQTEKTVCQLCYGLDLA 354
Query: 308 HGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTG--GVFTGGTAEYVRSPSNGKIKFNEN 365
G LV GEAVGIIA QSIGEPGTQLT+RTFHTG GVF+ + +P +GKI+F E
Sbjct: 355 QGKLVCFGEAVGIIAAQSIGEPGTQLTMRTFHTGGVGVFSEQAMKSFPAPFDGKIEFQE- 413
Query: 366 SAYP---TRTRHGHPAFL 380
A P RT +G +L
Sbjct: 414 -ALPGRFVRTPYGKIVYL 430
Score = 119 bits (296), Expect = 2e-25
Identities = 71/241 (29%), Positives = 135/241 (55%), Gaps = 12/241 (4%)
Query: 1065 SGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLP 1124
SG+++ + + +R A P+L + +H ++L + IL+T ++ ++ DI QG+P
Sbjct: 1320 SGRILDITATQITVRKALPFLGSRRGLVHVAQNDLLQKNHILMTLRSKQLQTEDIVQGIP 1379
Query: 1125 KVEQVLEVRSI---DSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNK 1181
K+EQ+ E R + I N+ R++++ + FL +L++ + LV
Sbjct: 1380 KIEQLFEARETKDGEIIRYNMHFRLNSFFSLAKRVKP----FLEAFDLSLLYIQRFLVKT 1435
Query: 1182 IQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL--- 1238
+ Y +QGV+I +H+E++VRQ+T++V ++ G PGE I L + R+L
Sbjct: 1436 LLEAYSNQGVNIAEKHVEVVVRQMTARVRITF-GKDTSLLPGEFIQLRLLEEINRSLVEA 1494
Query: 1239 -EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+E Y ++LG+TK+ L ++SF+ ASFQ+ ++VL ++AL + D+L+GL + L +
Sbjct: 1495 KKEPALYEPVILGLTKSVLQSESFLLAASFQQVSKVLVRSALATKTDFLRGLMKPLYVAS 1554
Query: 1298 I 1298
+
Sbjct: 1555 L 1555
>gi|11467568 RNA polymerase beta''-chain [Odontella sinensis]
sp|P49468|RPOD_ODOSI DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||S78373 DNA-directed RNA polymerase (EC 2.7.7.6) beta'' chain - Odontella
sinensis chloroplast
emb|CAA91746.1| (Z67753) RNA polymerase beta''-chain [Odontella sinensis]
Length = 1481
Score = 310 bits (787), Expect = 5e-83
Identities = 179/486 (36%), Positives = 282/486 (57%), Gaps = 24/486 (4%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
+ N +I +K+++S + + D++K LGF+ A+ IS+ I+DL +K
Sbjct: 6 YQNTLISKKQLKQLLSWSFTTYDSMQACSLADELKYLGFKYASKAGISISIEDLKVPYNK 65
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
L++ A Q+ EK + G + VE+ ++ I+ W TSE L+ E+ F DP N V
Sbjct: 66 NLLLKIAHQEINSSEKIYLKGKLTDVERFQKLIDTWNLTSESLKDELVSYFKRYDPLNSV 125
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+IM+FSGARGN SQV QLVGMRGLMSDP G+++ LPI+ N REGL++T+Y++S YGARKG
Sbjct: 126 YIMAFSGARGNLSQVRQLVGMRGLMSDPSGELLKLPIKKNFREGLTITDYLMSGYGARKG 185
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRG-ISVNTRNRMMSERILIQTLIGR 247
++DTA++T+++GYLTRRL++V Q I++R DC T + +N + + ++ + + ++GR
Sbjct: 186 IIDTALKTANSGYLTRRLIDVAQDIIIREKDCLTKHSCLIINFESNLRIKKSVYEKILGR 245
Query: 248 VLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
+L IY I N + LI Q + ++R+P TC IC+ CYG
Sbjct: 246 LLNKSIYDEKTKELIAEVNTQVTPNLIRTLKQKQIKHFYVRSPLTCSLYRSICQKCYGWD 305
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKIKFNEN 365
+ NL+++GE +GIIAGQSIGEPGTQLT+RTFHTGG+FT +RSP +G +KF++
Sbjct: 306 LANENLIDIGERIGIIAGQSIGEPGTQLTMRTFHTGGIFTSEIRGTIRSPISGIVKFSKR 365
Query: 366 -SAYPTRTRHGHPAFLCYID---LYVTIESNDIMHNVIIPPKSFLLVQNDQYVKSEQIIA 421
P RT G L + + E N + + + + +N+QY++ IIA
Sbjct: 366 LKRIPIRTNRGEDVLLTKNAGSLIIIPEEKNSKPVKLELFRNTVVFHKNNQYIQKNAIIA 425
Query: 422 EIRAGTYTLNLKEKVR---KHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKTSHLWILS 478
E+ ++ +++ R K + + + GE+ I + + + KT LWILS
Sbjct: 426 EL------VDDEKQTRTEIKPVLTTTSGEVFIPRII--------NKLDNINKTKLLWILS 471
Query: 479 GNSHKS 484
GN +++
Sbjct: 472 GNVYQA 477
Score = 143 bits (358), Expect = 1e-32
Identities = 93/260 (35%), Positives = 135/260 (51%), Gaps = 53/260 (20%)
Query: 1097 GEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLE-----------KR 1145
GE + G + +EK +GDI QGLP+VEQ+LE R I+ NL
Sbjct: 1206 GEFVKNGQTIGLLNFEKEITGDIVQGLPRVEQLLEARKKKQITKNLPINKKKGLLTQTTS 1265
Query: 1146 IDAW------------NERIT---------GILGIPWRFLIGAELTIAQSRIS------- 1177
ID++ NE+I G+ F T R+
Sbjct: 1266 IDSYFEFKKLGTSIKENEKINPHNLLKVYFNYYGLIKTFFCENSYTKDSYRLFNNYEASY 1325
Query: 1178 ---------LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
++N +Q VY+SQGV I ++H+E+I++Q+T+KVL++ G +++ P E+I L
Sbjct: 1326 RSFKKVQSLILNSVQSVYKSQGVSIADKHLEVIIKQMTTKVLITHQGNTSLL-PREVIDL 1384
Query: 1229 LRAQRTGRAL----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRID 1284
+ + + Y LLLGITK +LN SFIS ASFQET RVL KAA+ GR+D
Sbjct: 1385 YHIEYINKIARIHKKHPALYVPLLLGITKAALNNPSFISAASFQETTRVLTKAAIEGRVD 1444
Query: 1285 WLKGLKENLVLGGIIPVGTG 1304
WL+GLKEN+++G ++P GTG
Sbjct: 1445 WLRGLKENIIIGHLMPAGTG 1464
>gi|12545456 RNA polymerase subunit [Astasia longa]
emb|CAC24617.1| (AJ294725) RNA polymerase subunit [Astasia longa]
Length = 817
Score = 295 bits (747), Expect = 3e-78
Identities = 165/425 (38%), Positives = 253/425 (58%), Gaps = 13/425 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N+++ NK IK +I+ + ++G T+ +LD++K G AT IS+G++DL+
Sbjct: 5 NIIYFNKAFDKIEIKNLINWFLINYGNIKTTKLLDKIKKFGLIHATNAGISIGLNDLIIP 64
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
PSK LV+ + + + K G ++ + L + W +E L+ E N D
Sbjct: 65 PSKKNLVEISNKNLNKINKKFKNGKINLITYLIKEKRTWDNMNENLKIESIKNLKQNDLL 124
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
N ++ M+ SGARGN +QV QL+ MRGL+SD QG +++LPI++N +EGL++ EY ISCYGA
Sbjct: 125 NSLYTMTLSGARGNINQVKQLISMRGLISDSQGNLLNLPIKTNFKEGLNIVEYFISCYGA 184
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSE-RILIQTL 244
RKG++DT+++T++AGYLTRRL+ Q+ ++R+T+C T + + E ++L + L
Sbjct: 185 RKGIIDTSLKTANAGYLTRRLIFASQNTIIRKTNCFTKYKKKIKIKYETKQEFKLLKEEL 244
Query: 245 IGRVLADDI--YIGSRCIVVRNQDIGI---GLINRFINFQTQPIFIRTPFTCRNTSWICR 299
IGR+ I ++ I+ QDI ++N IN I+IRTP C T+ IC+
Sbjct: 245 IGRINVKTIKEKDNNKIIISYGQDICYTFKKILNHNIN-----IYIRTPLNCILTTGICQ 299
Query: 300 LCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGK 359
+CYG + G +VELGE +G IA QSIGEPGTQLT+RTFH GG+FT E + SP GK
Sbjct: 300 MCYGWNLATGKIVELGETIGTIAAQSIGEPGTQLTMRTFHLGGIFTSKIKESILSPFTGK 359
Query: 360 IKFNEN-SAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNV-IIPPKSFLLVQNDQYVKSE 417
I ++ N + T + FL + +TI N+I ++ +PP S++ V+ + V
Sbjct: 360 IWYDLNKNGKKTYNKFNEKIFLTSKEKKITIYENNINKSIYYLPPNSYIFVRPGEKVFKA 419
Query: 418 QIIAE 422
QIIAE
Sbjct: 420 QIIAE 424
Score = 150 bits (376), Expect = 8e-35
Identities = 118/396 (29%), Positives = 191/396 (47%), Gaps = 35/396 (8%)
Query: 937 KEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLITHNKISSIKKNLQLN---KFKE 993
K+E +F KI IS G + + F + Y ++ N I+ K +L FK+
Sbjct: 431 KKENTKFNEVKKIKSNIS-GKKYINKKNKKFNNLYWILNANFITFNKFYHKLTDKLNFKK 489
Query: 994 TFQVIKYYLMDENERIYK--------PDLYNNIILNPFHLNWDFIHPN-YCEKTFPII-- 1042
I + D+N++ K ++ NN+ N FI N K II
Sbjct: 490 KSYTISKNMQDKNKKSKKNLQLKISIKNILNNMEKKKSKTNKKFIFINEILNKNKTIILN 549
Query: 1043 ------------SLGQFICENVCIVQTKNGPNLKSGQVITVQMDFVGIRLANPYLATPGA 1090
+G+FI ++ T NL Q+I + D ++ PY
Sbjct: 550 KPKKEKIINNKWKIGKFILKDEI---TNKNRNLYPSQIIQEKKDTSVLKKVTPYRLNDKI 606
Query: 1091 TIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWN 1150
Y ++ + +L + +K ++ DI QGL ++E++ E + S ++ K +
Sbjct: 607 LDKNPY--IMKKNALLYKAVTKKEKNKDIIQGLVEIEKLFEAKK--SFIIDKTKNLHEIL 662
Query: 1151 ERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVL 1210
+ + + +I + ++ +IQ +Y+ QG++I N+HIEII++Q+TSKV+
Sbjct: 663 KDLFVNYNKKYNNSTSTRKSIEIIQKYILEEIQSIYKEQGINISNKHIEIIIKQMTSKVI 722
Query: 1211 VSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQET 1270
+ G S F GE+ + + E I Y +LLGITK+SL TQSFIS+ +FQE+
Sbjct: 723 IKNAGNSP-FIVGEICNINSIDNLNKNYEHKIIYEPILLGITKSSLYTQSFISQITFQES 781
Query: 1271 ARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFK 1306
+ L KAA+ +IDWL GLKENL+LG +IP+GTGFK
Sbjct: 782 IKSLIKAAIENKIDWLYGLKENLILGNLIPIGTGFK 817
>emb|CAA36511.1| (X52270) RNA polymerase beta'' subunit, partial (213 AA) [Zea mays]
Length = 212
Score = 272 bits (687), Expect = 3e-71
Identities = 141/171 (82%), Positives = 152/171 (88%), Gaps = 2/171 (1%)
Query: 1156 ILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDG 1215
ILG+PW FLIGAELTIAQSRISLVNKIQ+VYRSQGV IHNRHIEII+RQ+TSKV VSEDG
Sbjct: 1 ILGVPWGFLIGAELTIAQSRISLVNKIQKVYRSQGVQIHNRHIEIIIRQVTSKVRVSEDG 60
Query: 1216 MSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
MSNVF PGELIGLLRA+R GRAL+ESI YR +LLGIT+ SLNTQSFISEASFQETARVLA
Sbjct: 61 MSNVFLPGELIGLLRAERAGRALDESIYYRAILLGITRASLNTQSFISEASFQETARVLA 120
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSARQDTKITLETIK 1326
KAALRGRIDWLKGLKEN+VLGGIIPVGTGF+K RS QD + LE K
Sbjct: 121 KAALRGRIDWLKGLKENVVLGGIIPVGTGFQKFVHRSP--QDKNLYLEIQK 169
>pir||F75461 DNA-directed RNA polymerase, beta' subunit - Deinococcus radiodurans
(strain R1)
gb|AAF10485.1|AE001943_5 (AE001943) DNA-directed RNA polymerase, beta` subunit [Deinococcus
radiodurans]
Length = 1546
Score = 266 bits (673), Expect = 1e-69
Identities = 138/342 (40%), Positives = 211/342 (61%), Gaps = 14/342 (4%)
Query: 18 AIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQ 77
A+K ++ H G+ T+ +LD +K GF+ +TT+ I++GIDD++ P+KG L+ +A+Q
Sbjct: 928 ALKDMVMACFKHLGIEATAGLLDGLKEGGFKLSTTSGITIGIDDIVLPPNKGELLAEADQ 987
Query: 78 QSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGAR 137
+E++ +G + E+ +Q +++W T++ ++ + NFS PFNP+ IMS SGAR
Sbjct: 988 MLAEIEQNFEFGFMTEEERYKQVVQLWNNTTDAVKDAVFENFSKNYPFNPLWIMSQSGAR 1047
Query: 138 GNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTS 197
GN Q+ QL GMRGLM+ P G I++PI+++ REGL++ EY IS +GARKG DTA+RT+
Sbjct: 1048 GNPQQIRQLAGMRGLMARPDGSTIEVPIRASFREGLTVLEYFISTHGARKGGADTALRTA 1107
Query: 198 DAGYLTRRLVEVVQHIVVRRTDCG----TVRGISVNT------RNRMMSERILIQTLIGR 247
D+GYLTR+LV+V +VVR DCG TV + R+R SE + ++ GR
Sbjct: 1108 DSGYLTRKLVDVAHEVVVRDVDCGSTDSTVMPLGATDERTGEWRSRKGSE--IETSIYGR 1165
Query: 248 VLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQ--PIFIRTPFTCRNTSWICRLCYGRS 305
L D+ ++ + + + + +F+RTP CR + +C+ CYG
Sbjct: 1166 TLTADVEFSDGRVIPEGEMLSMEDVKAIAKDAKHIGEVFVRTPLNCRVKAGVCQKCYGYD 1225
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGG 347
V +GEAVG++A +SIGEPGTQLT+RTFHTGG+ GG
Sbjct: 1226 LSQAKPVSMGEAVGVVAAESIGEPGTQLTMRTFHTGGIAGGG 1267
Score = 116 bits (289), Expect = 1e-24
Identities = 63/144 (43%), Positives = 94/144 (64%), Gaps = 4/144 (2%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
LV ++QRVYRSQGV +H++HIE+IVRQ+ V V++ G + + G+ + + A
Sbjct: 1369 LVEEVQRVYRSQGVKVHDKHIEVIVRQMLRWVEVTDGGDTTLLE-GQTVEHWEVDQANEA 1427
Query: 1238 LEES---ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
L E ++ +LLGITK+SL T+S++S ASFQ T VL +A++RG++D L GLKEN++
Sbjct: 1428 LAEGQTPASWKPVLLGITKSSLTTKSWLSAASFQHTTHVLTEASMRGQVDDLIGLKENVI 1487
Query: 1295 LGGIIPVGTGFKKIGDRSSARQDT 1318
LG +IP GTG + + A T
Sbjct: 1488 LGKLIPAGTGLLTVREMQVADDRT 1511
>sp|O67763|RPOC_AQUAE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||G70466 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Aquifex
aeolicus
gb|AAC07724.1| (AE000764) RNA polymerase beta prime subunit [Aquifex aeolicus]
Length = 1574
Score = 266 bits (672), Expect = 2e-69
Identities = 159/433 (36%), Positives = 237/433 (54%), Gaps = 25/433 (5%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + + ++I+ L G T LD+VK LGF ++T IS+G++DL +K
Sbjct: 707 FVNKTLDKKGLSKLITELYIRVGNEETVKFLDRVKELGFLRSTLAGISIGVEDLQVPKAK 766
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD----- 123
++++A +++ + + G + E+ + I++W + + + M +
Sbjct: 767 KKIIEEALKKTEEIWNQYVQGIITNKERYNRIIDVWSEATNLVSKAMFEEIEKSKRIENG 826
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FNP+++M+ SGARGN Q+ QL GMRGLM+ G+ I+ PI SN REGLS+ EY
Sbjct: 827 KEYPGTFNPIYMMAISGARGNRDQIRQLAGMRGLMAKHSGEFIETPIISNFREGLSVLEY 886
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS YGARKG+ DTA++T+ AGYLTRRLV+V Q I + DCGTV+G + ER
Sbjct: 887 FISTYGARKGLADTALKTAFAGYLTRRLVDVAQDITITERDCGTVKGFEMEPIVEAGEER 946
Query: 239 I-LIQTLIGRVLADDI---YIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNT 294
+ L + GRVLA+D+ Y G I RN+ I L + + + +R+P TC
Sbjct: 947 VPLKDRIFGRVLAEDVKDPYTG-EIIARRNEVIDEKLAEKITKAGIEKVRVRSPLTCEAK 1005
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVR 353
+C +CYG +V +GEAVGIIA QSIGEPGTQLT+RTFH GG T + +V+
Sbjct: 1006 HGVCAMCYGWDLSQRKIVSVGEAVGIIAAQSIGEPGTQLTMRTFHIGGAATAQKVQSFVK 1065
Query: 354 SPSNGKIKFNENSAYPTRTRH----GHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQ 409
+ S+GK+KF R A + +D E ++ IP + +LV+
Sbjct: 1066 AESDGKVKFYNVKLIVNRKGEKINISKDAAIGIVD-----EEGRLLERHTIPYGARILVE 1120
Query: 410 NDQYVKSEQIIAE 422
Q VK+E +A+
Sbjct: 1121 EGQEVKAETKLAD 1133
Score = 103 bits (255), Expect = 1e-20
Identities = 58/134 (43%), Positives = 89/134 (66%), Gaps = 11/134 (8%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIG-------LLR 1230
L+ ++Q VY+ QGV I+++H EII++Q+ KV + + G S F GE + + R
Sbjct: 1418 LLKEVQMVYKLQGVDINDKHFEIIIKQMLKKVRIIDPGDSR-FLVGEEVDKEELEEEIQR 1476
Query: 1231 AQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
+ G L ++ +L+GIT+ +L+T+S+IS ASFQET RVL A++ G+ID L+GLK
Sbjct: 1477 IKLEGGKLPKA---EPVLVGITRAALSTRSWISAASFQETTRVLTDASVEGKIDELRGLK 1533
Query: 1291 ENLVLGGIIPVGTG 1304
EN+++G IIP GTG
Sbjct: 1534 ENVIIGNIIPAGTG 1547
>sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1199
Score = 260 bits (658), Expect = 7e-68
Identities = 140/341 (41%), Positives = 212/341 (62%), Gaps = 11/341 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N F ++G +II+ + F + TS +LD++K LGF+ +T I++G+ D++ +
Sbjct: 612 NAPFKKGILG-----KIIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVL 666
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
K ++++A+ + + K G + E+ + I IW A + ++ ++ + D
Sbjct: 667 DDKQEILEEAQSKVDNVMKQFRRGLITEEERYERVISIWSAAKDVIQGKLMKSL---DEL 723
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP+++MS SGARGNAS QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS +GA
Sbjct: 724 NPIYMMSDSGARGNASNFTQLAGMRGLMANPAGRIIELPIKSSFREGLTVLEYFISTHGA 783
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERILIQTL 244
RKG+ DTA++T+D+GYLTRRLV+V Q +++R TDCGT RGI + + L + L
Sbjct: 784 RKGLADTALKTADSGYLTRRLVDVAQDVIIRETDCGTDRGILAKPLKEGTETIERLEERL 843
Query: 245 IGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
IGR + +V N+ I + + ++IR+ FTC +C+ CY
Sbjct: 844 IGRFARKQVKHPETGEVLVNENELIDEDKALEIVEAGIEEVWIRSAFTCNTPHGVCKRCY 903
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GR+ G+ VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 904 GRNLATGSDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
Score = 113 bits (279), Expect = 2e-23
Identities = 80/235 (34%), Positives = 121/235 (51%), Gaps = 48/235 (20%)
Query: 1118 DITQGLPKVEQVLEVRS---------IDSISMNLEKRIDA------------------WN 1150
DITQGLP+++++ E R+ ID + + + D +N
Sbjct: 948 DITQGLPRIQELFEARNPKGQATITEIDGTVVEINEVRDKQQEIVVQGAVETRSYTAPYN 1007
Query: 1151 ERI--------------TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNR 1196
R+ TG P L +LT Q L++++Q+VYR QGV I ++
Sbjct: 1008 SRLKVAEGDKITRGQVLTGGSIDPKELLKVTDLTTVQEY--LLHEVQKVYRMQGVEIGDK 1065
Query: 1197 HIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGIT 1252
H+E++VRQ+ KV V + G ++V PG L+ + + + + R +LLGIT
Sbjct: 1066 HVEVMVRQMLRKVRVIDAGDTDVL-PGTLLDIHQFTEANKKVLLEGNRPATGRPVLLGIT 1124
Query: 1253 KTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
K SL T SF+S ASFQET RVL AA++G+ D L GLKEN+++G ++P GT K
Sbjct: 1125 KASLETDSFLSAASFQETTRVLTDAAIKGKRDELLGLKENVIIGKLVPGGTAMMK 1179
>sp|Q9X6Y2|RPOC_AQUPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA52958.1| (X75046) DNA dependent RNA polymerase [Aquifex pyrophilus]
Length = 1576
Score = 259 bits (654), Expect = 2e-67
Identities = 148/369 (40%), Positives = 216/369 (58%), Gaps = 16/369 (4%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F N+ + + ++I+ L G T LD+VK LGF ++T IS+GIDDL K
Sbjct: 707 FVNETLDKKRLSKLITNLYIAVGNEETVKFLDRVKELGFLRSTLAGISIGIDDLQVPKVK 766
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWY----ATSEYLRQEMNPNFSMTD- 123
++++A +++ + + G + E+ + I++W A S+ + +E+ + + +
Sbjct: 767 EKIIKEALKKTEEIWNQYVQGIITNKERYNRIIDVWSEATNAVSKAMFEEIEHSTEIRNG 826
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FNP+++M+ SGARGN Q+ QL GMRGLM+ G+ I+ PI SN REGLS+ EY
Sbjct: 827 KEYPGTFNPIYMMAVSGARGNRDQIRQLAGMRGLMAKHSGEFIETPIISNFREGLSVLEY 886
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS YGARKG+ DTA++T+ AGYLTRRLV+V Q I + DCGTV+G + ER
Sbjct: 887 FISTYGARKGLADTALKTAFAGYLTRRLVDVAQDITITEKDCGTVKGFEMEPIVEAGEER 946
Query: 239 I-LIQTLIGRVLADDI---YIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNT 294
+ L + GRVLA+D+ Y G I RN+ + L R + + +R+P TC
Sbjct: 947 VPLKDRIFGRVLAEDVKDPYTG-EVIAKRNEVVDEKLAERIARAGIEKVKVRSPLTCEAK 1005
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVR 353
+C +CYG +V +GEAVGIIA QSIGEPGTQLT+RTFH GG T + +V+
Sbjct: 1006 HGVCAMCYGWDLSQRKIVSVGEAVGIIAAQSIGEPGTQLTMRTFHIGGAATAQKVQSFVK 1065
Query: 354 SPSNGKIKF 362
+ S G +KF
Sbjct: 1066 TESEGTVKF 1074
Score = 104 bits (256), Expect = 9e-21
Identities = 58/134 (43%), Positives = 89/134 (66%), Gaps = 11/134 (8%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIG-------LLR 1230
L+ ++Q VY+ QGV I+++H EII+RQ+ KV + + G S F GE + + R
Sbjct: 1418 LLKEVQMVYKLQGVDINDKHFEIIIRQMLKKVRIIDPGDSR-FLVGEEVDKEELEEEIQR 1476
Query: 1231 AQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
+ G L ++ +L+GIT+ +L+T+S+IS ASFQET RVL A++ G+ID L+GLK
Sbjct: 1477 IKLEGGKLPKA---EPVLVGITRAALSTRSWISAASFQETTRVLTDASVEGKIDELRGLK 1533
Query: 1291 ENLVLGGIIPVGTG 1304
EN+++G +IP GTG
Sbjct: 1534 ENVIIGNLIPAGTG 1547
>sp|Q9Z9M1|RPOC_BACHD DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||T44376 rpoC protein [imported] - Bacillus halodurans
dbj|BAA75264.1| (AB017508) rpoC homologue (identity of 85% to B. subtilis )
[Bacillus halodurans]
dbj|BAB03846.1| (AP001507) DNA-directed RNA polymerase beta' subunit [Bacillus
halodurans]
Length = 1206
Score = 259 bits (654), Expect = 2e-67
Identities = 141/327 (43%), Positives = 207/327 (63%), Gaps = 10/327 (3%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + F + TS +LD++K LGF+ +T I++G+ D++ +P K ++ +AE++
Sbjct: 623 IIAEVFKKFKITETSKMLDRMKDLGFKYSTKAGITVGVADIVVLPEKKEILAEAEKKVDR 682
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I IW + ++ ++ D NP+ +MS SGARGNAS
Sbjct: 683 VLKQFRRGLITEEERYDRVISIWSEAKDVIQDKL---MGSLDKRNPIFMMSDSGARGNAS 739
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS +GARKG+ DTA++T+D+GY
Sbjct: 740 NFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFISTHGARKGLADTALKTADSGY 799
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNT---RNRMMSERILIQTLIGRVLADDIY--IG 256
LTRRLV+V Q ++VR DCGT RG+ V N ++ L L+GRV +
Sbjct: 800 LTRRLVDVAQDVIVREDDCGTDRGLEVEAIKEGNEIIEG--LYDRLVGRVAFKTVRHPET 857
Query: 257 SRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGE 316
IV +N+ I L + + + + IR+ FTC +C+ CYGR+ G+ VE+GE
Sbjct: 858 GEPIVKKNELIHEDLAKQIVEAGVEQVTIRSVFTCDTRHGVCKKCYGRNLATGSDVEVGE 917
Query: 317 AVGIIAGQSIGEPGTQLTLRTFHTGGV 343
AVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 918 AVGIIAAQSIGEPGTQLTMRTFHTGGV 944
Score = 118 bits (294), Expect = 3e-25
Identities = 78/231 (33%), Positives = 121/231 (51%), Gaps = 42/231 (18%)
Query: 1118 DITQGLPKVEQVLEVRS-------------IDSISMNLEKRIDAWNERITGILGIPWRFL 1164
DITQGLP+++++ E R+ + +I+ ++ I E T IP+
Sbjct: 948 DITQGLPRIQELFEARNPKGQAVITEIEGEVTNINEADKREITVKGEMETKTYSIPYGAR 1007
Query: 1165 IGAEL--------TIAQSRIS----------------LVNKIQRVYRSQGVHIHNRHIEI 1200
I EL ++ + I L+ ++Q+VYR QGV I ++H+E+
Sbjct: 1008 IKVELGEQVVPGQSLTEGSIDPKELLKVQGMTGVQEYLLREVQKVYRMQGVEIGDKHVEV 1067
Query: 1201 IVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGITKTSL 1256
+VRQ+ K+ V + G + V PG LI + + + + R +LLGITK SL
Sbjct: 1068 MVRQMLRKIRVIDAGDTEVL-PGSLIEIQHFNDENKKVLLSGKRPATGRPVLLGITKASL 1126
Query: 1257 NTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
T SF+S ASFQET RVL AA++G+ D L GLKEN+++G ++P GTG +
Sbjct: 1127 ETDSFLSAASFQETTRVLTDAAIKGKRDELVGLKENVIIGKLVPAGTGMNR 1177
>emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' chain (fragment)
[Streptomyces coelicolor A3(2)]
Length = 1059
Score = 258 bits (653), Expect = 3e-67
Identities = 136/335 (40%), Positives = 204/335 (60%), Gaps = 8/335 (2%)
Query: 14 IGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQ 73
+G + I++ L + + + LD +K GF AT + +++ I D++ +K +V+
Sbjct: 683 VGKKQLSEIVNDLAERYPKVIVAATLDNLKAAGFFWATRSGVTVAISDIVVPDAKKEIVK 742
Query: 74 DAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSF 133
E Q ++K + G + E+ ++ I IW + + + MN NF T NPV +M
Sbjct: 743 GYEGQDEKVQKQYERGLITKEERTQELIAIWTKATNEVAEAMNDNFPKT---NPVSMMVN 799
Query: 134 SGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTA 193
SGARGN Q+ Q+ GMRGL+S+ + + I PI+++ REGLS+ EY IS +GARKG+ DTA
Sbjct: 800 SGARGNMMQMRQIAGMRGLVSNAKNETIPRPIKASFREGLSVLEYFISTHGARKGLADTA 859
Query: 194 VRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNR-----MMSERILIQTLIGRV 248
+RT+D+GYLTRRLV+V Q +++R DCGT RG+ + R + + ++ R+
Sbjct: 860 LRTADSGYLTRRLVDVSQDVIIREEDCGTERGLKLPIATRDADGTLRKAEDVETSVYARM 919
Query: 249 LADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIH 308
LA+D+ I + I N D+G LI+ + + + R+ TC + C +CYGRS
Sbjct: 920 LAEDVVIDGKVIAPANVDLGDVLIDALVAHGVEEVKTRSILTCESQVGTCAMCYGRSLAT 979
Query: 309 GNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G LV++GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 980 GKLVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 1014
>pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subtilis
emb|CAB11884.1| (Z99104) RNA polymerase (beta' subunit) [Bacillus subtilis]
Length = 1199
Score = 258 bits (653), Expect = 3e-67
Identities = 140/341 (41%), Positives = 211/341 (61%), Gaps = 11/341 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N F ++G +II+ + F + TS +LD++K LGF+ +T I++G+ D++ +
Sbjct: 612 NAPFKKGILG-----KIIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVL 666
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
K ++++A+ + + K G + E+ + I IW A + ++ ++ + D
Sbjct: 667 DDKQEILEEAQSKVDNVMKQFRRGLITEEERYERVISIWSAAKDVIQGKLMKSL---DEL 723
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP+++MS SGARGNAS QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS GA
Sbjct: 724 NPIYMMSDSGARGNASNFTQLAGMRGLMANPAGRIIELPIKSSFREGLTVLEYFISTPGA 783
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERILIQTL 244
RKG+ DTA++T+D+GYLTRRLV+V Q +++R TDCGT RGI + + L + L
Sbjct: 784 RKGLADTALKTADSGYLTRRLVDVAQDVIIRETDCGTDRGILAKPLKEGTETIERLEERL 843
Query: 245 IGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
IGR + +V N+ I + + ++IR+ FTC +C+ CY
Sbjct: 844 IGRFARKQVKHPETGEVLVNENELIDEDKALEIVEAGIEEVWIRSAFTCNTPHGVCKRCY 903
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GR+ G+ VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 904 GRNLATGSDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
Score = 113 bits (279), Expect = 2e-23
Identities = 80/235 (34%), Positives = 121/235 (51%), Gaps = 48/235 (20%)
Query: 1118 DITQGLPKVEQVLEVRS---------IDSISMNLEKRIDA------------------WN 1150
DITQGLP+++++ E R+ ID + + + D +N
Sbjct: 948 DITQGLPRIQELFEARNPKGQATITEIDGTVVEINEVRDKQQEIVVQGAVETRSYTAPYN 1007
Query: 1151 ERI--------------TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNR 1196
R+ TG P L +LT Q L++++Q+VYR QGV I ++
Sbjct: 1008 SRLKVAEGDKITRGQVLTGGSIDPKELLKVTDLTTVQEY--LLHEVQKVYRMQGVEIGDK 1065
Query: 1197 HIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGIT 1252
H+E++VRQ+ KV V + G ++V PG L+ + + + + R +LLGIT
Sbjct: 1066 HVEVMVRQMLRKVRVIDAGDTDVL-PGTLLDIHQFTEANKKVLLEGNRPATGRPVLLGIT 1124
Query: 1253 KTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
K SL T SF+S ASFQET RVL AA++G+ D L GLKEN+++G ++P GT K
Sbjct: 1125 KASLETDSFLSAASFQETTRVLTDAAIKGKRDELLGLKENVIIGKLVPGGTAMMK 1179
>dbj|BAA10999.1| (D64127) RNA polymerase beta' subunit [Bacillus subtilis]
Length = 747
Score = 258 bits (653), Expect = 3e-67
Identities = 140/341 (41%), Positives = 211/341 (61%), Gaps = 11/341 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N F ++G +II+ + F + TS +LD++K LGF+ +T I++G+ D++ +
Sbjct: 160 NAPFKKGILG-----KIIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVL 214
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
K ++++A+ + + K G + E+ + I IW A + ++ ++ + D
Sbjct: 215 DDKQEILEEAQSKVDNVMKQFRRGLITEEERYERVISIWSAAKDVIQGKLMKSL---DEL 271
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP+++MS SGARGNAS QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS GA
Sbjct: 272 NPIYMMSDSGARGNASNFTQLAGMRGLMANPAGRIIELPIKSSFREGLTVLEYFISTPGA 331
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSERILIQTL 244
RKG+ DTA++T+D+GYLTRRLV+V Q +++R TDCGT RGI + + L + L
Sbjct: 332 RKGLADTALKTADSGYLTRRLVDVAQDVIIRETDCGTDRGILAKPLKEGTETIERLEERL 391
Query: 245 IGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
IGR + +V N+ I + + ++IR+ FTC +C+ CY
Sbjct: 392 IGRFARKQVKHPETGEVLVNENELIDEDKALEIVEAGIEEVWIRSAFTCNTPHGVCKRCY 451
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GR+ G+ VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 452 GRNLATGSDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 492
Score = 113 bits (279), Expect = 2e-23
Identities = 80/235 (34%), Positives = 121/235 (51%), Gaps = 48/235 (20%)
Query: 1118 DITQGLPKVEQVLEVRS---------IDSISMNLEKRIDA------------------WN 1150
DITQGLP+++++ E R+ ID + + + D +N
Sbjct: 496 DITQGLPRIQELFEARNPKGQATITEIDGTVVEINEVRDKQQEIVVQGAVETRSYTAPYN 555
Query: 1151 ERI--------------TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNR 1196
R+ TG P L +LT Q L++++Q+VYR QGV I ++
Sbjct: 556 SRLKVAEGDKITRGQVLTGGSIDPKELLKVTDLTTVQEY--LLHEVQKVYRMQGVEIGDK 613
Query: 1197 HIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGIT 1252
H+E++VRQ+ KV V + G ++V PG L+ + + + + R +LLGIT
Sbjct: 614 HVEVMVRQMLRKVRVIDAGDTDVL-PGTLLDIHQFTEANKKVLLEGNRPATGRPVLLGIT 672
Query: 1253 KTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
K SL T SF+S ASFQET RVL AA++G+ D L GLKEN+++G ++P GT K
Sbjct: 673 KASLETDSFLSAASFQETTRVLTDAAIKGKRDELLGLKENVIIGKLVPGGTAMMK 727
>emb|CAB65466.3| (Y19223) RNA polymerase, beta-prime subunit [Thermus aquaticus]
Length = 1524
Score = 254 bits (642), Expect = 5e-66
Identities = 139/341 (40%), Positives = 210/341 (60%), Gaps = 13/341 (3%)
Query: 18 AIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQ 77
++K ++ + GM T+ +LD +K GF +TT+ I++GIDD + K +++A++
Sbjct: 910 SLKDLVYQAFLRLGMEKTARLLDALKYYGFTLSTTSGITIGIDDAVIPEEKQRYLEEADR 969
Query: 78 QSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGAR 137
+ +E+ + G + E+ Q I++W T+E + Q + NF PFNP+++M+ SGAR
Sbjct: 970 KLRQIEQAYEMGFLTDRERYDQVIQLWTETTEKVTQAVFKNFEENYPFNPLYVMAQSGAR 1029
Query: 138 GNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTS 197
GN Q+ QL GMRGLM P G+ ++P++S+ REGL++ EY IS +GARKG DTA+RT+
Sbjct: 1030 GNPQQIRQLCGMRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADTALRTA 1089
Query: 198 DAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-------TRNRMMSERILIQT-LIGRVL 249
D+GYLTR+LV+V IVVR DCGT ISV TR + +R I++ L GRVL
Sbjct: 1090 DSGYLTRKLVDVAHEIVVREADCGTTNYISVPLFQMDEVTRTLRLRKRSDIESGLYGRVL 1149
Query: 250 ADDIYIGSRCI----VVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
A ++ R + + +D+ LI + + + +R+P TC+ +C+ CYG
Sbjct: 1150 AREVEALGRRLEEGRYLSLEDVHF-LIKAAEAGEVREVPVRSPLTCQTRYGVCQKCYGYD 1208
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG 346
V +GEAVG++A +SIGEPGTQLT+RTFHTGGV G
Sbjct: 1209 LSMARPVSIGEAVGVVAAESIGEPGTQLTMRTFHTGGVAVG 1249
Score = 109 bits (270), Expect = 2e-22
Identities = 57/131 (43%), Positives = 91/131 (68%), Gaps = 5/131 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
LV++IQ+VYR+QGV +H++HIEI+VRQ+ V V++ G S + G+++ +
Sbjct: 1348 LVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDSRLLE-GQVLEKWDVEALNER 1406
Query: 1238 L----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
L + + ++ LL+G+TK++L+T+S++S ASFQ T VL +AA+ G+ D L GLKEN+
Sbjct: 1407 LIAEGKVPVAWKPLLMGVTKSALSTKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENV 1466
Query: 1294 VLGGIIPVGTG 1304
+LG +IP GTG
Sbjct: 1467 ILGRLIPAGTG 1477
>sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 253 bits (640), Expect = 9e-66
Identities = 138/338 (40%), Positives = 208/338 (60%), Gaps = 11/338 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F K++G II+ + F + TS +LD++K LGF+ +T +++GI D+LT+ K
Sbjct: 615 FKKKILGN-----IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGMTVGIADILTLEEK 669
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
+++ A + K G + E+ + I +W A + ++ ++ D NP+
Sbjct: 670 HEILEKAHDTVEKITKSFRRGLITDDERYERVIGVWNAAKDEIQGKL---ILSLDRLNPI 726
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+M SGARGN S QL GMRGLM+DP G++++LPI SN REGL+++EY IS +GARKG
Sbjct: 727 FMMQDSGARGNISNFTQLAGMRGLMADPSGRIVELPITSNFREGLTVSEYFISTHGARKG 786
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIGR 247
+ DTA++T+D+GYLTRRLV+V Q +++R DCGT RG+++ R L + L GR
Sbjct: 787 LTDTALKTADSGYLTRRLVDVAQDVIIREDDCGTDRGLTIKAIREGTEIIEPLEERLEGR 846
Query: 248 VLADDI-YIGSRCIVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
I + ++ ++ R D I + + ++ + + IR+ FTC +C+ CYG++
Sbjct: 847 YSRKTIRHPETKEVIARENDLITEAIATQIVDAGIEEVTIRSAFTCNTKHGVCKKCYGKN 906
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 907 LATGTEVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
>sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1052
Score = 253 bits (640), Expect = 9e-66
Identities = 139/340 (40%), Positives = 208/340 (60%), Gaps = 15/340 (4%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F K++G II+ + F + TS +LD++K LGF+ +T I++G+ D+L + K
Sbjct: 615 FSKKILGN-----IIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVGVSDILVLGEK 669
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ +A+ + + K G + E+ + I IW + ++ ++ + + NP+
Sbjct: 670 DEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKSLNKR---NPI 726
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+MS SGARGN S QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS +GARKG
Sbjct: 727 FMMSDSGARGNXSNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFISTHGARKG 786
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGI---SVNTRNRMMSERILIQTLI 245
+ DTA++T+D+GYLTRRLV+V Q ++VR DCGT RG+ ++ N ++ L L+
Sbjct: 787 LADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIES--LYDRLV 844
Query: 246 GRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GR + +V NQ I + + N + + IR+ FTC +C+ CYG
Sbjct: 845 GRFARKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVCKKCYG 904
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ G VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 905 RNLATGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
>pir||T09641 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Listeria
innocua (fragment)
emb|CAA61513.1| (X89229) DNA-directed RNA polymerase [Listeria innocua]
Length = 1053
Score = 253 bits (640), Expect = 9e-66
Identities = 138/338 (40%), Positives = 208/338 (60%), Gaps = 11/338 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F K++G II+ + F + TS +LD++K LGF+ +T +++GI D+LT+ K
Sbjct: 615 FKKKILGN-----IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGMTVGIADILTLEEK 669
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
+++ A + K G + E+ + I +W A + ++ ++ D NP+
Sbjct: 670 HEILEKAHDTVEKITKSFRRGLITDDERYERVIGVWNAAKDEIQGKL---ILSLDRLNPI 726
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+M SGARGN S QL GMRGLM+DP G++++LPI SN REGL+++EY IS +GARKG
Sbjct: 727 FMMQDSGARGNISNFTQLAGMRGLMADPSGRIVELPITSNFREGLTVSEYFISTHGARKG 786
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIGR 247
+ DTA++T+D+GYLTRRLV+V Q +++R DCGT RG+++ R L + L GR
Sbjct: 787 LTDTALKTADSGYLTRRLVDVAQDVIIREDDCGTDRGLTIKAIREGTEIIEPLEERLEGR 846
Query: 248 VLADDI-YIGSRCIVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
I + ++ ++ R D I + + ++ + + IR+ FTC +C+ CYG++
Sbjct: 847 YSRKTIRHPETKEVIARENDLITEAIATQIVDAGIEEVTIRSAFTCNTKHGVCKKCYGKN 906
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 907 LATGTEVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
>emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus anthracis]
Length = 1052
Score = 253 bits (640), Expect = 9e-66
Identities = 139/340 (40%), Positives = 208/340 (60%), Gaps = 15/340 (4%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F K++G II+ + F + TS +LD++K LGF+ +T I++G+ D+L + K
Sbjct: 615 FSKKILGN-----IIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVGVSDILVLGEK 669
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ +A+ + + K G + E+ + I IW + ++ ++ + + NP+
Sbjct: 670 DEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKSLNKR---NPI 726
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+MS SGARGN S QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS +GARKG
Sbjct: 727 FMMSDSGARGNXSNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFISTHGARKG 786
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGI---SVNTRNRMMSERILIQTLI 245
+ DTA++T+D+GYLTRRLV+V Q ++VR DCGT RG+ ++ N ++ L L+
Sbjct: 787 LADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIES--LYDRLV 844
Query: 246 GRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GR + +V NQ I + + N + + IR+ FTC +C+ CYG
Sbjct: 845 GRFARKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVCKKCYG 904
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ G VE+GEAVGIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 905 RNLATGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGV 944
>sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 252 bits (636), Expect = 3e-65
Identities = 137/325 (42%), Positives = 202/325 (62%), Gaps = 6/325 (1%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + F + TS +LD++K LGF+ +T I++GI D+LT+ K +++ A +
Sbjct: 623 IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGITVGIADILTLQEKPEILEKAHDKVEK 682
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I +W A + ++ ++ + NP+ +M SGARGN S
Sbjct: 683 ITKQFRRGLITGDERYERVIGVWNAAKDEIQNKL---ILSLERLNPIFMMQDSGARGNIS 739
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+DP G++++LPI SN REGL++ EY IS +GARKG+ DTA++T+D+GY
Sbjct: 740 NFTQLAGMRGLMADPSGRIVELPITSNFREGLTVLEYFISTHGARKGLTDTALKTADSGY 799
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIGRVLADDI-YIGSRC 259
LTRRLV+V Q +++R DCGT RG+++ R L + L GR I + +
Sbjct: 800 LTRRLVDVAQDVIIREDDCGTDRGLTIKAIREGTEIIEPLEERLEGRYARKTIRHPETNE 859
Query: 260 IVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAV 318
I+V+ D I + + I + + IR+ FTC +C+ CYG++ G VE+GEAV
Sbjct: 860 IIVKENDLITEDIAVQIIGAGIEEVSIRSAFTCNTKHGVCKKCYGKNLATGTEVEVGEAV 919
Query: 319 GIIAGQSIGEPGTQLTLRTFHTGGV 343
GIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 920 GIIAAQSIGEPGTQLTMRTFHTGGV 944
>pir||T09645 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Listeria
murrayi (fragment)
emb|CAA61512.1| (X89228) DNA-directed RNA polymerase [Listeria murrayi]
Length = 1053
Score = 252 bits (636), Expect = 3e-65
Identities = 137/325 (42%), Positives = 202/325 (62%), Gaps = 6/325 (1%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + F + TS +LD++K LGF+ +T I++GI D+LT+ K +++ A +
Sbjct: 623 IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGITVGIADILTLQEKPEILEKAHDKVEK 682
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I +W A + ++ ++ + NP+ +M SGARGN S
Sbjct: 683 ITKQFRRGLITGDERYERVIGVWNAAKDEIQNKL---ILSLERLNPIFMMQDSGARGNIS 739
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+DP G++++LPI SN REGL++ EY IS +GARKG+ DTA++T+D+GY
Sbjct: 740 NFTQLAGMRGLMADPSGRIVELPITSNFREGLTVLEYFISTHGARKGLTDTALKTADSGY 799
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIGRVLADDI-YIGSRC 259
LTRRLV+V Q +++R DCGT RG+++ R L + L GR I + +
Sbjct: 800 LTRRLVDVAQDVIIREDDCGTDRGLTIKAIREGTEIIEPLEERLEGRYARKTIRHPETNE 859
Query: 260 IVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAV 318
I+V+ D I + + I + + IR+ FTC +C+ CYG++ G VE+GEAV
Sbjct: 860 IIVKENDLITEDIAVQIIGAGIEEVSIRSAFTCNTKHGVCKKCYGKNLATGTEVEVGEAV 919
Query: 319 GIIAGQSIGEPGTQLTLRTFHTGGV 343
GIIA QSIGEPGTQLT+RTFHTGGV
Sbjct: 920 GIIAAQSIGEPGTQLTMRTFHTGGV 944
>pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 1265
Score = 250 bits (631), Expect = 1e-64
Identities = 139/342 (40%), Positives = 211/342 (61%), Gaps = 14/342 (4%)
Query: 18 AIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSI-SLGIDDLLTIPSKGWLVQDAE 76
++K ++ + GM T+ +LD +K GF +TT+ I ++GIDD + K +++A+
Sbjct: 650 SLKDLVYQAFLRLGMEKTARLLDALKYYGFTLSTTSGIITIGIDDAVIPEEKQRYLEEAD 709
Query: 77 QQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGA 136
++ +E+ + G + E+ Q I++W T+E + Q + NF PFNP+++M+ SGA
Sbjct: 710 RKLRQIEQAYEMGFLTDRERYDQVIQLWTETTEKVTQAVFNNFEENYPFNPLYVMAQSGA 769
Query: 137 RGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT 196
RGN Q+ QL GMRGLM P G+ ++P++S+ REGL++ EY IS +GARKG DTA+RT
Sbjct: 770 RGNPQQIRQLCGMRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADTALRT 829
Query: 197 SDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-------TRNRMMSERILIQT-LIGRV 248
+D+GYLTR+LV+V IVVR DCGT + ISV TR + +R I++ L GRV
Sbjct: 830 ADSGYLTRKLVDVAHEIVVREADCGTTKYISVPLFQMDEVTRTLRLRKRSDIESGLYGRV 889
Query: 249 LADDIYIGSRCI----VVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGR 304
LA ++ R + + +D+ LI + + + +R+P TC+ +C+ CYG
Sbjct: 890 LAREVEALGRRLEEGRYLSLEDVHF-LIKAAEAGEVREVPVRSPLTCQTRYGVCQKCYGY 948
Query: 305 SPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG 346
V +GEAVG++A +SIGEPGTQLT+RTFHTGGV G
Sbjct: 949 DLSMARPVSIGEAVGVVAAESIGEPGTQLTMRTFHTGGVAVG 990
Score = 108 bits (268), Expect = 4e-22
Identities = 57/131 (43%), Positives = 91/131 (68%), Gaps = 5/131 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
LV++IQ+VYR+QGV +H++HIEI+VRQ+ V V++ G S + G+++ +
Sbjct: 1089 LVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDSPLLE-GQVLEKWDVEALNER 1147
Query: 1238 L----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
L + + ++ LL+G+TK++L+T+S++S ASFQ T VL +AA+ G+ D L GLKEN+
Sbjct: 1148 LIAEGKVPVAWKPLLMGVTKSALSTKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENV 1207
Query: 1294 VLGGIIPVGTG 1304
+LG +IP GTG
Sbjct: 1208 ILGRLIPAGTG 1218
>sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1055
Score = 249 bits (630), Expect = 1e-64
Identities = 135/327 (41%), Positives = 200/327 (60%), Gaps = 10/327 (3%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
+I+ + + + TS +LD++K LGF ++T + +++GI D+ +P K ++ A ++
Sbjct: 623 VIAEVYKQYKVTETSLLLDRMKDLGFYRSTLSGLTVGIADITNLPDKPAIIAAAHKKVAT 682
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I IW + ++Q + F DP NP+ +MS SGARGN S
Sbjct: 683 VTKQFRRGLITDDERYERVIGIWNDAKDEIQQRLMDTF---DPQNPIFMMSDSGARGNIS 739
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++++LPI SN REGLS+ E IS +GARKG+ DTA++T+++GY
Sbjct: 740 NFTQLAGMRGLMAAPNGKIMELPILSNFREGLSVLEMFISTHGARKGMTDTALKTANSGY 799
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGI---SVNTRNRMMSERILIQTLIGRVLADDIY--IG 256
LTRRLV+V Q ++VR DCGT RG+ ++ N M+ L ++GR +
Sbjct: 800 LTRRLVDVAQDVIVREKDCGTDRGLLITAIAEGNEMIEP--LYDRILGRYTMKSVINPET 857
Query: 257 SRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGE 316
+ IV +N+ I I+ Q + IR+ FTC +C CYGR+ G+ VE+GE
Sbjct: 858 GKVIVGQNEMIDERSAQEIIDAGIQEVTIRSAFTCNTAHGVCEKCYGRNMATGDRVEVGE 917
Query: 317 AVGIIAGQSIGEPGTQLTLRTFHTGGV 343
AVG +A QSIGEPGTQLT+R FHTGGV
Sbjct: 918 AVGTVAAQSIGEPGTQLTMRNFHTGGV 944
>pir||T10432 DNA-directed RNA polymerase (EC 2.7.7.6) - Pediococcus acidilactici
(fragment)
emb|CAA61516.1| (X89232) DNA-directed RNA polymerase [Pediococcus acidilactici]
Length = 1055
Score = 249 bits (630), Expect = 1e-64
Identities = 135/327 (41%), Positives = 200/327 (60%), Gaps = 10/327 (3%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
+I+ + + + TS +LD++K LGF ++T + +++GI D+ +P K ++ A ++
Sbjct: 623 VIAEVYKQYKVTETSLLLDRMKDLGFYRSTLSGLTVGIADITNLPDKPAIIAAAHKKVAT 682
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I IW + ++Q + F DP NP+ +MS SGARGN S
Sbjct: 683 VTKQFRRGLITDDERYERVIGIWNDAKDEIQQRLMDTF---DPQNPIFMMSDSGARGNIS 739
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++++LPI SN REGLS+ E IS +GARKG+ DTA++T+++GY
Sbjct: 740 NFTQLAGMRGLMAAPNGKIMELPILSNFREGLSVLEMFISTHGARKGMTDTALKTANSGY 799
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGI---SVNTRNRMMSERILIQTLIGRVLADDIY--IG 256
LTRRLV+V Q ++VR DCGT RG+ ++ N M+ L ++GR +
Sbjct: 800 LTRRLVDVAQDVIVREKDCGTDRGLLITAIAEGNEMIEP--LYDRILGRYTMKSVINPET 857
Query: 257 SRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGE 316
+ IV +N+ I I+ Q + IR+ FTC +C CYGR+ G+ VE+GE
Sbjct: 858 GKVIVGQNEMIDERSAQEIIDAGIQEVTIRSAFTCNTAHGVCEKCYGRNMATGDRVEVGE 917
Query: 317 AVGIIAGQSIGEPGTQLTLRTFHTGGV 343
AVG +A QSIGEPGTQLT+R FHTGGV
Sbjct: 918 AVGTVAAQSIGEPGTQLTMRNFHTGGV 944
>sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1057
Score = 249 bits (629), Expect = 2e-64
Identities = 137/338 (40%), Positives = 210/338 (61%), Gaps = 11/338 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F+ K +G II+ + + F + TS +LD++K LGF+ ++ I++G+ D++ +P K
Sbjct: 619 FNKKFLGN-----IIAEVFNRFSITDTSMMLDRMKDLGFKFSSKAGITVGVADIVVLPDK 673
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ + E+ + K + G + E+ +EIW + ++ E+ + T NP+
Sbjct: 674 QQILDEHEKLVDRITKQFNRGLITEEERYNAVVEIWTDAKDQIQGELMQSLDKT---NPI 730
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+MS SGARGNAS QL GMRGLM+ P G++I+LPI S+ REGL++ EY IS +GARKG
Sbjct: 731 FMMSDSGARGNASNFTQLAGMRGLMAAPSGKIIELPITSSFREGLTVLEYFISTHGARKG 790
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISV-NTRNRMMSERILIQTLIGR 247
+ DTA++T+D+GYLTRRLV+V Q ++VR DCGT RG+ V + + I+ + GR
Sbjct: 791 LADTALKTADSGYLTRRLVDVAQDVIVREEDCGTDRGLLVSDIKEGTEMIEPFIERIEGR 850
Query: 248 VLADDI-YIGSRCIVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
+ I + + I++R + I + + + + ++IR+ FTC +C CYG++
Sbjct: 851 YSKETIRHPETDEIIIRPDELITPEIAKKITDAGIEQMYIRSAFTCNARHGVCEKCYGKN 910
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G VE+GEAVG IA QSIGEPGTQLT+RTFHTGGV
Sbjct: 911 LATGEKVEVGEAVGTIAAQSIGEPGTQLTMRTFHTGGV 948
>pir||T10908 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Staphylococcus aureus (fragment)
emb|CAA61517.1| (X89233) DNA-directed RNA polymerase [Staphylococcus aureus]
Length = 1057
Score = 249 bits (629), Expect = 2e-64
Identities = 137/338 (40%), Positives = 210/338 (61%), Gaps = 11/338 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F+ K +G II+ + + F + TS +LD++K LGF+ ++ I++G+ D++ +P K
Sbjct: 619 FNKKFLGN-----IIAEVFNRFSITDTSMMLDRMKDLGFKFSSKAGITVGVADIVVLPDK 673
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ + E+ + K + G + E+ +EIW + ++ E+ + T NP+
Sbjct: 674 QQILDEHEKLVDRITKQFNRGLITEEERYNAVVEIWTDAKDQIQGELMQSLDKT---NPI 730
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+MS SGARGNAS QL GMRGLM+ P G++I+LPI S+ REGL++ EY IS +GARKG
Sbjct: 731 FMMSDSGARGNASNFTQLAGMRGLMAAPSGKIIELPITSSFREGLTVLEYFISTHGARKG 790
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISV-NTRNRMMSERILIQTLIGR 247
+ DTA++T+D+GYLTRRLV+V Q ++VR DCGT RG+ V + + I+ + GR
Sbjct: 791 LADTALKTADSGYLTRRLVDVAQDVIVREEDCGTDRGLLVSDIKEGTEMIEPFIERIEGR 850
Query: 248 VLADDI-YIGSRCIVVRNQD-IGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRS 305
+ I + + I++R + I + + + + ++IR+ FTC +C CYG++
Sbjct: 851 YSKETIRHPETDEIIIRPDELITPEIAKKITDAGIEQMYIRSAFTCNARHGVCEKCYGKN 910
Query: 306 PIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G VE+GEAVG IA QSIGEPGTQLT+RTFHTGGV
Sbjct: 911 LATGEKVEVGEAVGTIAAQSIGEPGTQLTMRTFHTGGV 948
>sp|Q9Z999|RPOC_CHLPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
dbj|BAA98292.1| (AP002545) RNA polymerase beta' [Chlamydophila pneumoniae J138]
Length = 1393
Score = 246 bits (621), Expect = 1e-63
Identities = 149/412 (36%), Positives = 221/412 (53%), Gaps = 28/412 (6%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N + I +I + G+ T LD +K LGF QAT +IS+G+ D+
Sbjct: 597 LGFQNYSMPSKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIPD 656
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT--DP 124
K +++DA + I++K + G + E+ ++I IW SE L + S
Sbjct: 657 IKSHILKDAYDKVAIVKKQYDDGIITEGERHSKTISIWTEVSEQLSDALYVEISKQTRSK 716
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
NP+ +M SGARGN SQ+ QL +RGLM+ P G +I+ PI SN REGL++ EY IS +G
Sbjct: 717 HNPLFLMIDSGARGNKSQLKQLGALRGLMAKPNGAIIESPITSNFREGLTVLEYSISSHG 776
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQT 243
ARKG+ DTA++T+D+GYLTRRLV+V Q +++ DCGT+ I ++ + E + L
Sbjct: 777 ARKGLADTALKTADSGYLTRRLVDVAQDVIITEKDCGTLNHIEISAIGQGSEELLPLKDR 836
Query: 244 LIGRVLADDIY---IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
+ GR +A+D+Y SR + + + + I IR+ TC + +C
Sbjct: 837 IYGRTVAEDVYQPGDKSRLLAQSGDVLNSVQAEAIDDAGIETIKIRSTLTCESPRGVCAK 896
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYG + +G L+ +GEAVGIIA QSIGEPGTQLT+RTFH GG+ + + + S+G
Sbjct: 897 CYGLNLANGRLIGMGEAVGIIAAQSIGEPGTQLTMRTFHLGGIAATSSTPEIITNSDG-- 954
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQ 412
L Y+DL V + HN+++ K L V D+
Sbjct: 955 ------------------ILVYMDLRVVLGQEG--HNLVLNKKGALHVVGDE 986
Score = 117 bits (291), Expect = 7e-25
Identities = 89/271 (32%), Positives = 133/271 (48%), Gaps = 45/271 (16%)
Query: 1080 LANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS----- 1134
L Y GA I G+ + G +L ++ DIT GLP+V +++E R
Sbjct: 1096 LVGTYAIPSGAIISVEEGQRVDPGMLLARLPRGAIKTKDITGGLPRVAELVEARKPEDAA 1155
Query: 1135 --------IDSISMNLEKRIDAWNERITG-----ILGIPWRFLI--------GAELT--- 1170
+D + KRI + +TG ++ + ++ G +LT
Sbjct: 1156 DIAKIDGVVDFKGIQKNKRILVVCDEMTGMEEEHLIPLTKHLIVQRGDSVIKGQQLTDGL 1215
Query: 1171 -----------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+ + + LVN++Q VYR QGV I+++HIEIIVRQ+ KV +++ G + +
Sbjct: 1216 VVPHEILEICGVRELQKYLVNEVQEVYRLQGVDINDKHIEIIVRQMLQKVRITDPGDTTL 1275
Query: 1220 FSPGELIGLLRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
GE + R EE +LLGITK SL T+SFIS ASFQ+T RVL
Sbjct: 1276 LF-GEDVNKKEFYEENRRTEEDGGKPAQAVPVLLGITKASLGTESFISAASFQDTTRVLT 1334
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGFK 1306
AA + D+L G KEN+++G +IP GTGF+
Sbjct: 1335 DAACCSKTDYLLGFKENVIMGHMIPGGTGFE 1365
>pir||E81548 DNA-directed RNA polymerase, beta' chain CP0693 [imported] -
Chlamydophila pneumoniae (strain AR39)
gb|AAF38501.1| (AE002228) DNA-directed RNA polymerase, beta` subunit
[Chlamydophila pneumoniae AR39]
Length = 1397
Score = 246 bits (621), Expect = 1e-63
Identities = 149/412 (36%), Positives = 221/412 (53%), Gaps = 28/412 (6%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N + I +I + G+ T LD +K LGF QAT +IS+G+ D+
Sbjct: 601 LGFQNYSMPSKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIPD 660
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT--DP 124
K +++DA + I++K + G + E+ ++I IW SE L + S
Sbjct: 661 IKSHILKDAYDKVAIVKKQYDDGIITEGERHSKTISIWTEVSEQLSDALYVEISKQTRSK 720
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
NP+ +M SGARGN SQ+ QL +RGLM+ P G +I+ PI SN REGL++ EY IS +G
Sbjct: 721 HNPLFLMIDSGARGNKSQLKQLGALRGLMAKPNGAIIESPITSNFREGLTVLEYSISSHG 780
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQT 243
ARKG+ DTA++T+D+GYLTRRLV+V Q +++ DCGT+ I ++ + E + L
Sbjct: 781 ARKGLADTALKTADSGYLTRRLVDVAQDVIITEKDCGTLNHIEISAIGQGSEELLPLKDR 840
Query: 244 LIGRVLADDIY---IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
+ GR +A+D+Y SR + + + + I IR+ TC + +C
Sbjct: 841 IYGRTVAEDVYQPGDKSRLLAQSGDVLNSVQAEAIDDAGIETIKIRSTLTCESPRGVCAK 900
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYG + +G L+ +GEAVGIIA QSIGEPGTQLT+RTFH GG+ + + + S+G
Sbjct: 901 CYGLNLANGRLIGMGEAVGIIAAQSIGEPGTQLTMRTFHLGGIAATSSTPEIITNSDG-- 958
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQ 412
L Y+DL V + HN+++ K L V D+
Sbjct: 959 ------------------ILVYMDLRVVLGQEG--HNLVLNKKGALHVVGDE 990
Score = 117 bits (291), Expect = 7e-25
Identities = 89/271 (32%), Positives = 133/271 (48%), Gaps = 45/271 (16%)
Query: 1080 LANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS----- 1134
L Y GA I G+ + G +L ++ DIT GLP+V +++E R
Sbjct: 1100 LVGTYAIPSGAIISVEEGQRVDPGMLLARLPRGAIKTKDITGGLPRVAELVEARKPEDAA 1159
Query: 1135 --------IDSISMNLEKRIDAWNERITG-----ILGIPWRFLI--------GAELT--- 1170
+D + KRI + +TG ++ + ++ G +LT
Sbjct: 1160 DIAKIDGVVDFKGIQKNKRILVVCDEMTGMEEEHLIPLTKHLIVQRGDSVIKGQQLTDGL 1219
Query: 1171 -----------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+ + + LVN++Q VYR QGV I+++HIEIIVRQ+ KV +++ G + +
Sbjct: 1220 VVPHEILEICGVRELQKYLVNEVQEVYRLQGVDINDKHIEIIVRQMLQKVRITDPGDTTL 1279
Query: 1220 FSPGELIGLLRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
GE + R EE +LLGITK SL T+SFIS ASFQ+T RVL
Sbjct: 1280 LF-GEDVNKKEFYEENRRTEEDGGKPAQAVPVLLGITKASLGTESFISAASFQDTTRVLT 1338
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGFK 1306
AA + D+L G KEN+++G +IP GTGF+
Sbjct: 1339 DAACCSKTDYLLGFKENVIMGHMIPGGTGFE 1369
>sp|Q9PI30|RPOC_CAMJE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||B81393 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain Cj0479
[imported] - Campylobacter jejuni (strain NCTC 11168)
emb|CAB75117.1| (AL139075) DNA-directed RNA polymerase beta' chain [Campylobacter
jejuni]
Length = 1517
Score = 246 bits (621), Expect = 1e-63
Identities = 140/369 (37%), Positives = 217/369 (57%), Gaps = 11/369 (2%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
NKV+ I ++ + G+ T+ LD++K LGF AT IS+ I D++ K
Sbjct: 602 NKVLKKKDIAALVDYVYKQGGLEITASFLDRLKNLGFEYATKAGISISIADIIVPNDKQK 661
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-DPFNPVH 129
+ +A++Q ++ ++ G + + E+ + I+IW +T+ L +EM + FN ++
Sbjct: 662 AIDEAKKQVREIQNSYNLGLITSGERYNKIIDIWKSTNNVLSKEMMKLVEKDKEGFNSIY 721
Query: 130 IMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGV 189
+M+ SGARG+A+Q+ QL MRGLM+ P G +I+ PI SN REGL++ EY IS +GARKG+
Sbjct: 722 MMADSGARGSAAQISQLAAMRGLMTKPDGSIIETPIISNFREGLNVLEYFISTHGARKGL 781
Query: 190 VDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTL----I 245
DTA++T++AGYLTR+L++V Q++ + DCGT G+ + N + ++ +I+TL +
Sbjct: 782 ADTALKTANAGYLTRKLIDVAQNVKITIEDCGTHEGVEI---NEITADSSIIETLEERIL 838
Query: 246 GRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYG 303
GRVLA+D+ I + + + + + IRTP TC+ IC CYG
Sbjct: 839 GRVLAEDVIDPITNSVLFAEGTLMDEEKAKILGESGIKSVNIRTPITCKAKKGICAKCYG 898
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVRSPSNGKIKF 362
+ G LV+ GEAVGII+ QSIGEPGTQLTLRTFH+GG + + V + G I+F
Sbjct: 899 INLGEGKLVKPGEAVGIISAQSIGEPGTQLTLRTFHSGGTASTDLQDRQVSAQKEGFIRF 958
Query: 363 NENSAYPTR 371
Y +
Sbjct: 959 YNLKTYKNK 967
Score = 108 bits (268), Expect = 4e-22
Identities = 86/266 (32%), Positives = 135/266 (50%), Gaps = 48/266 (18%)
Query: 1084 YLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS--------- 1134
Y P I H G+ + + DIL ++S DIT GLP+V ++ E R
Sbjct: 1242 YHLEPKTVIFVHDGDKIAQADILAKTPKAAAKSKDITGGLPRVSELFEARKPKNAAVIAE 1301
Query: 1135 IDSISMNLEKRIDAWNERIT--GILGIPWRFLI----------------GAELT------ 1170
ID + + +K + + ERI G +LI G +LT
Sbjct: 1302 IDGV-VRFDKPLRS-KERIIIQAEDGTSAEYLIDKSKHIQVRDGEFIHAGEKLTDGVVSS 1359
Query: 1171 ------IAQSRIS--LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSP 1222
+ + + L+++IQ+VYR QGV I ++HIE+IV Q+ +V V + G + F
Sbjct: 1360 HDVLKILGEKALHYYLISEIQQVYRGQGVVISDKHIEVIVSQMLRQVKVVDSGHTK-FIE 1418
Query: 1223 GELIGLLRA----QRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAA 1278
G+L+ + +R R E +LLG+T+ ++ + S IS ASFQET +VL +A+
Sbjct: 1419 GDLVSRRKFREENERIIRMGGEPAIAEPVLLGVTRAAIGSDSVISAASFQETTKVLTEAS 1478
Query: 1279 LRGRIDWLKGLKENLVLGGIIPVGTG 1304
+ G+ D+L+ LKEN++LG +IPVGTG
Sbjct: 1479 IAGKFDYLEDLKENVILGRMIPVGTG 1504
>pir||E72122 RNA polymerase beta' - Chlamydophila pneumoniae (strain CWL029)
gb|AAD18235.1| (AE001593) RNA Polymerase Beta' [Chlamydophila pneumoniae CWL029]
Length = 1393
Score = 246 bits (621), Expect = 1e-63
Identities = 149/412 (36%), Positives = 221/412 (53%), Gaps = 28/412 (6%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N + I +I + G+ T LD +K LGF QAT +IS+G+ D+
Sbjct: 597 LGFQNYSMPSKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIPD 656
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT--DP 124
K +++DA + I++K + G + E+ ++I IW SE L + S
Sbjct: 657 IKSHILKDAYDKVAIVKKQYDDGIITEGERHSKTISIWTEVSEQLSDALYVEISKQTRSK 716
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
NP+ +M SGARGN SQ+ QL +RGLM+ P G +I+ PI SN REGL++ EY IS +G
Sbjct: 717 HNPLFLMIDSGARGNKSQLKQLGALRGLMAKPNGAIIESPITSNFREGLTVLEYSISSHG 776
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQT 243
ARKG+ DTA++T+D+GYLTRRLV+V Q +++ DCGT+ I ++ + E + L
Sbjct: 777 ARKGLADTALKTADSGYLTRRLVDVAQDVIITEKDCGTLNHIEISAIGQGSEELLPLKDR 836
Query: 244 LIGRVLADDIY---IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
+ GR +A+D+Y SR + + + + I IR+ TC + +C
Sbjct: 837 IYGRTVAEDVYQPGDKSRLLAQSGDVLNSVQAEAIDDAGIETIKIRSTLTCESPRGVCAK 896
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRSPSNGKI 360
CYG + +G L+ +GEAVGIIA QSIGEPGTQLT+RTFH GG+ + + + S+G
Sbjct: 897 CYGLNLANGRLIGMGEAVGIIAAQSIGEPGTQLTMRTFHLGGIAATSSTPEIITNSDG-- 954
Query: 361 KFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQ 412
L Y+DL V + HN+++ K L V D+
Sbjct: 955 ------------------ILVYMDLRVVLGQEG--HNLVLNKKGALHVVGDE 986
Score = 117 bits (291), Expect = 7e-25
Identities = 89/271 (32%), Positives = 133/271 (48%), Gaps = 45/271 (16%)
Query: 1080 LANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS----- 1134
L Y GA I G+ + G +L ++ DIT GLP+V +++E R
Sbjct: 1096 LVGTYAIPSGAIISVEEGQRVDPGMLLARLPRGAIKTKDITGGLPRVAELVEARKPEDAA 1155
Query: 1135 --------IDSISMNLEKRIDAWNERITG-----ILGIPWRFLI--------GAELT--- 1170
+D + KRI + +TG ++ + ++ G +LT
Sbjct: 1156 DIAKIDGVVDFKGIQKNKRILVVCDEMTGMEEEHLIPLTKHLIVQRGDSVIKGQQLTDGL 1215
Query: 1171 -----------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+ + + LVN++Q VYR QGV I+++HIEIIVRQ+ KV +++ G + +
Sbjct: 1216 VVPHEILEICGVRELQKYLVNEVQEVYRLQGVDINDKHIEIIVRQMLQKVRITDPGDTTL 1275
Query: 1220 FSPGELIGLLRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
GE + R EE +LLGITK SL T+SFIS ASFQ+T RVL
Sbjct: 1276 LF-GEDVNKKEFYEENRRTEEDGGKPAQAVPVLLGITKASLGTESFISAASFQDTTRVLT 1334
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGFK 1306
AA + D+L G KEN+++G +IP GTGF+
Sbjct: 1335 DAACCSKTDYLLGFKENVIMGHMIPGGTGFE 1365
>sp|O83270|RPOC_TREPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||D71350 probable DNA-directed RNA polymerase, beta' subunit - syphilis
spirochete
gb|AAC65230.1| (AE001205) DNA-directed RNA polymerase, beta' subunit [Treponema
pallidum]
Length = 1416
Score = 246 bits (621), Expect = 1e-63
Identities = 130/352 (36%), Positives = 208/352 (58%), Gaps = 8/352 (2%)
Query: 5 ANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLT 64
A + F N+ + I+++I R+ +LD +KT+G+ AT +L +DD++
Sbjct: 565 AEIPFVNETLDDKRIRKLIERVFKRQDSWLAVQMLDALKTIGYTYATFFGATLSMDDIIV 624
Query: 65 IPSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-D 123
K +++ A ++ L + + G++ E+ + +E+W TSE L M D
Sbjct: 625 PEQKVQMLEKANKEVLAIASQYRGGHITQEERYNRVVEVWSKTSEELTSLMMETLERDKD 684
Query: 124 PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCY 183
FN +++M+ SGARG+ +Q+ QL GMRGLM+ P G +I+LPI+SN +EGL++ E+ IS
Sbjct: 685 GFNTIYMMATSGARGSRNQIRQLAGMRGLMAKPSGDIIELPIRSNFKEGLNVIEFFISTN 744
Query: 184 GARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGI---SVNTRNRMMSERIL 240
GARKG+ DTA++T+DAGYLTRRLV++ Q +VV DCGT+ GI +V + + ++ L
Sbjct: 745 GARKGLADTALKTADAGYLTRRLVDIAQDVVVNEEDCGTINGIEYRAVKSGDEIIES--L 802
Query: 241 IQTLIGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
+ ++G+ + + I ++ N+ I + + + +RT TC + +C
Sbjct: 803 AERIVGKYTLERVEHPITHELLLDVNEYIDDERAEKVEEAGVESVKLRTVLTCESKRGVC 862
Query: 299 RLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE 350
CYGR+ +VE+GEAVGI+A QSIG+PGTQLT+RTFH GG + T E
Sbjct: 863 VCCYGRNLARNKIVEIGEAVGIVAAQSIGQPGTQLTMRTFHVGGTASSTTEE 914
Score = 103 bits (254), Expect = 2e-20
Identities = 85/283 (30%), Positives = 139/283 (49%), Gaps = 53/283 (18%)
Query: 1097 GEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLE------------- 1143
G + G ++V ++ DIT GLP+V ++ E R + ++ +
Sbjct: 1117 GAQVKAGTVIVKLAKAIQKTSDITGGLPRVSELFEARRPKNAAVLAQISGVVSFKGLFKG 1176
Query: 1144 KRI----DAWNERITGILGIPWRFLIGAELTI-AQSRIS--------------------- 1177
KRI D + + ++ + + L+ T+ A R+
Sbjct: 1177 KRIVVVRDHYGKEYKHLVSMSRQLLVRDGDTVEAGERLCDGCFDPHDILAILGENALQNY 1236
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
L+N+I+ VYR QGV I+++HI ++VRQ+ K V G + F G+ + R R
Sbjct: 1237 LMNEIRDVYRVQGVSINDQHIGLVVRQMLRKTEVVSVGDTR-FIYGQQVDKYRFHEENRR 1295
Query: 1238 LE----ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
+E + R + GITK +LN SFIS ASFQET +VL AA+ G +D L GLKEN+
Sbjct: 1296 VEAEGGQPAVARPMFQGITKAALNIDSFISAASFQETNKVLTNAAIAGSVDDLCGLKENV 1355
Query: 1294 VLGGIIPVGTGFK-----KIGDRSSARQDTKITLETIKIIRGR 1331
++G +IP GTG + K+ D++ ++D + +E ++IR R
Sbjct: 1356 IIGHLIPAGTGMRRYRQVKLFDKN--KRDLDVQME--EVIRRR 1394
>sp|P95405|RPOC_OENOE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65248.1| (X96384) DNA-dependent RNA polymerase [Oenococcus oeni]
Length = 1004
Score = 245 bits (619), Expect = 3e-63
Identities = 134/329 (40%), Positives = 204/329 (61%), Gaps = 14/329 (4%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+++ + + TS +LD +K LG+ +T + +++ + D+ +P KG ++++A ++
Sbjct: 562 IIAQIYARYQVTRTSVLLDDMKDLGYNISTRSGLTVRMSDVTELPEKGEVLKEAHEKVAK 621
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ Q + W + ++ + +F D NP+ +MS SGARGN S
Sbjct: 622 ITKQFRRGLLTDDERYIQVTQTWSDAQDKIKSMLIASF---DSKNPIFMMSDSGARGNIS 678
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++I+LP+ +N REGL + E IS +GARKG+ DTA++T+++GY
Sbjct: 679 NSFQLAGMRGLMAAPNGKVIELPVTANFREGLCVLEMFISTHGARKGMTDTALKTANSGY 738
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIGRVLAD-------DIY 254
LTRRLV+V Q ++VR DCGT RG+ V+ +M +I+ L R+L D
Sbjct: 739 LTRRLVDVAQEVIVREEDCGTDRGLDVSA---IMDGNEVIEPLYDRILGRYAMKPVIDPK 795
Query: 255 IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVEL 314
G I +NQ I + ++ I+ Q + IR+ FTCR +C CYGR+ G++VE+
Sbjct: 796 TG-EVIAKKNQMIDEHVADQIIDAGIQTVTIRSIFTCRTEHGVCVKCYGRNMATGDIVEV 854
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GEAVG +A QSIGEPGTQLT+RTFHTGGV
Sbjct: 855 GEAVGTVAAQSIGEPGTQLTMRTFHTGGV 883
>sp|P96177|RPOC_WEIHE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65322.1| (X96470) DNA-dependent RNA polymerase [Weissella hellenica]
Length = 1046
Score = 243 bits (615), Expect = 8e-63
Identities = 130/329 (39%), Positives = 205/329 (61%), Gaps = 14/329 (4%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + + + TS +LD++K LG+ ++T + +++G+ D+ + K +++DA +Q
Sbjct: 557 IIAEVYKIYKVTETSLLLDRMKDLGYDESTKSGLTVGVADVTDLKEKPEIIEDAHKQVAT 616
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I IW + + +++ +F +P N + +MS SGARGN S
Sbjct: 617 VTKQFRRGLITDSERYERVIAIWNKAKDDITEKLIEHF---EPDNNIFMMSDSGARGNIS 673
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++++LPI +N REGLS+ E S +GARKG+ DTA++T+D+GY
Sbjct: 674 NFTQLAGMRGLMAAPNGRIMELPIIANFREGLSVLEMFFSTHGARKGMTDTALKTADSGY 733
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIGRVLAD-------DIY 254
+TRRLV+V Q +++R DCG+ RG+ V+ +M+ +I++L R+L +
Sbjct: 734 MTRRLVDVAQDVIIREDDCGSDRGLDVSA---IMNGNEVIESLYERILGRYAQKSVFEPQ 790
Query: 255 IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVEL 314
G + +V N+ I + R I + IR+ FTC +C CYGR+ G++VE+
Sbjct: 791 TGDK-LVGHNEMITEDIAKRIIEAGVTTVTIRSAFTCNTEHGVCVRCYGRNMATGDVVEV 849
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GEAVG +A QSIGEPGTQLT+RTFHTGGV
Sbjct: 850 GEAVGTVAAQSIGEPGTQLTMRTFHTGGV 878
Score = 47.6 bits (111), Expect = 0.001
Identities = 43/151 (28%), Positives = 67/151 (43%), Gaps = 41/151 (27%)
Query: 1118 DITQGLPKVEQVLEVRSIDSISMNLE----------------KRIDAWNERITGILGIPW 1161
DITQGLP+V+++ E R+ +M E K + E T +P
Sbjct: 882 DITQGLPRVQEIFEARNPKGRAMITEVTGEVTTIEENPADRTKEVTIQGETDTRTYTLPM 941
Query: 1162 --RFLIGA----------------ELTIAQSRISL------VNKIQRVYRSQGVHIHNRH 1197
R +G I Q R +L V ++Q+VYR QGV I ++H
Sbjct: 942 SSRMRVGEGDHIHRGETLNEGSADPKEIIQVRDTLATENYIVLEVQKVYRMQGVEISDKH 1001
Query: 1198 IEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
IE++ RQ+ KV V + G +++ PG L+ +
Sbjct: 1002 IEVMARQMLRKVRVMDPGETDLL-PGTLMDI 1031
>pir||G82336 DNA-directed RNA polymerase, beta' chain VC0329 [imported] - Vibrio
cholerae (group O1 strain N16961)
gb|AAF93502.1| (AE004121) DNA-directed RNA polymerase, beta' subunit [Vibrio
cholerae]
Length = 1401
Score = 242 bits (611), Expect = 2e-62
Identities = 134/369 (36%), Positives = 214/369 (57%), Gaps = 16/369 (4%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G I +++ G+ T DQ+ GF A + +S+GIDD++ +K
Sbjct: 593 NQKLGKKQISNLLNEAYRKLGLKDTVIFADQIMYTGFAYAALSGVSVGIDDMVVPAAKYT 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
+ +AE++ +++ G V A E+ + I+IW +T++ + + M N S
Sbjct: 653 EIAEAEEEVREIQEQFQSGLVTAGERYNKVIDIWASTNDRVAKAMMENLSSEQVINRQGE 712
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N +EGL++ +Y
Sbjct: 713 QEKQESFNSIYMMADSGARGSAAQIRQLAGMRGLMARPDGSIIETPITANFKEGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT+ G+ + +
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDVVVTEHDCGTLEGVVMTPHIEGGDVK 832
Query: 239 I-LIQTLIGRVLADDIYI--GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTS 295
+ L + +GRV+++DI ++ RN + + I +R+ TC +
Sbjct: 833 VALTELALGRVVSEDILKPGTDEVLIPRNTLLDEKWCKVINDNSVDQIKVRSVVTCDSDF 892
Query: 296 WICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVRS 354
C CYGR G+LV GEAVG+IA QSIGEPGTQLT+RTFH GG + AE +++
Sbjct: 893 GCCAQCYGRDLARGHLVNQGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASTAAAENSIQA 952
Query: 355 PSNGKIKFN 363
+NG +K +
Sbjct: 953 KNNGSVKLH 961
Score = 119 bits (295), Expect = 3e-25
Identities = 68/142 (47%), Positives = 92/142 (63%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+ N++Q VYR QGV I+++HIE IVRQ+ K ++ G S F PGE + + + R
Sbjct: 1232 IANEVQEVYRLQGVKINDKHIETIVRQMLRKCTITFAGDSE-FLPGETVEYSQVKIANRK 1290
Query: 1238 L----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
L +E + LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1291 LVEEGKEPARFERELLGITKASLATESFISAASFQETTRVLTEAAVSGKRDDLRGLKENV 1350
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTGF DR + R
Sbjct: 1351 IVGRLIPAGTGFAYHQDRQAKR 1372
>pir||G83112 DNA-directed RNA polymerase beta* chain PA4269 [imported] -
Pseudomonas aeruginosa (strain PAO1)
gb|AAG07657.1|AE004842_6 (AE004842) DNA-directed RNA polymerase beta* chain [Pseudomonas
aeruginosa]
Length = 1399
Score = 240 bits (605), Expect = 1e-61
Identities = 140/381 (36%), Positives = 219/381 (56%), Gaps = 40/381 (10%)
Query: 13 VIGGTAIKRIISRLIDH----FGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
V+ + K+ IS+LI+H G+ T DQ+ GF +T + +S+G++D + K
Sbjct: 591 VVNQSMKKKAISKLINHCYRVVGLKDTVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEK 650
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSM------- 121
++ A + +E + G V EK + I++W ++ + + M N S
Sbjct: 651 ARIINAATDEVKEIESQYASGLVTQGEKYNKVIDLWSKANDEVSKAMMANLSKEKVVDRE 710
Query: 122 -----TDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLT 176
+ FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++
Sbjct: 711 GKEVDQESFNSMYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVL 770
Query: 177 EYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMS 236
+Y IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT G+ +MS
Sbjct: 771 QYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTEHGL-------LMS 823
Query: 237 ERI--------LIQTLIGRVLADDIY-IGSRCIVVRNQDIGIGLINRFINF----QTQPI 283
I L + ++GRV+A D++ GS ++V G + ++++F +
Sbjct: 824 PHIEGGDVVEPLGERVLGRVIARDVFKPGSDEVIV---PAGTLIDEKWVDFLEVMSVDEV 880
Query: 284 FIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+R+P TC IC +CYGR G+ V +GEAVG+IA QSIGEPGTQLT+RTFH GG
Sbjct: 881 VVRSPITCETRHGICAMCYGRDLARGHRVNIGEAVGVIAAQSIGEPGTQLTMRTFHIGGA 940
Query: 344 FT-GGTAEYVRSPSNGKIKFN 363
+ A+ V+ + G I+ +
Sbjct: 941 ASRTSAADNVQVKNGGTIRLH 961
Score = 125 bits (310), Expect = 4e-27
Identities = 100/276 (36%), Positives = 138/276 (49%), Gaps = 45/276 (16%)
Query: 1084 YLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVR--SIDSISMN 1141
Y A ++ G + GD++ E S++ DIT GLP+V + E R SI
Sbjct: 1099 YFLPANALVNLTDGAKVSIGDVVARIPQETSKTRDITGGLPRVADLFEARRPKEPSILAE 1158
Query: 1142 LEKRIDAWNER-------ITGILG-------IP-WRFLIGAE------------------ 1168
+ I E IT G IP WR L E
Sbjct: 1159 ISGTISFGKETKGKRRLVITPNDGSDPYEELIPKWRHLNVFEGEQVNRGEVISDGPSNPH 1218
Query: 1169 -----LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPG 1223
L ++ +VN+IQ VYR QGV I+++HIE I+RQ+ KV VSE G S+ F G
Sbjct: 1219 DILRLLGVSSLAKYIVNEIQDVYRLQGVKINDKHIETILRQMLRKVEVSESGDSS-FIKG 1277
Query: 1224 ELIGLLRA----QRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAAL 1279
+ + L + ++ G + Y +LLGITK SL+T+SFIS ASFQET RVL +AA+
Sbjct: 1278 DQVELTQVLEENEQLGTEDKFPAKYERVLLGITKASLSTESFISAASFQETTRVLTEAAV 1337
Query: 1280 RGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSAR 1315
G+ D+L+GLKEN+V+G +IP GTG +R R
Sbjct: 1338 TGKRDFLRGLKENVVVGRLIPAGTGLAYHSERKRQR 1373
>pir||D82533 RNA polymerase beta' subunit XF2632 [imported] - Xylella fastidiosa
(strain 9a5c)
gb|AAF85429.1|AE004070_1 (AE004070) RNA polymerase beta' subunit [Xylella fastidiosa]
Length = 1430
Score = 240 bits (605), Expect = 1e-61
Identities = 139/367 (37%), Positives = 216/367 (57%), Gaps = 27/367 (7%)
Query: 20 KRIISRLIDH----FGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
K+ ISRLI+ G+ T D++ G+ AT +S+ IDD+L K ++ +A
Sbjct: 621 KKNISRLINSSYRMLGLKDTVVFADKLMYTGYAYATRAGVSICIDDMLIPIEKKEILGEA 680
Query: 76 EQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEM----------NPNFSMTD-- 123
EQ+ L +++ + G V A E+ + ++IW T+E + + M N + + D
Sbjct: 681 EQEVLEIQEQYQSGLVTAGERYNKVVDIWSRTNERIAKAMMDTIGTEKVVNTDGEIVDQK 740
Query: 124 PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCY 183
N ++IM+ SGARG+ Q+ QL MRGLM P G +I+ PI++N REGLS+ EY S +
Sbjct: 741 SMNSLYIMADSGARGSPQQIRQLAAMRGLMVRPDGSIIETPIKANFREGLSVQEYFNSTH 800
Query: 184 GARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQT 243
GARKG+ DTA++T+++GYLTRRLV+V Q + V + DCGT G+ T ++ +++
Sbjct: 801 GARKGLADTALKTANSGYLTRRLVDVTQDLCVVQLDCGTAGGL---TMTPIVEGGDVVEP 857
Query: 244 L----IGRVLADDIYI---GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSW 296
L +GRV+A+D+++ IV R+ + + + Q + +R+P TC +
Sbjct: 858 LKDRVLGRVVAEDVFLPGNDDEPIVTRSTLLDEQWVAKLEEAGVQSVKVRSPITCESPFG 917
Query: 297 ICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG-VFTGGTAEYVRSP 355
+C LCYGR G+LV +GEAVG+IA QSIGEPGTQLT+RTFH GG + + +
Sbjct: 918 VCALCYGRDLARGHLVNMGEAVGVIAAQSIGEPGTQLTMRTFHIGGTALSAAAVDNITVK 977
Query: 356 SNGKIKF 362
++G +KF
Sbjct: 978 TSGSVKF 984
Score = 120 bits (298), Expect = 1e-25
Identities = 99/284 (34%), Positives = 135/284 (46%), Gaps = 48/284 (16%)
Query: 1064 KSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGL 1123
K G +T+ G L+ YL P + ++ G + GD++ E S++ DIT GL
Sbjct: 1107 KKGNDLTIP----GTDLSAQYLLPPRSIVNLQDGAPVGIGDVVAKIPQEASKTRDITGGL 1162
Query: 1124 PKVEQVLEVRSI----------------------------DSISMNLEKRIDAWNERI-- 1153
P+V + E R D+ E+ I + + I
Sbjct: 1163 PRVADLFEARRPKDPAILAERSGVISFGKDTKGKQRLIIKDADGSEHEELIPKYRQIIVF 1222
Query: 1154 ---------TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQ 1204
T + G P I L I LV +IQ VYR QGV I+++HIE+I RQ
Sbjct: 1223 EGEHVTKGETIVDGEPSPQDILRLLGIEPLAAYLVKEIQDVYRLQGVKINDKHIEVITRQ 1282
Query: 1205 ITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGITKTSLNTQS 1260
+ KV + + G S F GE + R L E Y +LLGITK SL T+S
Sbjct: 1283 MLRKVEIVDQGNSK-FLNGEQVERQRVIDENAKLIARNELPAKYNPVLLGITKASLATES 1341
Query: 1261 FISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
FIS ASFQET RVL +AA+RG D L+GLKEN+++G +IP GTG
Sbjct: 1342 FISAASFQETTRVLTEAAVRGTRDNLRGLKENVIVGRLIPAGTG 1385
>sp|P96178|RPOC_WEIPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65080.1| (X95813) DNA-dependent RNA polymerase [Weissella paramesenteroides]
Length = 1054
Score = 239 bits (603), Expect = 2e-61
Identities = 127/325 (39%), Positives = 197/325 (60%), Gaps = 6/325 (1%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + + + TS +LD++K LG+ ++T + +++G+ D+ + K ++ DA +Q
Sbjct: 557 IIAEVYKIYKVTETSLLLDRMKDLGYDESTKSGLTVGVSDVTDLKEKPEIIADAHKQVAT 616
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ + I IW + + +++ +F +P N + +MS SGARGN S
Sbjct: 617 VTKQFRRGLITDSERYERVIAIWNKAKDDITEKLIEHF---EPDNNIFMMSDSGARGNIS 673
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++++LPI +N REGLS+ E S +GARKG+ DTA++T+D+GY
Sbjct: 674 NFTQLAGMRGLMAAPNGRIMELPIIANFREGLSVLEMFFSTHGARKGMTDTALKTADSGY 733
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIGRVLADDIY--IGSR 258
+TRRLV+V Q +++R DC + RG+ V N L + ++GR ++
Sbjct: 734 MTRRLVDVAQDVIIRELDCHSDRGLDVTAIMNGNEVIEPLYERILGRYAQKSVFDPETGE 793
Query: 259 CIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAV 318
+V N+ I + R I + IR+ FTC +C CYGR+ G++VE+GEAV
Sbjct: 794 TLVNHNEMITEDIAKRIIEAGITTVTIRSAFTCNTEHGVCVRCYGRNMATGDVVEVGEAV 853
Query: 319 GIIAGQSIGEPGTQLTLRTFHTGGV 343
G +A QSIGEPGTQLT+RTFHTGGV
Sbjct: 854 GTVAAQSIGEPGTQLTMRTFHTGGV 878
Score = 50.0 bits (117), Expect = 2e-04
Identities = 44/151 (29%), Positives = 68/151 (44%), Gaps = 41/151 (27%)
Query: 1118 DITQGLPKVEQVLEVR----------------SIDSISMNLEKRIDAWNERITGILGIPW 1161
DITQGLP+V+++ E R SI+ + K + E T +P
Sbjct: 882 DITQGLPRVQEIFEARNPKGRAMITEVTGEVTSIEENPADRTKEVTIQGETDTRTYTLPM 941
Query: 1162 ----------RFLIGAELT--------IAQSRISL------VNKIQRVYRSQGVHIHNRH 1197
R G L I Q R +L V+++Q+VYR QGV I ++H
Sbjct: 942 TARMRVGEGDRIHRGETLNEGSADPKEIIQVRDTLATENYIVHEVQKVYRMQGVEISDKH 1001
Query: 1198 IEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
IE++ RQ+ KV V + G +++ PG L+ +
Sbjct: 1002 IEVMARQMLRKVRVMDPGETDLL-PGTLMDI 1031
>sp|P43739|RPOC_HAEIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||G64073 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Haemophilus
influenzae (strain Rd KW20)
gb|AAC22172.1| (U32733) DNA-directed RNA polymerase, beta' chain (rpoC)
[Haemophilus influenzae Rd]
Length = 1415
Score = 239 bits (603), Expect = 2e-61
Identities = 135/356 (37%), Positives = 205/356 (56%), Gaps = 17/356 (4%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++I+ G+ DQ+ GF A + S+GIDD+ IP+K +
Sbjct: 594 NQTLGKKAISKLINEAYRRLGLKEAVMFADQIMYTGFAYAARSGSSVGIDDM-EIPAKKY 652
Query: 71 -LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------ 123
++ AE++ +++ G V A E+ + I+IW A +E + + M N S +
Sbjct: 653 EIISAAEEEVAEIQEQFQSGLVTAGERYNKVIDIWAAANERVAKAMMENLSQEEVINREG 712
Query: 124 ------PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTE 177
FN + +M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +
Sbjct: 713 NPEKQASFNSIFMMADSGARGSAAQIRQLAGMRGLMARPDGSIIETPITANFREGLNVLQ 772
Query: 178 YIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSE 237
Y IS +GARKG+ DTA++T+++GYLTRRLV+V Q +V+ DCGT G+ + E
Sbjct: 773 YFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVIVEDDCGTHEGLVMTPLIEGGDE 832
Query: 238 RILIQTLI-GRVLADDIYI--GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNT 294
++ ++ L+ GRV A+DI ++ RN + L + + +R+ TC
Sbjct: 833 KVPLRELVLGRVAAEDILKPGTEEVLIPRNTLLDEKLCDVLDANSVDSVKVRSVVTCDTD 892
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE 350
+C CYGR G+L+ GEAVG+IA QSIGEPGTQLT+RTFH GG + E
Sbjct: 893 FGVCAKCYGRDLARGHLINQGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASAAAKE 948
Score = 116 bits (288), Expect = 2e-24
Identities = 63/132 (47%), Positives = 90/132 (67%), Gaps = 5/132 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K ++++ + F GE + + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKAVITK-AYDSEFLEGEQVEVARVKIVNRQ 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
E + + LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 REAEGKPPVEFERELLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGF 1305
++G +IP GTGF
Sbjct: 1352 IVGRLIPAGTGF 1363
>gb|AAK03820.1| (AE006210) RpoC [Pasteurella multocida]
Length = 1417
Score = 238 bits (602), Expect = 3e-61
Identities = 134/355 (37%), Positives = 201/355 (55%), Gaps = 15/355 (4%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++I+ GM + DQ+ GF A + S+GIDD++ K
Sbjct: 594 NQTLGKKAISKLINESYRRLGMKPSVLFADQIMYTGFAYAARSGSSVGIDDMVIPAKKYE 653
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ AE + +++ G V A E+ + I+IW A +E + + M N S +
Sbjct: 654 IISAAEDEVAEIQEQFQSGLVTAGERYNKVIDIWAAANERVAKAMMENLSTEEVINREGQ 713
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN + +M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 714 PEKQASFNSIFMMADSGARGSAAQIRQLAGMRGLMARPDGSIIETPITANFREGLNVLQY 773
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMS-E 237
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +V+ DCGT GI + +
Sbjct: 774 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVIIEDDCGTHEGIVMTPLIEGGDVK 833
Query: 238 RILIQTLIGRVLADDIYI--GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTS 295
L ++GRV+A+D+ ++ RN + L + + I +R+ TC
Sbjct: 834 EALRDRVLGRVVAEDVLKPGTEEVLIARNTLLDEKLCDVIDSNSVDSIKVRSVVTCNTDF 893
Query: 296 WICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE 350
+C CYGR G+L+ GEAVG+IA QSIGEPGTQLT+RTFH GG + E
Sbjct: 894 GVCAKCYGRDLARGHLINQGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASAAAKE 948
Score = 116 bits (289), Expect = 1e-24
Identities = 64/132 (48%), Positives = 90/132 (67%), Gaps = 5/132 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K +V++ + F GE + + R + R
Sbjct: 1233 IVNEVQEVYRLQGVKINDKHIEVIVRQMLRKGIVTK-AYDSEFLEGEQVEVARVKIVNRK 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
E + + LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 REAEGKPLVEFERELLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGF 1305
++G +IP GTGF
Sbjct: 1352 IVGRLIPAGTGF 1363
>sp|O51349|RPOC_BORBU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||C70148 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Lyme disease
spirochete
gb|AAB91502.1| (AE001144) DNA-directed RNA polymerase (rpoC) [Borrelia
burgdorferi]
Length = 1377
Score = 238 bits (602), Expect = 3e-61
Identities = 133/346 (38%), Positives = 198/346 (56%), Gaps = 4/346 (1%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + ++ +IS++ G + +LD +K LGFR AT ++ + D++ K
Sbjct: 565 FVNKTLSDLELQILISKVYVVHGSSIVIEMLDIIKELGFRYATKFGCTISMSDIIVPDEK 624
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-DPFNP 127
V+ A ++ ++ + G + E+ + +W T+E L +M D FN
Sbjct: 625 RTYVERANKEIAKIQNDYAKGVITGEERYNNVVSVWLKTNEELTNKMMEILKKDRDGFNV 684
Query: 128 VHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARK 187
+++M+ SGARG+ +Q+ QL GMRGLM+ G +I+LPI SN +EGLS+ E+ IS GARK
Sbjct: 685 IYMMADSGARGSRNQIRQLAGMRGLMAKTSGDIIELPIISNFKEGLSVIEFFISTNGARK 744
Query: 188 GVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT-RNRMMSERILIQTLIG 246
G+ DTA++T+DAGYLTRRLV++ Q +VVR DCGT+ GI V T +N L + +G
Sbjct: 745 GLADTALKTADAGYLTRRLVDIAQDVVVRIEDCGTINGIKVETVKNGEEILESLKEKAVG 804
Query: 247 RVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGR 304
+ I I ++ N++I I + + IR+ TC +C+ CYGR
Sbjct: 805 SYSIERIKNPITGEIVLDANEEISEAKIELLEKIGIEKLVIRSVLTCEAEHGVCQKCYGR 864
Query: 305 SPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE 350
V +GEAVGIIA QSIG+PGTQLT+RTFH GGV G+ +
Sbjct: 865 DFSKNKPVNIGEAVGIIAAQSIGQPGTQLTMRTFHIGGVAQAGSED 910
Score = 110 bits (273), Expect = 1e-22
Identities = 88/281 (31%), Positives = 141/281 (49%), Gaps = 46/281 (16%)
Query: 1073 MDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEV 1132
+D G+ +A+ Y+ A + G+ + GDI+ ++ DIT GLP+V + E
Sbjct: 1088 IDSSGMEVAS-YVLPGDAYLQVEDGQSINIGDIIAKLSKGSEKTQDITGGLPRVNDLFET 1146
Query: 1133 R------SIDSISMNLEKRIDAWNERITGIL---GIPWRFLI--GAELTI---------- 1171
R + +S ++ + +R+ IL G+ + I G L +
Sbjct: 1147 RIPKNLTEMAKVSGIVQFKSIQKGKRLINILDEYGVEHKHYIPAGKHLLVRDGDVVKAGD 1206
Query: 1172 --AQSRIS----------------LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSE 1213
RI+ L+ +IQ VYR QGV I+++HI +I++Q+ KV +
Sbjct: 1207 MLCDGRINPHDVLEILGGISLQEFLLAEIQDVYRKQGVSINDKHIGVIIKQMMKKVKIVA 1266
Query: 1214 DGMSNVFSPGELIGLLRAQRTGRALE---ESICYRTLLLGITKTSLNTQSFISEASFQET 1270
G +N ++ ++ + +E E +L+G+TKTSLN SFIS ASFQET
Sbjct: 1267 VGDTNFVYGQKVDKHTFYEQNRKVIEQGGEPAIASPILIGVTKTSLNIDSFISAASFQET 1326
Query: 1271 ARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG---FKKI 1308
+VL A++ G+ID L+GLKEN+V+G +IP GTG +KKI
Sbjct: 1327 TKVLTDASIAGKIDDLRGLKENVVIGHLIPTGTGMGLYKKI 1367
>dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanella violacea]
Length = 1409
Score = 236 bits (597), Expect = 1e-60
Identities = 134/373 (35%), Positives = 217/373 (57%), Gaps = 23/373 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G I ++++ G+ T DQ+ GF AT + S+GIDD++ +K
Sbjct: 593 NQNMGKKQIGKLLNTCYRQLGLKDTVVFADQLMYAGFHYATVSGASVGIDDMVIPAAKYT 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
LV DAE + L +++ G V A E+ + I+IW + +E + + M N S+
Sbjct: 653 LVADAEAEVLEIQEQFQSGLVTAGERYNKVIDIWASANEKISKAMMDNLSVETVINRDGE 712
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++++Y
Sbjct: 713 EEEQESFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPIVANFREGLNVSQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT G+ T ++
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVIEDDCGTFEGL---TMKPLIEGG 829
Query: 239 ILIQTL----IGRVLADDIYI--GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCR 292
+++ L +GRV+A D++ + + RN + + + + +R+ +C
Sbjct: 830 DVVEPLRERVLGRVVALDVFYPGTEKVLAPRNTLLDEAWCDTLEDNSIDEVIVRSVISCN 889
Query: 293 NTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLT-LRTFHTGGVFTGGTAE- 350
+C+ CYGR G+++ GEA+G++A QSIGEPGTQL RTFH GG + +AE
Sbjct: 890 TDFGVCKACYGRDLARGHIINQGEAIGVVAAQSIGEPGTQLNGWRTFHIGGAASRASAEN 949
Query: 351 YVRSPSNGKIKFN 363
V+ + G +K +
Sbjct: 950 NVQVKNAGTVKLH 962
Score = 120 bits (298), Expect = 1e-25
Identities = 95/256 (37%), Positives = 132/256 (51%), Gaps = 45/256 (17%)
Query: 1103 GDILVTFIYEKSRSGDITQGLPKVEQVLEVRS------IDSISMNLEKRIDAWNER---I 1153
GD L E S++ DIT GLP+V + E R + S + + +R I
Sbjct: 1119 GDALARIPQESSKTRDITGGLPRVADLFEARKPKEPAILAEYSGTISFGKETKGKRRLLI 1178
Query: 1154 TGILG-------IP-WRFLI---------------GAELTIAQSRIS--------LVNKI 1182
T G IP WR L GAE R+ +VN++
Sbjct: 1179 TPADGGKPYEEMIPKWRNLNVFEGEKVERGEVIADGAEAAHDILRLRGIHKVANYIVNEV 1238
Query: 1183 QRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALE--- 1239
Q VYR QGV I+++HIE+I+RQ+ K L+++ G S F GE + R + R LE
Sbjct: 1239 QDVYRLQGVKINDKHIEVIIRQMLRKCLITDAGDSQ-FLAGEQAEVARVKIANRELEAQG 1297
Query: 1240 -ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGI 1298
+ + LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+++G +
Sbjct: 1298 KKPATFDRELLGITKASLATESFISAASFQETTRVLTEAAVGGKSDKLRGLKENVIVGRL 1357
Query: 1299 IPVGTGFKKIGDRSSA 1314
IP GTG+ R++A
Sbjct: 1358 IPAGTGYAYHQKRNAA 1373
>pir||C82007 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain NMA0141
[imported] - Neisseria meningitidis (group A strain
Z2491)
emb|CAB83456.1| (AL162752) DNA-directed RNA polymerase beta' chain [Neisseria
meningitidis Z2491]
Length = 1391
Score = 236 bits (595), Expect = 2e-60
Identities = 150/433 (34%), Positives = 226/433 (51%), Gaps = 28/433 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
NK + I ++I+ G+ T D + GF A IS+ +DD+ K
Sbjct: 595 NKALKKKEISKLINASFRLCGLRDTVIFADHLMYTGFGFAAKGGISIAVDDMEIPKEKAA 654
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
L+ +A + +E + G V E+ + ++IW + + + M N S
Sbjct: 655 LLAEANAEVKEIEDQYRQGLVTNGERYNKVVDIWGRAGDKIAKAMMDNLSKQKVIDRDGN 714
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI SN REGL++ +Y
Sbjct: 715 EVDQESFNSIYMMADSGARGSAAQIKQLSGMRGLMAKPDGSIIETPITSNFREGLTVLQY 774
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
I+ +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT G + ++
Sbjct: 775 FIATHGARKGLADTALKTANSGYLTRRLVDVTQDLVVVEDDCGTSDGFVMKA---VVQGG 831
Query: 239 ILIQTL----IGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCR 292
+I+ L +GRV A D+ S +V + L++ + +RTP TC+
Sbjct: 832 DVIEALRDRILGRVTASDVVDPSSGETLVEAGTLLTEKLVDMIDQSGVDEVKVRTPITCK 891
Query: 293 NTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT-GGTAEY 351
+C CYGR G LV GEAVG+IA QSIGEPGTQLT+RTFH GG + A
Sbjct: 892 TRHGLCAHCYGRDLARGKLVNAGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAASQ 951
Query: 352 VRSPSNGKIKFNENSAYPTRTRHGHPAFL---CYIDLYVTIESNDIMHNVIIPPKSFLLV 408
V + SNG +F+ Y + G + C + ++ I H V P + LLV
Sbjct: 952 VEAKSNGTARFSSQMRYVANNK-GELVVIGRSCEVVIHDDIGRERERHKV--PYGAILLV 1008
Query: 409 QNDQYVKSEQIIA 421
Q+ +K+ Q +A
Sbjct: 1009 QDGMAIKAGQTLA 1021
Score = 127 bits (317), Expect = 7e-28
Identities = 96/283 (33%), Positives = 142/283 (49%), Gaps = 53/283 (18%)
Query: 1073 MDFVGIRLANPYLATP-------GATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPK 1125
+D G+ + P +TP GA I G+ + +GD+L S++ DIT GLP+
Sbjct: 1085 LDENGVEICIPGTSTPVSMAFPVGAVITVREGQEIGKGDVLARIPQASSKTRDITGGLPR 1144
Query: 1126 VEQVLEVRSIDSISM--NLEKRIDAWNER-------ITGILGIPWRFLIGAEL------- 1169
V ++ E R M + + E +T + G+ + LI E
Sbjct: 1145 VAELFEARVPKDAGMLAEITGTVSFGKETKGKQRLIVTDVDGVAYETLISKEKQILVHDG 1204
Query: 1170 -------TIAQSRIS----------------LVNKIQRVYRSQGVHIHNRHIEIIVRQIT 1206
TI + +V ++Q VYR QGV I ++HIE+I+RQ+
Sbjct: 1205 QVVNRGETIVDGAVDPHDILRLQGIEALARYIVQEVQEVYRLQGVKISDKHIEVIIRQML 1264
Query: 1207 SKVLVSEDGMSNVFSPGELI--GLLRAQRTGRALEES---ICYRTLLLGITKTSLNTQSF 1261
+V +++ G + F GE + G + A +ALEE Y +LLGITK SL+T SF
Sbjct: 1265 RRVNIADAGETG-FITGEQVERGDVMAANE-KALEEGKEPARYENVLLGITKASLSTDSF 1322
Query: 1262 ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
IS ASFQET RVL +AA+ G+ D L+GLKEN+++G +IP GTG
Sbjct: 1323 ISAASFQETTRVLTEAAIMGKQDELRGLKENVIVGRLIPAGTG 1365
>pir||F81233 DNA-directed RNA polymerase, beta' chain NMB0133 [imported] -
Neisseria meningitidis (group B strain MD58)
gb|AAF40592.1| (AE002372) DNA-directed RNA polymerase, beta' subunit [Neisseria
meningitidis MC58]
Length = 1391
Score = 236 bits (595), Expect = 2e-60
Identities = 150/433 (34%), Positives = 226/433 (51%), Gaps = 28/433 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
NK + I ++I+ G+ T D + GF A IS+ +DD+ K
Sbjct: 595 NKALKKKEISKLINASFRLCGLRDTVIFADHLMYTGFGFAAKGGISIAVDDMEIPKEKAA 654
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
L+ +A + +E + G V E+ + ++IW + + + M N S
Sbjct: 655 LLAEANAEVKEIEDQYRQGLVTNGERYNKVVDIWGRAGDKIAKAMMDNLSKQKVIDRAGN 714
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI SN REGL++ +Y
Sbjct: 715 EVDQESFNSIYMMADSGARGSAAQIKQLSGMRGLMAKPDGSIIETPITSNFREGLTVLQY 774
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
I+ +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT G + ++
Sbjct: 775 FIATHGARKGLADTALKTANSGYLTRRLVDVTQDLVVVEDDCGTSDGFVMKA---VVQGG 831
Query: 239 ILIQTL----IGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCR 292
+I+ L +GRV A D+ S +V + L++ + +RTP TC+
Sbjct: 832 DVIEALRDRILGRVTASDVVDPSSGETLVEAGTLLTEKLVDMIDQSGVDEVKVRTPITCK 891
Query: 293 NTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT-GGTAEY 351
+C CYGR G LV GEAVG+IA QSIGEPGTQLT+RTFH GG + A
Sbjct: 892 TRHGLCAHCYGRDLARGKLVNAGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAASQ 951
Query: 352 VRSPSNGKIKFNENSAYPTRTRHGHPAFL---CYIDLYVTIESNDIMHNVIIPPKSFLLV 408
V + SNG +F+ Y + G + C + ++ I H V P + LLV
Sbjct: 952 VEAKSNGTARFSSQMRYVANNK-GELVVIGRSCEVVIHDDIGRERERHKV--PYGAILLV 1008
Query: 409 QNDQYVKSEQIIA 421
Q+ +K+ Q +A
Sbjct: 1009 QDGMAIKAGQTLA 1021
Score = 128 bits (318), Expect = 5e-28
Identities = 101/303 (33%), Positives = 150/303 (49%), Gaps = 55/303 (18%)
Query: 1073 MDFVGIRLANPYLATP-------GATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPK 1125
+D G+ + P +TP GA I G+ + +GD+L S++ DIT GLP+
Sbjct: 1085 LDENGVEICIPGTSTPVSMAFPVGAVITVREGQEIGKGDVLARIPQASSKTRDITGGLPR 1144
Query: 1126 VEQVLEVRSIDSISM--NLEKRIDAWNER-------ITGILGIPWRFLIGAEL------- 1169
V ++ E R M + + E +T + G+ + LI E
Sbjct: 1145 VAELFEARVPKDAGMLAEITGTVSFGKETKGKQRLIVTDVDGVAYETLISKEKQILVHDG 1204
Query: 1170 -------TIAQSRIS----------------LVNKIQRVYRSQGVHIHNRHIEIIVRQIT 1206
TI + +V ++Q VYR QGV I ++HIE+I+RQ+
Sbjct: 1205 QVVNRGETIVDGAVDPHDILRLQGIEALARYIVQEVQEVYRLQGVKISDKHIEVIIRQML 1264
Query: 1207 SKVLVSEDGMSNVFSPGELI--GLLRAQRTGRALEES---ICYRTLLLGITKTSLNTQSF 1261
+V +++ G + F GE + G + A +ALEE Y +LLGITK SL+T SF
Sbjct: 1265 RRVNIADAGETG-FITGEQVERGDVMAANE-KALEEGKEPARYENVLLGITKASLSTDSF 1322
Query: 1262 ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSARQDTKIT 1321
IS ASFQET RVL +AA+ G+ D L+GLKEN+++G +IP GTG RS +Q ++
Sbjct: 1323 ISAASFQETTRVLTEAAIMGKQDELRGLKENVIVGRLIPAGTGLTY--HRSRHQQWQEVE 1380
Query: 1322 LET 1324
ET
Sbjct: 1381 QET 1383
>sp|O84316|RPOC_CHLTR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||G71529 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Chlamydia
trachomatis (serotype D, strain UW3/Cx)
gb|AAC67907.1| (AE001304) RNA Polymerase Beta' [Chlamydia trachomatis]
Length = 1396
Score = 236 bits (595), Expect = 2e-60
Identities = 136/353 (38%), Positives = 201/353 (56%), Gaps = 7/353 (1%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N + I +I + G+ T LD +K LGF Q+T +IS+G+ D+
Sbjct: 599 LGFQNYSMPSKRISELILQCYKKVGLEATVRFLDDLKELGFVQSTKAAISMGLKDVKIPE 658
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSM--TDP 124
K +++DA + +++K + G + E+ ++I IW S+ L +
Sbjct: 659 IKKEILKDAYDKVAVVKKQYEDGIITDGERHSKTISIWTEVSDLLSNALYSEIKKQTNSK 718
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
NP+ +M SGARGN SQ+ QL +RGLM+ P G +I+ PI SN REGL++ EY IS +G
Sbjct: 719 HNPLFLMIDSGARGNKSQLKQLGALRGLMAKPNGAIIESPITSNFREGLTVLEYSISSHG 778
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQT 243
ARKG+ DTA++T+D+GYLTRRLV+V Q +++ DCGT+ I V+T + E + L
Sbjct: 779 ARKGLADTALKTADSGYLTRRLVDVAQDVIITERDCGTLNHIEVSTIRQGSEELLPLKDR 838
Query: 244 LIGRVLADDIY---IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
+ GR ++++IY S + + + + + IR+ TC + +C
Sbjct: 839 VYGRTVSENIYQPGDKSNVLAYAGDVLTSAQAEAIDDAGIESVKIRSTLTCESRRGVCAK 898
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV-FTGGTAEYV 352
CYG + +G L+ LGEAVGIIA QSIGEPGTQLT+RTFH GG+ T T E V
Sbjct: 899 CYGLNLANGRLIGLGEAVGIIAAQSIGEPGTQLTMRTFHLGGIAATSSTPEIV 951
Score = 121 bits (300), Expect = 7e-26
Identities = 89/270 (32%), Positives = 132/270 (47%), Gaps = 45/270 (16%)
Query: 1080 LANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS----- 1134
L Y GA I G+ + G +L ++ DIT GLP+V +++E R
Sbjct: 1098 LVGTYAIPSGAIISVEEGQRIAPGMLLARLPRGAIKTKDITGGLPRVAELVEARKPEDAA 1157
Query: 1135 --------IDSISMNLEKRIDAWNERITG-----ILGIPWRFLI--------GAELT--- 1170
+D + KRI + ITG ++ + ++ G +LT
Sbjct: 1158 DIAKIDGVVDFKGIQKNKRILVVRDEITGMEEEHLISLTKHLIVQRGDSVIKGQQLTDGL 1217
Query: 1171 -----------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+ + + LVN++Q VYR QGV I+++H+EIIVRQ+ KV +++ G + +
Sbjct: 1218 VVPHEILEICGVRELQKYLVNEVQEVYRLQGVDINDKHVEIIVRQMLQKVRITDPGDTTL 1277
Query: 1220 FSPGELIGLLRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
GE + R EE +LLGITK SL T+SFIS ASFQ+T RVL
Sbjct: 1278 LF-GEDVDKKEFYEENRRTEEDGGKPAQAVPVLLGITKASLGTESFISAASFQDTTRVLT 1336
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGF 1305
AA + D+L G KEN+++G +IP GTGF
Sbjct: 1337 DAACSSKTDYLLGFKENVIMGHMIPGGTGF 1366
>emb|CAC10564.1| (Y16470) DNA-dependent RNA polymerase subunit beta' [Porphyromonas
cangingivalis]
Length = 1240
Score = 235 bits (594), Expect = 2e-60
Identities = 163/524 (31%), Positives = 273/524 (51%), Gaps = 33/524 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N ++G A++ II +I G+A T+ LD +K LG++ A +S + D+L K
Sbjct: 596 NSILGKKALRDIIGHVIKECGIAKTAKFLDDIKDLGYQMAFKGGLSFNLSDVLIPKEKDT 655
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSM-TDPFNPVH 129
L+Q+ + + +++ G + E+ Q I+ W + L + S + FN +
Sbjct: 656 LIQEGFAEVDEIMSNYNMGFITNNERYNQIIDTWTHVNTCLSGILMKQLSEDNEGFNSIF 715
Query: 130 IMSFSGARGNASQVHQLVGMRGLMSDPQGQ------MIDLPIQSNLREGLSLTEYIISCY 183
+M SGARG+ Q++QL G+RGLM+ PQ +++ PI SN +EGLS+ EY IS +
Sbjct: 716 MMMDSGARGSKDQINQLSGIRGLMAKPQKSGTEGRTLLENPILSNFKEGLSVLEYFISTH 775
Query: 184 GARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRG-ISVNTRNRMMSERILIQ 242
GARKG+ DTA++T++ GYLTRRLV+V Q ++V DCGT+RG ++ + + L +
Sbjct: 776 GARKGLSDTALKTAECGYLTRRLVDVSQDVIVTEEDCGTLRGLVTEEIKEGDVVIASLYE 835
Query: 243 TLIGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
++GRV D+ + IV ++I + + IR+ TC + +C
Sbjct: 836 RILGRVSVHDVIHPNTGEVIVKAGEEINEKAATIIQDSPITNVEIRSVLTCESKKGVCAK 895
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG-GTAEYVRSPSNGK 359
CYGR+ G++V +GE VG++A QSIGEPGTQLTLRTFHTGG+ + G+ +YV++ +G
Sbjct: 896 CYGRNLSQGHMVHIGEVVGVVAAQSIGEPGTQLTLRTFHTGGIASNIGSEKYVKAKYDGI 955
Query: 360 IKFNENSAYPTRTRHGHPAFLCYIDLYV---TIESNDIMHNVI--IPPKSFLLVQNDQYV 414
++ +E + G+ A+ + I+ N M + IP S L + V
Sbjct: 956 LEIDELRTVDAKDEEGN-AYQVVVGRLAEMRVIDENTRMTLITHHIPYGSKLYFKPGDKV 1014
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVS-EFAYSNVHILPKTSH 473
K + I E + I ++ G++ + + +V+ + Y + H
Sbjct: 1015 KKDDNIFE----------SDPFNAVIIAEETGKLKFEDVVENVTYKVEYDSNVSAGHKEH 1064
Query: 474 LWILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSN 517
+ I S + + S +VS+ L D + T++LP ++F+ SN
Sbjct: 1065 IIIESKDKNLSPSVSI-LNSKGDILRTYNLPVG----AHFVKSN 1103
>sp|O33431|RPOC_PORCN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65247.1| (X96383) DNA-dependent RNA polymerase [Porphyromonas cangingivalis]
Length = 1159
Score = 235 bits (594), Expect = 2e-60
Identities = 163/524 (31%), Positives = 273/524 (51%), Gaps = 33/524 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N ++G A++ II +I G+A T+ LD +K LG++ A +S + D+L K
Sbjct: 525 NSILGKKALRDIIGHVIKECGIAKTAKFLDDIKDLGYQMAFKGGLSFNLSDVLIPKEKDT 584
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSM-TDPFNPVH 129
L+Q+ + + +++ G + E+ Q I+ W + L + S + FN +
Sbjct: 585 LIQEGFAEVDEIMSNYNMGFITNNERYNQIIDTWTHVNTCLSGILMKQLSEDNEGFNSIF 644
Query: 130 IMSFSGARGNASQVHQLVGMRGLMSDPQGQ------MIDLPIQSNLREGLSLTEYIISCY 183
+M SGARG+ Q++QL G+RGLM+ PQ +++ PI SN +EGLS+ EY IS +
Sbjct: 645 MMMDSGARGSKDQINQLSGIRGLMAKPQKSGTEGRTLLENPILSNFKEGLSVLEYFISTH 704
Query: 184 GARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRG-ISVNTRNRMMSERILIQ 242
GARKG+ DTA++T++ GYLTRRLV+V Q ++V DCGT+RG ++ + + L +
Sbjct: 705 GARKGLSDTALKTAECGYLTRRLVDVSQDVIVTEEDCGTLRGLVTEEIKEGDVVIASLYE 764
Query: 243 TLIGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
++GRV D+ + IV ++I + + IR+ TC + +C
Sbjct: 765 RILGRVSVHDVIHPNTGEVIVKAGEEINEKAATIIQDSPITNVEIRSVLTCESKKGVCAK 824
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG-GTAEYVRSPSNGK 359
CYGR+ G++V +GE VG++A QSIGEPGTQLTLRTFHTGG+ + G+ +YV++ +G
Sbjct: 825 CYGRNLSQGHMVHIGEVVGVVAAQSIGEPGTQLTLRTFHTGGIASNIGSEKYVKAKYDGI 884
Query: 360 IKFNENSAYPTRTRHGHPAFLCYIDLYV---TIESNDIMHNVI--IPPKSFLLVQNDQYV 414
++ +E + G+ A+ + I+ N M + IP S L + V
Sbjct: 885 LEIDELRTVDAKDEEGN-AYQVVVGRLAEMRVIDENTRMTLITHHIPYGSKLYFKPGDKV 943
Query: 415 KSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVS-EFAYSNVHILPKTSH 473
K + I E + I ++ G++ + + +V+ + Y + H
Sbjct: 944 KKDDNIFE----------SDPFNAVIIAEETGKLKFEDVVENVTYKVEYDSNVSAGHKEH 993
Query: 474 LWILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSN 517
+ I S + + S +VS+ L D + T++LP ++F+ SN
Sbjct: 994 IIIESKDKNLSPSVSI-LNSKGDILRTYNLPVG----AHFVKSN 1032
>pir||F81686 DNA-directed RNA polymerase, beta' chain TC0588 [imported] -
Chlamydia muridarum (strain Nigg)
gb|AAF39420.1| (AE002327) DNA-directed RNA polymerase, beta` subunit [Chlamydia
muridarum]
Length = 1396
Score = 235 bits (593), Expect = 3e-60
Identities = 135/353 (38%), Positives = 200/353 (56%), Gaps = 7/353 (1%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIP 66
L F N + I +I + G+ T LD +K LGF Q+T +IS+G+ D+
Sbjct: 599 LGFQNYSMPSKRISELILQCYKKVGLEATVRFLDDLKELGFVQSTKAAISMGLKDVRIPE 658
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSM--TDP 124
K +++DA + +++K + G + E+ ++I IW S+ L +
Sbjct: 659 IKKEILKDAYDKVAVVKKQYEDGIITDGERHSKTISIWTEVSDLLSNALYAEIKKQTNSK 718
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
NP+ +M SGARGN SQ+ QL +RGLM+ P G +I+ PI SN REGL++ EY IS +G
Sbjct: 719 HNPLFLMIDSGARGNKSQLKQLGALRGLMAKPNGAIIESPITSNFREGLTVLEYSISSHG 778
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI-LIQT 243
ARKG+ DTA++T+D+GYLTRRLV+V Q +++ DCGT+ I V+T + E + L
Sbjct: 779 ARKGLADTALKTADSGYLTRRLVDVAQDVIITEKDCGTLNHIEVSTIRQGSEELLPLKDR 838
Query: 244 LIGRVLADDIY---IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRL 300
+ GR +++++Y S + + + + IR+ TC + +C
Sbjct: 839 IYGRTVSENVYQPGDKSNVLAYAGDVLTSSQAEAIDDAGIDSVKIRSTLTCESRRGVCAK 898
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV-FTGGTAEYV 352
CYG + +G L+ LGEAVGIIA QSIGEPGTQLT+RTFH GG+ T T E V
Sbjct: 899 CYGLNLANGRLIGLGEAVGIIAAQSIGEPGTQLTMRTFHLGGIAATSSTPEIV 951
Score = 121 bits (300), Expect = 7e-26
Identities = 89/270 (32%), Positives = 132/270 (47%), Gaps = 45/270 (16%)
Query: 1080 LANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS----- 1134
L Y GA I G+ + G +L ++ DIT GLP+V +++E R
Sbjct: 1098 LVGTYAIPSGAIISVEEGQRIAPGMLLARLPRGAIKTKDITGGLPRVAELVEARKPEDAA 1157
Query: 1135 --------IDSISMNLEKRIDAWNERITG-----ILGIPWRFLI--------GAELT--- 1170
+D + KRI + +TG ++ + ++ G +LT
Sbjct: 1158 DIAKIDGVVDFKGIQKNKRILVVRDEVTGMEEEHLISLTKHLIVQRGDSVIKGQQLTDGL 1217
Query: 1171 -----------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+ + + LVN++Q VYR QGV I+++HIEIIVRQ+ KV +++ G + +
Sbjct: 1218 VVPHEILEICGVRELQKYLVNEVQEVYRLQGVDINDKHIEIIVRQMLQKVRITDPGDTTL 1277
Query: 1220 FSPGELIGLLRAQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLA 1275
GE + R EE +LLGITK SL T+SFIS ASFQ+T RVL
Sbjct: 1278 LF-GEDVDKKEFYEENRRTEEDGGKPAQAVPVLLGITKASLGTESFISAASFQDTTRVLT 1336
Query: 1276 KAALRGRIDWLKGLKENLVLGGIIPVGTGF 1305
AA + D+L G KEN+++G +IP GTGF
Sbjct: 1337 DAACSSKTDYLLGFKENVIMGHMIPGGTGF 1366
>sp|P47769|RPOC_MYCTU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||G70535 probable rpoC protein - Mycobacterium tuberculosis (strain H37RV)
emb|CAB09389.1| (Z95972) rpoC [Mycobacterium tuberculosis]
Length = 1316
Score = 235 bits (593), Expect = 3e-60
Identities = 132/348 (37%), Positives = 204/348 (57%), Gaps = 12/348 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + II+ L + + M + +D++K GF AT + +++ + D+L P K
Sbjct: 683 FVNKQMHKKVQAAIINDLAERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRK 742
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ E+++ +EK G ++ E+ +EIW ++ + Q + ++ NP+
Sbjct: 743 KEILDHYEERADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALREHYPDD---NPI 799
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+ SGA GN +Q L GM+GL+++P+G+ I P++S+ REGL++ EY I+ +GARKG
Sbjct: 800 ITIVDSGATGNFTQTRTLAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFINTHGARKG 859
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNR-----MMSERILIQT 243
+ DTA+RT+D+GYLTRRLV+V Q ++VR DC T RGI V R ++ + + +
Sbjct: 860 LADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVELAERAPDGTLIRDPYIETS 919
Query: 244 LIGRVLADD-IYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
R L D + IV R QD+G I+ + + +R+ TC ++ +C CY
Sbjct: 920 AYARTLGTDAVDEAGNVIVERGQDLGDPEIDALLAAGITQVKVRSVLTCATSTGVCATCY 979
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV---FTGG 347
GRS G LV++GEAVGI+A QSIGEPGTQLT+RTFH GGV TGG
Sbjct: 980 GRSMATGKLVDIGEAVGIVAAQSIGEPGTQLTMRTFHQGGVGEDITGG 1027
Score = 118 bits (294), Expect = 3e-25
Identities = 69/149 (46%), Positives = 94/149 (62%), Gaps = 7/149 (4%)
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
+I LV ++Q VYR+QGV IH++HIE+IVRQ+ +V + + G S F PG LI +
Sbjct: 1131 QIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTIIDSG-STEFLPGSLIDRAEFEAE 1189
Query: 1235 GRALE----ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
R + E R +L+GITK SL T S++S ASFQET RVL AA+ R D L GLK
Sbjct: 1190 NRRVVAEGGEPAAGRPVLMGITKASLATDSWLSAASFQETTRVLTDAAINCRSDKLNGLK 1249
Query: 1291 ENLVLGGIIPVGTGFKKIGDRSSARQDTK 1319
EN+++G +IP GTG + R+ A Q T+
Sbjct: 1250 ENVIIGKLIPAGTGINRY--RNIAVQPTE 1276
>emb|CAC30844.1| (AL583923) [beta]' subunit of RNA polymerase [Mycobacterium leprae]
Length = 1316
Score = 234 bits (591), Expect = 5e-60
Identities = 132/348 (37%), Positives = 205/348 (57%), Gaps = 12/348 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + II+ L + + M + +D++K GF AT + +++ + D+L P K
Sbjct: 683 FVNKQMHKKVQAAIINDLAERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRK 742
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ E+++ +EK G ++ E+ +EIW ++ + Q + ++ + NP+
Sbjct: 743 KEILDHYEERADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALRDHYPVD---NPI 799
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+ SGA GN +Q L GM+GL+++P+G+ I P++S+ REGL++ EY I+ +GARKG
Sbjct: 800 ITIVDSGATGNFTQTRALAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFINTHGARKG 859
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNR-----MMSERILIQT 243
+ DTA+RT+D+GYLTRRLV+V Q ++VR DC T RGI V R ++ E + +
Sbjct: 860 LADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVELAVRVPDGSLIRELYIETS 919
Query: 244 LIGRVL-ADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
R L A+ + IV R +D+G I+ + + +R+ TC + +C CY
Sbjct: 920 AYARTLGANAVDEAGNVIVARGEDLGDPEIDALLAAGITQVKVRSVLTCTTGTGVCATCY 979
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV---FTGG 347
GRS G LV++GEAVGI+A QSIGEPGTQLT+RTFH GGV TGG
Sbjct: 980 GRSMATGKLVDIGEAVGIVAAQSIGEPGTQLTMRTFHQGGVGEDITGG 1027
Score = 118 bits (293), Expect = 4e-25
Identities = 65/137 (47%), Positives = 88/137 (63%), Gaps = 5/137 (3%)
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
+I LV ++Q VYR+QGV IH++HIE+IVRQ+ +V + + G S F PG LI +
Sbjct: 1131 QIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTIIDSG-STEFLPGSLIDRAEFESE 1189
Query: 1235 GRALE----ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
R + E R +L+GITK SL T S++S ASFQET RVL AA+ R D L GLK
Sbjct: 1190 NRRVVAESGEPAAGRPVLMGITKASLATDSWLSAASFQETTRVLTDAAINCRSDKLNGLK 1249
Query: 1291 ENLVLGGIIPVGTGFKK 1307
EN+++G +IP GTG +
Sbjct: 1250 ENVIIGKLIPAGTGINR 1266
>gb|AAK05897.1|AE006409_7 (AE006409) DNA-directed RNA polymerase beta' chain (EC 2.7.7.6)
[Lactococcus lactis subsp. lactis]
Length = 1198
Score = 234 bits (591), Expect = 5e-60
Identities = 129/327 (39%), Positives = 192/327 (58%), Gaps = 10/327 (3%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + + TS LD++K LG+ Q+T +++GI D+ + K ++ A ++
Sbjct: 614 IIAEVFKRYRTTATSEYLDRLKNLGYHQSTLAGLTVGIADIPVVEDKHKIIDAAHKRVEQ 673
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ +W E L + + +T NP+ +M SGARGN S
Sbjct: 674 ITKQFRRGLITDDERYNAVTGVWRDAKEALEKRLIDEQDLT---NPIVMMMDSGARGNIS 730
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++++LPI SN REGLS+ E S +GARKG+ DTA++T+D+GY
Sbjct: 731 NFSQLAGMRGLMAAPNGKIMELPIISNFREGLSVLEMFFSTHGARKGMTDTALKTADSGY 790
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVN---TRNRMMSERILIQTLIGRVLADDIY--IG 256
LTRRLV+V Q +++R DCGT RG+ ++ T M+ L + L+GR +
Sbjct: 791 LTRRLVDVAQDVIIREDDCGTDRGLVISDIATGKEMVEP--LFERLVGRYTRKSVLHPET 848
Query: 257 SRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGE 316
I+ + I + + I+ + + IR+ FTC+ +C+ CYG + G+ VE+GE
Sbjct: 849 GEMIIADDTLISEDVARKIIDAGVKEVTIRSVFTCKTPHGVCKHCYGINLATGDAVEVGE 908
Query: 317 AVGIIAGQSIGEPGTQLTLRTFHTGGV 343
AVG IA QSIGEPGTQLT+RTFHTGGV
Sbjct: 909 AVGTIAAQSIGEPGTQLTMRTFHTGGV 935
Score = 120 bits (298), Expect = 1e-25
Identities = 83/261 (31%), Positives = 133/261 (50%), Gaps = 51/261 (19%)
Query: 1116 SGDITQGLPKVEQVLEVRS------IDSISMNLEKRID------------------AWNE 1151
S DITQGLP+V+++ E R+ I ++ +E ++ ++
Sbjct: 938 SSDITQGLPRVQEIFEARNPKGEAIITEVTGTVESIVEDPATRTREITVKGKTDTRSYTV 997
Query: 1152 RITGILGIPWRFLIGAELTIAQSRIS----------------LVNKIQRVYRSQGVHIHN 1195
+ +L + I + Q I L+ ++Q+ YRSQGV I +
Sbjct: 998 GMADVLMVEEGEFIHRGAPLIQGSIEPKHLLQVRDALSVETYLLGEVQKTYRSQGVEIGD 1057
Query: 1196 RHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EESICYRTLLLGI 1251
+HIE++VRQ+ KV V ++G +++ PG L+ + + E R +L+GI
Sbjct: 1058 KHIEVMVRQMLRKVRVMDNGSTDIL-PGTLMDISDFEALNETALLNGEMPATGRPVLMGI 1116
Query: 1252 TKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG------F 1305
TK SL T SF+S ASFQET RVL AA+RG+ D L GLKEN+++G IIP GTG
Sbjct: 1117 TKASLETNSFLSAASFQETTRVLTDAAIRGKEDHLLGLKENVIIGKIIPAGTGMFRYRNI 1176
Query: 1306 KKIGDRSSARQDTKITLETIK 1326
+ + D ++A + ++ ET++
Sbjct: 1177 EPLADLTNAPEVEEVETETVE 1197
>sp|P30761|RPOC_MYCLE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||S31146 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Mycobacterium
leprae
emb|CAA78669.1| (Z14314) RNA polymerase beta' subunit [Mycobacterium leprae]
Length = 1316
Score = 234 bits (591), Expect = 5e-60
Identities = 132/348 (37%), Positives = 205/348 (57%), Gaps = 12/348 (3%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + II+ L + + M + +D++K GF AT + +++ + D+L P K
Sbjct: 683 FVNKQMHKKVQAAIINDLAERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRK 742
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPV 128
++ E+++ +EK G ++ E+ +EIW ++ + Q + ++ + NP+
Sbjct: 743 KEILDHYEERADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALRDHYPVD---NPI 799
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+ SGA GN +Q L GM+GL+++P+G+ I P++S+ REGL++ EY I+ +GARKG
Sbjct: 800 ITIVDSGATGNFTQTRALAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFINTHGARKG 859
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNR-----MMSERILIQT 243
+ DTA+RT+D+GYLTRRLV+V Q ++VR DC T RGI V R ++ E + +
Sbjct: 860 LADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVELAVRVPDGSLIRELYIETS 919
Query: 244 LIGRVL-ADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCY 302
R L A+ + IV R +D+G I+ + + +R+ TC + +C CY
Sbjct: 920 AYARTLGANAVDEAGNVIVARGEDLGDPEIDALLAAGITQVKVRSVLTCTTGTGVCATCY 979
Query: 303 GRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV---FTGG 347
GRS G LV++GEAVGI+A QSIGEPGTQLT+RTFH GGV TGG
Sbjct: 980 GRSMATGKLVDIGEAVGIVAAQSIGEPGTQLTMRTFHQGGVGEDITGG 1027
Score = 118 bits (293), Expect = 4e-25
Identities = 65/137 (47%), Positives = 88/137 (63%), Gaps = 5/137 (3%)
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
+I LV ++Q VYR+QGV IH++HIE+IVRQ+ +V + + G S F PG LI +
Sbjct: 1131 QIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTIIDSG-STEFLPGSLIDRAEFESE 1189
Query: 1235 GRALE----ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
R + E R +L+GITK SL T S++S ASFQET RVL AA+ R D L GLK
Sbjct: 1190 NRRVVAESGEPAAGRPVLMGITKASLATDSWLSAASFQETTRVLTDAAINCRSDKLNGLK 1249
Query: 1291 ENLVLGGIIPVGTGFKK 1307
EN+++G +IP GTG +
Sbjct: 1250 ENVIIGKLIPAGTGINR 1266
>sp|P57145|RPOC_BUCAI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
dbj|BAB12760.1| (AP001118) DNA-directed RNA polymerase beta' chain [Buchnera sp.
APS]
Length = 1407
Score = 234 bits (590), Expect = 6e-60
Identities = 137/374 (36%), Positives = 207/374 (54%), Gaps = 26/374 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G I ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 593 NQTLGKKDISKMLNTCYRILGLKSTVFFADQIMYTGFAYAARSGASVGIDDMVIPEKKAN 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A +E + + M N S
Sbjct: 653 IINEAEIEVAEIQEQFQSGLVTAGERYNKVIDIWAAANERVAKAMMQNLSTESVINKKGY 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN + +M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 713 KQKQISFNSIFMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTR------N 232
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV + DC T GI +
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTQDDCRTHEGILMTPLIEGGDVK 832
Query: 233 RMMSERILIQTLIGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFT 290
+ ER+L GRV A++I I + ++ RN + + + + +R+
Sbjct: 833 EPLRERVL-----GRVTAENIIIPNTKNILIKRNTLLNEKWCDLLEHNSIDNVKVRSVVN 887
Query: 291 CRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE 350
C +C CYGR GNLV GEA+G+IA QSIGEPGTQLT+RTFH GG + AE
Sbjct: 888 CDTDFGVCAYCYGRDLARGNLVNKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAE 947
Query: 351 -YVRSPSNGKIKFN 363
++ + G I N
Sbjct: 948 SSIQVKNQGIINLN 961
Score = 114 bits (283), Expect = 6e-24
Identities = 64/143 (44%), Positives = 94/143 (64%), Gaps = 5/143 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+I+RQ+ K V + S+ F GE + + + R
Sbjct: 1233 IVNEVQEVYRLQGVKINDKHIEVIIRQMLRKATVVKSRDSD-FLEGEQVEFSHIKISNRM 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
L++ + LLGITK SL T+SFIS ASFQET RVL ++A+ G+ D L+GLKEN+
Sbjct: 1292 LDKKKKMPATFSRDLLGITKASLATESFISAASFQETTRVLTESAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSARQ 1316
++G +IP GTG+ +R + RQ
Sbjct: 1352 IVGRLIPAGTGYAYHKERLNRRQ 1374
>pir||F64669 DNA-directed RNA polymerase, beta subunit - Helicobacter pylori
(strain 26695)
gb|AAD08242.1| (AE000625) DNA-directed RNA polymerase, beta subunit (rpoB)
[Helicobacter pylori 26695]
Length = 2890
Score = 233 bits (589), Expect = 8e-60
Identities = 136/362 (37%), Positives = 214/362 (58%), Gaps = 11/362 (3%)
Query: 20 KRIISRLIDHF----GMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
K+ I L+D+ G+ T+ LD +KTLGFR AT IS+ ++D++T K +V+ A
Sbjct: 1974 KKDIGVLVDYVHKVGGIGITATFLDNLKTLGFRYATKAGISISMEDIITPKDKQKMVEKA 2033
Query: 76 EQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-DPFNPVHIMSFS 134
+ + +++ + G + E+ + I+ W ++ + +EM + + FN +++M+ S
Sbjct: 2034 KVEVKKIQQQYDQGLLTDQERYNKIIDTWTEVNDKMSKEMMTAIAQDKEGFNSIYMMADS 2093
Query: 135 GARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAV 194
GARG+A+Q+ QL MRGLM+ P G +I+ PI SN +EGL++ EY S +GARKG+ DTA+
Sbjct: 2094 GARGSAAQIRQLSAMRGLMTKPDGSIIETPIISNFKEGLNVLEYFNSTHGARKGLADTAL 2153
Query: 195 RTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI--LIQTLIGRVLADD 252
+T++AGYLTR+L++V Q++ V DCGT GI + T + SE I L + + GRVL +D
Sbjct: 2154 KTANAGYLTRKLIDVSQNVKVVSDDCGTHEGIEI-TDIAVGSELIEPLEERIFGRVLLED 2212
Query: 253 IY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGN 310
+ I + ++ + I + + + I IRTP TC+ +C CYG + G
Sbjct: 2213 VIDPITNEILLYADTLIDEEGAKKVVEAGIKSITIRTPVTCKAPKGVCAKCYGLNLGEGK 2272
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVRSPSNGKIKFNENSAYP 369
+ GEAVG++A QSIGEPGTQLTLRTFH GG + E + + G ++F Y
Sbjct: 2273 MSYPGEAVGVVAAQSIGEPGTQLTLRTFHVGGTASRSQDEREIVASKEGFVRFYNLRTYT 2332
Query: 370 TR 371
+
Sbjct: 2333 NK 2334
Score = 99.5 bits (244), Expect = 2e-19
Identities = 58/134 (43%), Positives = 87/134 (64%), Gaps = 5/134 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL-LRAQRTGR 1236
+V+++Q+VYR QGV I ++HIEIIV Q+ +V + + G S F G+L+ L + R
Sbjct: 2743 IVSEVQQVYRRQGVSIADKHIEIIVSQMLRQVRILDSGDSK-FIEGDLVSKKLFKEENAR 2801
Query: 1237 ALE---ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
+ E +LLGIT+ ++ + S IS ASFQET +VL +A++ + D+L+ LKEN+
Sbjct: 2802 VIALKGEPAIAEPVLLGITRAAIGSDSIISAASFQETTKVLTEASIAMKKDFLEDLKENV 2861
Query: 1294 VLGGIIPVGTGFKK 1307
VLG +IPVGTG K
Sbjct: 2862 VLGRMIPVGTGMYK 2875
>pir||B71846 dna-directed RNA polymerase, beta chain - Helicobacter pylori (strain
J99)
gb|AAD06699.1| (AE001540) DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter
pylori J99]
Length = 2890
Score = 233 bits (588), Expect = 1e-59
Identities = 136/362 (37%), Positives = 214/362 (58%), Gaps = 11/362 (3%)
Query: 20 KRIISRLIDHF----GMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
K+ I L+D+ G+ T+ LD +KTLGFR AT IS+ ++D++T K +V+ A
Sbjct: 1974 KKDIGVLVDYVHKVGGIGITATFLDHLKTLGFRYATKAGISISMEDIITPKDKQKMVEKA 2033
Query: 76 EQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-DPFNPVHIMSFS 134
+ + +++ + G + E+ + I+ W ++ + +EM + + FN +++M+ S
Sbjct: 2034 KVEVKKIQQQYDQGLLTDQERYNKIIDTWTEVNDRMSKEMMSAIAKDKEGFNSIYMMADS 2093
Query: 135 GARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAV 194
GARG+A+Q+ QL MRGLM+ P G +I+ PI SN +EGL++ EY S +GARKG+ DTA+
Sbjct: 2094 GARGSAAQIRQLSAMRGLMTKPDGSIIETPIISNFKEGLNVLEYFNSTHGARKGLADTAL 2153
Query: 195 RTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI--LIQTLIGRVLADD 252
+T++AGYLTR+L++V Q++ V DCGT GI + T + SE I L + + GRVL +D
Sbjct: 2154 KTANAGYLTRKLIDVSQNVKVVSDDCGTHEGIEI-TDIAVGSELIEPLEERIFGRVLLED 2212
Query: 253 IY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGN 310
+ I + ++ + I + + + I IRTP TC+ +C CYG + G
Sbjct: 2213 VIDPITNEILLYADTLIDEEGAKKVVEAGIKSITIRTPVTCKAPKGVCAKCYGLNLGEGK 2272
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVRSPSNGKIKFNENSAYP 369
+ GEAVG++A QSIGEPGTQLTLRTFH GG + E + + G ++F Y
Sbjct: 2273 MSYPGEAVGVVAAQSIGEPGTQLTLRTFHVGGTASRSQDEREIVASKEGFVRFYNLRTYT 2332
Query: 370 TR 371
+
Sbjct: 2333 NK 2334
Score = 99.1 bits (243), Expect = 3e-19
Identities = 60/134 (44%), Positives = 90/134 (66%), Gaps = 5/134 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIG--LLRAQRTG 1235
+V+++Q+VYR QGV I ++HIEIIV Q+ +V + + G S F G+L+ L + + T
Sbjct: 2743 IVSEVQQVYRRQGVSIADKHIEIIVSQMLRQVRILDSGDSK-FIEGDLVSKKLFKEENTR 2801
Query: 1236 R-ALE-ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
AL+ E +LLGIT+ ++ + S IS ASFQET +VL +A++ + D+L+ LKEN+
Sbjct: 2802 VIALKGEPAIAEPVLLGITRAAIGSDSIISAASFQETTKVLTEASIAMKKDFLEDLKENV 2861
Query: 1294 VLGGIIPVGTGFKK 1307
VLG +IPVGTG K
Sbjct: 2862 VLGRMIPVGTGMYK 2875
>gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subunit [Escherichia
coli]
Length = 1407
Score = 231 bits (584), Expect = 3e-59
Identities = 135/376 (35%), Positives = 208/376 (54%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 593 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 653 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 713 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIEXPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 825
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V RN + + + +R+
Sbjct: 826 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSV 885
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 886 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 945
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 946 AESSIQVKNKGSIKLS 961
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 1352 IVGRLIPAGTGYAYHQDRMRRR 1373
>prf||0808241A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 231 bits (584), Expect = 3e-59
Identities = 135/376 (35%), Positives = 208/376 (54%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 593 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 653 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 713 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 825
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V RN + + + +R+
Sbjct: 826 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNXLLHEQWCDLLEENSVDAVKVRSV 885
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 886 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 945
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 946 AESSIQVKNKGSIKLS 961
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 1352 IVGRLIPAGTGYAYHQDRMRRR 1373
>prf||0805230A rpoC gene EcoRID fragment [Escherichia coli]
Length = 814
Score = 231 bits (584), Expect = 3e-59
Identities = 135/376 (35%), Positives = 208/376 (54%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 419 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 478
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 479 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 538
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 539 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 598
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 599 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 651
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V RN + + + +R+
Sbjct: 652 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSV 711
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 712 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 771
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 772 AESSIQVKNKGSIKLS 787
>gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli]
Length = 814
Score = 231 bits (584), Expect = 3e-59
Identities = 135/376 (35%), Positives = 208/376 (54%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 419 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 478
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 479 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 538
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 539 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 598
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 599 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 651
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V RN + + + +R+
Sbjct: 652 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLQEQWCDLLEENSVDAVKVRSV 711
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 712 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 771
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 772 AESSIQVKNKGSIKLS 787
>sp|P00577|RPOC_ECOLI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||RNECC DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Escherichia
coli
emb|CAA23626.1| (V00339) rpoC [Escherichia coli]
gb|AAC76962.1| (AE000472) RNA polymerase, beta prime subunit [Escherichia coli
K12]
gb|AAG59184.1|AE005630_4 (AE005630) RNA polymerase, beta prime subunit [Escherichia coli
O157:H7]
Length = 1407
Score = 231 bits (584), Expect = 3e-59
Identities = 135/376 (35%), Positives = 208/376 (54%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 593 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 653 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 713 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 825
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V RN + + + +R+
Sbjct: 826 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSV 885
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 886 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 945
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 946 AESSIQVKNKGSIKLS 961
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 1352 IVGRLIPAGTGYAYHQDRMRRR 1373
>prf||1605164A RNA polymerase beta' [Pseudomonas putida]
Length = 1409
Score = 229 bits (579), Expect = 1e-58
Identities = 134/374 (35%), Positives = 214/374 (56%), Gaps = 23/374 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ + AI ++I++ G+ T DQ+ GF +T + +S+G++D + K
Sbjct: 604 NQPMKKKAISKLINQCYRVVGLKETVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKAR 663
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
++ +A + +E + G V EK + I++W ++ + + M N S
Sbjct: 664 IIGNATDEVKEIESQYASGLVTQGEKYNKVIDLWSKANDEVSKAMMANLSKEKVIDREGK 723
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGA G+A+Q+ QL GMRGLM+ P G +I+ PI +N REGLS+ +Y
Sbjct: 724 EVEQESFNSMYMMADSGAGGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLSVLQY 783
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT +G+ V T + +
Sbjct: 784 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTDQGL-VMTPHIEGGDV 842
Query: 239 I--LIQTLIGRVLADDIY-IGSRCIVVRNQDIGIGLINRFINF----QTQPIFIRTPFTC 291
+ L + ++GRV+A D++ G+ ++V G + +++ F + +R+P C
Sbjct: 843 VEPLGERVLGRVIARDVFKPGTEDVIV---PAGTLVDEQWVEFIELNSIDEVIVRSPINC 899
Query: 292 RNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEY 351
IC CYGR G+ V +GEAVG+IA QSIGEPGTQLT+RTFH GG + +A
Sbjct: 900 ETRYGICAKCYGRDLARGHQVNIGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASRTSAAD 959
Query: 352 VRSPSNGKIKFNEN 365
NG + + N
Sbjct: 960 SVQVKNGGMGASRN 973
Score = 119 bits (296), Expect = 2e-25
Identities = 89/265 (33%), Positives = 129/265 (48%), Gaps = 42/265 (15%)
Query: 1097 GEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLE-KRIDAWNERITG 1155
G + GD++ E S++ DIT GLP+V + E R S+ E A+ + G
Sbjct: 1123 GAQIGVGDVIARIPQETSKTRDITGGLPRVADLFEARRPKEASILAEVSGTIAFGKETKG 1182
Query: 1156 ILGI----------------PWRFLIGAE-----------------------LTIAQSRI 1176
+ WR L E L ++
Sbjct: 1183 KRRLVITPTDGSEPYEELIPKWRHLNVFEGEQVNRGEVISDGPSDPDDILRLLGVSALGK 1242
Query: 1177 SLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGR 1236
+ N+IQ VYR QGV I+++HIE I+RQ+ KV +SE G S+ ++ +
Sbjct: 1243 YIDNEIQDVYRLQGVKINDKHIETILRQMLRKVRISESGDSSFIKGDQMEYPGAGRERAS 1302
Query: 1237 ALEESIC--YRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
A E+ + +LLGITK SL+T+SFIS ASFQET RVL +AA+ G+ D+L+GLKEN+V
Sbjct: 1303 ASEDKFISKFTRVLLGITKASLSTESFISAASFQETTRVLTEAAVTGKRDYLRGLKENVV 1362
Query: 1295 LGGIIPVGTGFKKIGDRSSARQDTK 1319
+G +IP GTG +R + R K
Sbjct: 1363 VGRLIPAGTGLAYHTERMARRDADK 1387
>sp|P19176|RPOC_PSEPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA34538.1| (X16538) beta'-subunit of RNA polymerase [Pseudomonas putida]
Length = 1409
Score = 229 bits (579), Expect = 1e-58
Identities = 134/374 (35%), Positives = 214/374 (56%), Gaps = 23/374 (6%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ + AI ++I++ G+ T DQ+ GF +T + +S+G++D + K
Sbjct: 604 NQPMKKKAISKLINQCYRVVGLKETVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKAR 663
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT-------- 122
++ +A + +E + G V EK + I++W ++ + + M N S
Sbjct: 664 IIGNATDEVKEIESQYASGLVTQGEKYNKVIDLWSKANDEVSKAMMANLSKEKVIDREGK 723
Query: 123 ----DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
+ FN +++M+ SGA G+A+Q+ QL GMRGLM+ P G +I+ PI +N REGLS+ +Y
Sbjct: 724 EVEQESFNSMYMMADSGAGGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLSVLQY 783
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT +G+ V T + +
Sbjct: 784 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTDQGL-VMTPHIEGGDV 842
Query: 239 I--LIQTLIGRVLADDIY-IGSRCIVVRNQDIGIGLINRFINF----QTQPIFIRTPFTC 291
+ L + ++GRV+A D++ G+ ++V G + +++ F + +R+P C
Sbjct: 843 VEPLGERVLGRVIARDVFKPGTEDVIV---PAGTLVDEQWVEFIELNSIDEVIVRSPINC 899
Query: 292 RNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEY 351
IC CYGR G+ V +GEAVG+IA QSIGEPGTQLT+RTFH GG + +A
Sbjct: 900 ETRYGICAKCYGRDLARGHQVNIGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASRTSAAD 959
Query: 352 VRSPSNGKIKFNEN 365
NG + + N
Sbjct: 960 SVQVKNGGMGASRN 973
Score = 119 bits (296), Expect = 2e-25
Identities = 89/265 (33%), Positives = 129/265 (48%), Gaps = 42/265 (15%)
Query: 1097 GEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRSIDSISMNLE-KRIDAWNERITG 1155
G + GD++ E S++ DIT GLP+V + E R S+ E A+ + G
Sbjct: 1123 GAQIGVGDVIARIPQETSKTRDITGGLPRVADLFEARRPKEASILAEVSGTIAFGKETKG 1182
Query: 1156 ILGI----------------PWRFLIGAE-----------------------LTIAQSRI 1176
+ WR L E L ++
Sbjct: 1183 KRRLVITPTDGSEPYEELIPKWRHLNVFEGEQVNRGEVISDGPSDPDDILRLLGVSALGK 1242
Query: 1177 SLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGR 1236
+ N+IQ VYR QGV I+++HIE I+RQ+ KV +SE G S+ ++ +
Sbjct: 1243 YIDNEIQDVYRLQGVKINDKHIETILRQMLRKVRISESGDSSFIKGDQMEYPGAGRERAS 1302
Query: 1237 ALEESIC--YRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
A E+ + +LLGITK SL+T+SFIS ASFQET RVL +AA+ G+ D+L+GLKEN+V
Sbjct: 1303 ASEDKFISKFTRVLLGITKASLSTESFISAASFQETTRVLTEAAVTGKRDYLRGLKENVV 1362
Query: 1295 LGGIIPVGTGFKKIGDRSSARQDTK 1319
+G +IP GTG +R + R K
Sbjct: 1363 VGRLIPAGTGLAYHTERMARRDADK 1387
>sp|P77839|RPOC_BROTH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 229 bits (578), Expect = 2e-58
Identities = 130/331 (39%), Positives = 205/331 (61%), Gaps = 12/331 (3%)
Query: 19 IKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQ 78
++ II+++ F + TS +LD++K GF+ +T I++GI D++ + K ++ + +
Sbjct: 620 LEEIIAQIFKLFHITETSKMLDRMKDQGFKYSTLAGITVGISDIIVVKDKPEILAASHDE 679
Query: 79 SLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARG 138
+ K G + E+ + I IW A + L+ ++ + D NP+ +M SGARG
Sbjct: 680 VDNVTKMFKRGLMTDEERYERVIAIWNAAKDQLQNKL---IAGLDRLNPIFMMQDSGARG 736
Query: 139 NASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSD 198
N S QL GMRGLM+DP G++++LPI SN REGL++ EY IS +GARKG+ DTA++T+D
Sbjct: 737 NISNFTQLAGMRGLMADPSGRIVELPITSNFREGLNVLEYFISSHGARKGLTDTALKTAD 796
Query: 199 AGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLI----GRVLADDI- 253
+GYLTRRLV+V Q ++VR T+ G+ G+ V+ ++ +I+TL GR A +
Sbjct: 797 SGYLTRRLVDVAQDVIVRETNDGSDHGLLVSD---IVEGPEVIETLTERLEGRYSAKTVR 853
Query: 254 YIGSRCIVVRNQDIGIGLINRFINFQ-TQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLV 312
+ + +++R ++ I I + ++IR+ FTC + ++ YG+ G+ V
Sbjct: 854 HPETNEVMIRPDELFTQEIAEAIPAAGIKEVWIRSVFTCNTKHGVSKISYGKDLSTGSEV 913
Query: 313 ELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
E+GEAVGI+A QSIGEPGTQLT+RTFHTGGV
Sbjct: 914 EVGEAVGIVAAQSIGEPGTQLTMRTFHTGGV 944
>emb|CAA61515.1| (X89231) DNA-directed RNA polymerase [Brochothrix thermosphacta]
Length = 1053
Score = 229 bits (578), Expect = 2e-58
Identities = 130/331 (39%), Positives = 205/331 (61%), Gaps = 12/331 (3%)
Query: 19 IKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQ 78
++ II+++ F + TS +LD++K GF+ +T I++GI D++ + K ++ + +
Sbjct: 620 LEEIIAQIFKLFHITETSKMLDRMKDQGFKYSTLAGITVGISDIIVVKDKPEILAASHDE 679
Query: 79 SLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARG 138
+ K G + E+ + I IW A + L+ ++ + D NP+ +M SGARG
Sbjct: 680 VDNVTKMFKRGLMTDEERYERVIAIWNAAKDQLQNKL---IAGLDRLNPIFMMQDSGARG 736
Query: 139 NASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSD 198
N S QL GMRGLM+DP G++++LPI SN REGL++ EY IS +GARKG+ DTA++T+D
Sbjct: 737 NISNFTQLAGMRGLMADPSGRIVELPITSNFREGLNVLEYFISSHGARKGLTDTALKTAD 796
Query: 199 AGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLI----GRVLADDI- 253
+GYLTRRLV+V Q ++VR T+ G+ G+ V+ ++ +I+TL GR A +
Sbjct: 797 SGYLTRRLVDVAQDVIVRETNDGSDHGLLVSD---IVEGPEVIETLTERLEGRYSAKTVR 853
Query: 254 YIGSRCIVVRNQDIGIGLINRFINFQ-TQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLV 312
+ + +++R ++ I I + ++IR+ FTC + ++ YG+ G+ V
Sbjct: 854 HPETNEVMIRPDELFTQEIAEAIPAAGIKEVWIRSVFTCNTKHGVSKISYGKDLSTGSEV 913
Query: 313 ELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
E+GEAVGI+A QSIGEPGTQLT+RTFHTGGV
Sbjct: 914 EVGEAVGIVAAQSIGEPGTQLTMRTFHTGGV 944
>gb|AAF33515.1| (AF170176) 99% identity over 1407 amino acids with E. coli
DNA-directed RNA polymerase beta subunit (RPOC)
(SW:P00577); contains similarity to Pfam domain PF00623
(RNA_pol_A), Score=1064.7, E=0, N=1 [Salmonella
typhimurium LT2]
Length = 1407
Score = 229 bits (577), Expect = 2e-58
Identities = 132/369 (35%), Positives = 205/369 (54%), Gaps = 16/369 (4%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ GF A + S+GIDD++ K
Sbjct: 593 NQALGKKAISKMLNTCYRILGLKPTVIFADQTMYTGFAYAARSGASVGIDDMVIPEKKHE 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 653 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y
Sbjct: 713 EEQQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN-TRNRMMSE 237
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI + +
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGILMTPVIEGGDVK 832
Query: 238 RILIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTS 295
L ++GRV A+D+ +V RN + + + +R+ +C
Sbjct: 833 EPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEANSVDAVKVRSVVSCDTDF 892
Query: 296 WICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAE-YVRS 354
+C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG + AE ++
Sbjct: 893 GVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAESSIQV 952
Query: 355 PSNGKIKFN 363
+ G IK +
Sbjct: 953 KNKGSIKLS 961
Score = 120 bits (297), Expect = 1e-25
Identities = 68/142 (47%), Positives = 92/142 (63%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIESAGSSD-FLEGEQVEYSRVKIANRE 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + + LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 LEANGKVGATFSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 1352 IVGRLIPAGTGYAYHQDRMRRR 1373
>sp|P95816|RPOC_STRPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65249.1| (X96385) DNA-dependent RNA polymerase [Streptococcus pyogenes]
Length = 989
Score = 227 bits (572), Expect = 8e-58
Identities = 132/342 (38%), Positives = 194/342 (56%), Gaps = 13/342 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N+ F K +G II+ F TS LD++K LG+ +T +++GI D+ I
Sbjct: 546 NVPFKKKNLGN-----IIAETFKRFRTTETSAFLDRLKDLGYYHSTLAGLTVGIADIPVI 600
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
+K ++ A + + K G + ++ W E L + + DP
Sbjct: 601 DNKAEIIDAAHHRVEEINKAFRRGLMTDDDRYVAVTTTWREAKEALEKRL---IETQDPK 657
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP +M SGARGN S QL GMRGLM+ P G++++LPI SN REGLS+ E S + A
Sbjct: 658 NPFVMMMDSGARGNISNFSQLAGMRGLMAAPNGRIMELPILSNFREGLSVLEMFFSTHSA 717
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN--TRNRMMSERILIQT 243
RKG+ DTA++T+D+GYLTRRLV+V Q +++R DCGT RG+ + T + ++E + ++
Sbjct: 718 RKGMTDTALKTADSGYLTRRLVDVAQDVIIREDDCGTDRGLLIRAITDGKEVTETLEVR- 776
Query: 244 LIGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLC 301
L GR + ++ +Q I + + ++ + + IR+ FTC +CR C
Sbjct: 777 LQGRYTRKSVKHPETGEVLIGADQLITEDMARKIVDAGVEEVTIRSVFTCATRHGVCRHC 836
Query: 302 YGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
YG + G+ VE+GEAVG IA QSIGEPGTQLT+RTFHTGGV
Sbjct: 837 YGINLATGDAVEVGEAVGTIAAQSIGEPGTQLTMRTFHTGGV 878
>sp|P94899|RPOC_LEUPS DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65079.1| (X95812) DNA-dependent RNA polymerase [Leuconostoc
pseudomesenteroides]
Length = 989
Score = 226 bits (571), Expect = 1e-57
Identities = 127/332 (38%), Positives = 199/332 (59%), Gaps = 14/332 (4%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + + + TS +LD++K LG+ ++T + +++ + D+ + K +++DA Q
Sbjct: 557 IIAEVYKRYKVTETSLLLDRMKDLGYEKSTESGLTVAMTDVTDLKEKPAILEDAHNQVAT 616
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ ++ EIW + ++ ++ +F +P NP+ +M SGARGN S
Sbjct: 617 VTKQFRRGLITDDERYQRVTEIWTKAKDIIQDKLIESF---EPTNPIFMMQDSGARGNIS 673
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++I+LP+ +N REGL++ E IS +GARKG+ DTA++T+++GY
Sbjct: 674 NFVQLAGMRGLMAGPGGKIIELPVTANFREGLTVMEMFISTHGARKGMSDTALKTANSGY 733
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTLIGRVLAD-------DIY 254
LTRRLV+V Q ++VR D + RG++V +M +++ L R+L D
Sbjct: 734 LTRRLVDVAQDVIVREFDNDSDRGVAVKA---IMDGTSVVEPLYDRILGRYAMKSVFDPE 790
Query: 255 IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVEL 314
G + IV RN+ I + +N + + IR+ FT + L YGR+ G VE+
Sbjct: 791 TGEK-IVSRNEMIDEDVAKAIVNAGIEEVTIRSVFTSTTEHGVSVLDYGRNLASGEEVEV 849
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG 346
GEAVG +A QSIGEPGTQLT+R FHTGGV G
Sbjct: 850 GEAVGTVAAQSIGEPGTQLTMRNFHTGGVAGG 881
>prf||1211235L ORF 134 [Nicotiana tabacum]
Length = 134
Score = 224 bits (566), Expect = 4e-57
Identities = 103/128 (80%), Positives = 114/128 (88%)
Query: 352 VRSPSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQND 411
VR+PSNGKIKFNE+ +PTRTRHGHPAFLC IDLYVTIES DI+HNV IPPKS LLVQND
Sbjct: 1 VRAPSNGKIKFNEDLVHPTRTRHGHPAFLCSIDLYVTIESEDILHNVNIPPKSLLLVQND 60
Query: 412 QYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKT 471
QYV+SEQ+IAEIRAG TLN KEKVRKHI+SDS+GEMHWST++YH EF Y NVH+LPKT
Sbjct: 61 QYVESEQVIAEIRAGISTLNFKEKVRKHIYSDSDGEMHWSTDVYHAPEFTYGNVHLLPKT 120
Query: 472 SHLWILSG 479
SHLWIL G
Sbjct: 121 SHLWILLG 128
>sp|Q9ZE20|RPOC_RICPR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||B71724 dna-directed RNA polymerase beta prime chain (rpoC) RP141 -
Rickettsia prowazekii
emb|CAA14609.1| (AJ235270) DNA-DIRECTED RNA POLYMERASE BETA PRIME CHAIN (rpoC)
[Rickettsia prowazekii]
Length = 1372
Score = 223 bits (563), Expect = 9e-57
Identities = 150/451 (33%), Positives = 235/451 (51%), Gaps = 22/451 (4%)
Query: 9 FHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSK 68
F NK + I +I + H G T DQ+ LGF+ A ++ IS G+DD++ SK
Sbjct: 589 FINKQLTKKDISLVIDLVYRHCGQKATVIFADQLMKLGFKYACSSGISFGMDDMVVPESK 648
Query: 69 GWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDP---- 124
+ + + + E+ + G + EK + ++ W ++ + +M + T P
Sbjct: 649 STHINETQLEIKEFEQQYSNGLITYGEKYNKVVDAWSRCTDRVANDMMKEIA-TPPVNDY 707
Query: 125 -----FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYI 179
N +++M+ SGARG+ Q+ QL GMRGLM+ GQ+I PI SN +EGL+ E
Sbjct: 708 PNHQKINAIYMMAISGARGSFQQIKQLGGMRGLMTKSNGQIIQTPIISNFKEGLTEFECF 767
Query: 180 ISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERI 239
S G RKG +DTA++T+ +GYLTR+LV+V Q ++ DCGT +GI V ++ + I
Sbjct: 768 NSANGMRKGQIDTALKTASSGYLTRKLVDVAQDCIITEKDCGTDKGIEV--KSVIEGGEI 825
Query: 240 LI---QTLIGRVLADDIY--IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNT 294
++ + ++GR A DI+ + + I+ + + I + + + I I++ TC ++
Sbjct: 826 IVPLAEKILGRTAAIDIFHPVTNDLILNKGELINESKLEQIESAGLDRIMIKSVLTCESS 885
Query: 295 SWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT-GGTAEYVR 353
+ IC +CYGR G LV GEA+G+IA QSIGEPGTQLT+RTFH GG T G V
Sbjct: 886 TGICSICYGRDLATGTLVSEGEAIGVIAAQSIGEPGTQLTMRTFHIGGAATKGAEVSSVE 945
Query: 354 SPSNGKIK-FNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQ 412
+ + K+K + N + R + C + L + H IP + LLV +
Sbjct: 946 ASYDAKVKIISRNVVINSEERKIVMSRNCELLLLDNNGNEKARHK--IPYGARLLVDDGD 1003
Query: 413 YVKSEQIIAEIRAGTYTLNLKEKVRKHIFSD 443
V Q +AE T + + EK K +F D
Sbjct: 1004 MVIKTQKLAEWDPYTIPI-ITEKSGKVLFKD 1033
Score = 118 bits (294), Expect = 3e-25
Identities = 91/287 (31%), Positives = 140/287 (48%), Gaps = 56/287 (19%)
Query: 1066 GQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPK 1125
G+VIT+ L Y GA + G + GDI+ E + + DIT GLP+
Sbjct: 1078 GEVITLSNG-----LEARYYLPVGAVLSVEDGIQISVGDIIARIPKESTTTKDITGGLPR 1132
Query: 1126 VEQVLEVRS------IDSISMNLEKRIDAWNER------ITGILGIPWRFLIGAELTIAQ 1173
V +++E R I + +E D ++R I G + I + G + + +
Sbjct: 1133 VAELVEARRPKDHAVIAEVDGRVEFGKDYKSKRRIIIHPIDGTMSIEYMVPKGKHVVVNE 1192
Query: 1174 SRIS----------------------------LVNKIQRVYRSQGVHIHNRHIEIIVRQI 1205
+V ++Q VYR QGV I ++HIE+I+RQ+
Sbjct: 1193 GDFVKKGDLLIDGNPVLQDILKVMGVEVLANYIVKEVQAVYRLQGVKIDDKHIEVIIRQM 1252
Query: 1206 TSKVLVSEDGMSNVFSPGELIGL-------LRAQRTGRALEESICYRTLLLGITKTSLNT 1258
KV V++ G + + GE I +A + G E+ + +L GITK SL T
Sbjct: 1253 LQKVEVTDSGGTTLLV-GEKIDRHEFDEINAKAMKNGLKPAEA---QLILQGITKASLQT 1308
Query: 1259 QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGF 1305
+SFIS ASFQET RVL +AA+ G++D L+GLKEN+++G ++P GTG+
Sbjct: 1309 RSFISAASFQETTRVLTEAAIAGKVDKLRGLKENVIVGRLVPAGTGY 1355
>pir||A05184 hypothetical protein 134 - common tobacco chloroplast
Length = 134
Score = 223 bits (563), Expect = 9e-57
Identities = 102/128 (79%), Positives = 114/128 (88%)
Query: 352 VRSPSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQND 411
+R+PSNGKIKFNE+ +PTRTRHGHPAFLC IDLYVTIES DI+HNV IPPKS LLVQND
Sbjct: 1 MRAPSNGKIKFNEDLVHPTRTRHGHPAFLCSIDLYVTIESEDILHNVNIPPKSLLLVQND 60
Query: 412 QYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYSNVHILPKT 471
QYV+SEQ+IAEIRAG TLN KEKVRKHI+SDS+GEMHWST++YH EF Y NVH+LPKT
Sbjct: 61 QYVESEQVIAEIRAGISTLNFKEKVRKHIYSDSDGEMHWSTDVYHAPEFTYGNVHLLPKT 120
Query: 472 SHLWILSG 479
SHLWIL G
Sbjct: 121 SHLWILLG 128
>sp|P94892|RPOC_LEUME DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
emb|CAA65077.1| (X95810) DNA-dependent RNA polymerase [Leuconostoc mesenteroides]
Length = 989
Score = 222 bits (561), Expect = 2e-56
Identities = 124/331 (37%), Positives = 198/331 (59%), Gaps = 12/331 (3%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
II+ + + + TS +LD++K LG+ ++T + +++ + D+L + K +++DA Q
Sbjct: 557 IIAEVYKRYKVTETSLLLDRMKDLGYDKSTESGLTVSMTDVLELEEKPAILEDAHSQVAT 616
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ ++ EIW + ++ ++ +F +P NP+ +M SGARGN S
Sbjct: 617 VTKQFRRGLITDSERYQRVTEIWTKAKDIIQDKLIESF---EPTNPIFMMQDSGARGNIS 673
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++I+LP+ +N REGL++ E IS +GARKG+ DTA++T+++GY
Sbjct: 674 NFVQLAGMRGLMAGPGGKIIELPVTANFREGLTVMEMFISTHGARKGMSDTALKTANSGY 733
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSERILIQTL----IGRVLADDIY--I 255
LTRRLV+V Q ++VR D + RG++ +M +++ L +GR ++
Sbjct: 734 LTRRLVDVAQDVIVREFDNDSDRGVAAQA---IMDGTSVVEPLYVRILGRYAMKSVFDPE 790
Query: 256 GSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELG 315
I RN+ I + + +N + + IR+ FT + L YGR+ G VE+G
Sbjct: 791 TDEKICSRNEMIDEDVAKKIVNAGIKEVTIRSVFTSTTEHGVSVLDYGRNLASGEEVEVG 850
Query: 316 EAVGIIAGQSIGEPGTQLTLRTFHTGGVFTG 346
EAVG +A QSIGEPGTQLT+R FHTGGV G
Sbjct: 851 EAVGTVAAQSIGEPGTQLTMRNFHTGGVAGG 881
>prf||1008145A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 222 bits (560), Expect = 2e-56
Identities = 131/376 (34%), Positives = 206/376 (53%), Gaps = 30/376 (7%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
N+ +G AI ++++ G+ T DQ+ GF A + S+GIDD++ K
Sbjct: 593 NQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE 652
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD------- 123
++ +AE + +++ G V A E+ + I+IW A ++ + + M N
Sbjct: 653 IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQ 712
Query: 124 -----PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEY 178
FN +++M+ SGARG+A+Q+ QL GMR ++ P G +I+ PI +N REGL++ +Y
Sbjct: 713 EEKQVSFNSIYMMADSGARGSAAQIRQLAGMRRGLAKPDGSIIETPITANFREGLNVLQY 772
Query: 179 IISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMMSER 238
IS +GARKG+ DTA++T+++GYLTRRLV+V Q +VV DCGT GI MM+
Sbjct: 773 FISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGI-------MMTPV 825
Query: 239 I--------LIQTLIGRVLADDIYIGSRC--IVVRNQDIGIGLINRFINFQTQPIFIRTP 288
I L ++GRV A+D+ +V R+ + + + +R+
Sbjct: 826 IEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRDTLLHEQWCDLLEENSVDAVKVRSV 885
Query: 289 FTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGT 348
+C +C CYGR G+++ GEA+G+IA QSIGEPGTQLT+RTFH GG +
Sbjct: 886 VSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAA 945
Query: 349 AE-YVRSPSNGKIKFN 363
AE ++ + G IK +
Sbjct: 946 AESSIQVKNKGSIKLS 961
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 1233 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 1291
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 1292 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 1351
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 1352 IVGRLIPAGTGYAYHQDRMRRR 1373
>sp|Q01923|RPOD_SORBI DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||S30925 DNA-directed RNA polymerase (EC 2.7.7.6) beta'' chain - Sorghum
chloroplast (strain Calico) (fragment)
emb|CAA78707.1| (Z14983) rpoC2 [Sorghum bicolor]
prf||1908376A RNA polymerase [Sorghum bicolor]
Length = 435
Score = 211 bits (531), Expect = 5e-53
Identities = 122/294 (41%), Positives = 170/294 (57%), Gaps = 43/294 (14%)
Query: 404 SFLLVQNDQYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYS 463
S +LVQNDQYV+SEQ+IAEIRAGT TL+ KEKV+KHI+S+S+GEMHWST++YH E+ Y
Sbjct: 1 SLILVQNDQYVESEQVIAEIRAGTSTLHFKEKVQKHIYSESDGEMHWSTDVYHAPEYQYG 60
Query: 464 NVHILPKTSHLWILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR-- 521
N+ LPKTSHLWILS + +S S SL KDQDQM+T+S R +F ++N+QV
Sbjct: 61 NLRRLPKTSHLWILSVSMCRSSIASFSLHKDQDQMNTYSFSVDGRYIFDFSMANDQVSHR 120
Query: 522 ---------------LCPD------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIR 560
L PD H + +P+I D S+LLAKKRRNRF +P + +
Sbjct: 121 LLDTFGKKDREILDYLTPDRIVSNGHWNCFYPSILQDNSDLLAKKRRNRFAVPLQYHQEQ 180
Query: 561 ERNNELMPDISVEIPIDGIIHKNSILAYFDDPQYR--TQSSGIAKYKTIGIHSIFQKEDL 618
E+ IS+EIP G++ +N+I AYFDDP+YR + SGI K++ + ++ +
Sbjct: 181 EKERISCLGISMEIPFMGVLRRNTIFAYFDDPRYRKDKRGSGIVKFRYRTLEEEYRTRE- 239
Query: 619 IEYR-----------------GIREFKPKYQIKVDRFFFIPQEVHILSESSSIM 655
EYR RE + +Y+I D + + E L + I+
Sbjct: 240 EEYRTREEDSEDEYESPENKYRTREGEGEYEILEDEYRTLEDEYETLEDEYGIL 293
Score = 78.4 bits (190), Expect = 5e-13
Identities = 41/85 (48%), Positives = 57/85 (66%)
Query: 590 DDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILS 649
+D + ++ +Y + SI +KE IE+RG +EF KYQ +VDRFFFI QE+HIL
Sbjct: 351 EDSEEDSEEDSEDEYGSPEEDSILKKEGFIEHRGTKEFSLKYQKEVDRFFFILQELHILP 410
Query: 650 ESSSIMVRNNSIIGVNTPITLNKKS 674
SSS+ V +NSIIGV+T +T N +S
Sbjct: 411 RSSSLKVLDNSIIGVDTQLTKNTRS 435
>pir||S30926 DNA-directed RNA polymerase (EC 2.7.7.6) beta''-2 chain - Sorghum
chloroplast (strain KS 39A) (fragment)
emb|CAA78708.1| (Z14984) rpoC2 [Sorghum bicolor]
Length = 380
Score = 210 bits (529), Expect = 9e-53
Identities = 111/227 (48%), Positives = 148/227 (64%), Gaps = 25/227 (11%)
Query: 404 SFLLVQNDQYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHVSEFAYS 463
S +LVQNDQYV+SEQ+IAEIRAGT TL+ KEKV+KHI+S+S+GEMHWST++YH E+ Y
Sbjct: 1 SLILVQNDQYVESEQVIAEIRAGTSTLHFKEKVQKHIYSESDGEMHWSTDVYHAPEYQYG 60
Query: 464 NVHILPKTSHLWILSGNSHKSDTVSLSLLKDQDQMSTHSLPTAKRNTSNFLVSNNQVR-- 521
N+ LPKTSHLWILS + +S S SL KDQDQM+T+S R +F ++N+QV
Sbjct: 61 NLRRLPKTSHLWILSVSMCRSSIASFSLHKDQDQMNTYSFSVDGRYIFDFSMANDQVSHR 120
Query: 522 ---------------LCPD------HCHFMHPTISPDTSNLLAKKRRNRFIIPFLFRSIR 560
L PD H + +P+I D S+LLAKKRRNRF +P + +
Sbjct: 121 LLDTFGKKDREILDYLTPDRIVSNGHWNCFYPSILQDNSDLLAKKRRNRFAVPLQYHQEQ 180
Query: 561 ERNNELMPDISVEIPIDGIIHKNSILAYFDDPQYR--TQSSGIAKYK 605
E+ IS+EIP G++ +N+I AYFDDP+YR + SGI K++
Sbjct: 181 EKERISCLGISMEIPFMGVLRRNTIFAYFDDPRYRKDKRGSGIVKFR 227
Score = 78.4 bits (190), Expect = 5e-13
Identities = 41/85 (48%), Positives = 57/85 (66%)
Query: 590 DDPQYRTQSSGIAKYKTIGIHSIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILS 649
+D + ++ +Y + SI +KE IE+RG +EF KYQ +VDRFFFI QE+HIL
Sbjct: 296 EDSEEDSEEDSEDEYGSPEEDSILKKEGFIEHRGTKEFSLKYQKEVDRFFFILQELHILP 355
Query: 650 ESSSIMVRNNSIIGVNTPITLNKKS 674
SSS+ V +NSIIGV+T +T N +S
Sbjct: 356 RSSSLKVLDNSIIGVDTQLTKNTRS 380
>gi|11466501 RNA polymerase subunit beta' [Reclinomonas americana]
pir||S78132 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Reclinomonas
americana (ATCC 50394) mitochondrion
gb|AAD11865.1| (AF007261) RNA polymerase subunit beta' [Reclinomonas americana]
Length = 1384
Score = 206 bits (518), Expect = 2e-51
Identities = 149/496 (30%), Positives = 247/496 (49%), Gaps = 25/496 (5%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
NKV I +I + + + TS ILDQ+ + GF A ISL +D+ T K
Sbjct: 603 NKVFDKKEIVSLIKMISNLNNLNKTSFILDQIMSFGFYYAYKAGISLHKNDINTPNLKEL 662
Query: 71 LVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF--NPV 128
V +++ K+ G + EK ++ + W S L ++ + T P + +
Sbjct: 663 FVYKTKKKVEDDLKNFSRGIISIDEKSKRLLNEWSKCSSILANQILKDVIYTVPNRKSSI 722
Query: 129 HIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKG 188
+++ SGARG+ Q+ QL G+RGLM P G ++++PI SN +EGLS+ +Y S +GARKG
Sbjct: 723 YMLINSGARGSMVQMRQLCGIRGLMIKPSGDILEIPIISNFKEGLSVVDYFNSTHGARKG 782
Query: 189 VVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISV-NTRNRMMSERI--LIQTLI 245
V+DT+++T+ +GYLTR+L + + + DCGT +GI N + + +I + ++
Sbjct: 783 VIDTSLKTAASGYLTRKLFYAAKDLFITEIDCGTRKGIIFGNLKYQRDGYKIDSFYKNIV 842
Query: 246 GRVLADDI---YIGSRCIVVRNQDIGIGLI-NRFINFQTQPIFIRTPFTCRNTSWICRLC 301
GR+L +I Y G I+V+ I L+ N I F + + R+P TC + ICR C
Sbjct: 843 GRILVRNIKNPYTGE--ILVKKGLIVTNLVLNLIIKFGIEFVVTRSPMTCETRNGICRKC 900
Query: 302 YGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG-VFTGGTAEYVRSPSNGKI 360
YG + +V L E++GIIA QSIGEPGTQLT+RTFH GG V G + S N ++
Sbjct: 901 YGSIGNNNEIVSLEESIGIIAAQSIGEPGTQLTMRTFHQGGTVLRGANENRLYSSYNARV 960
Query: 361 KFNENSAYP-----TRTRHGHPAFLCYIDLYVTIESNDIMHNVIIPPKSFLLVQNDQYVK 415
T+ + + DL + ++ + IP + L V + +
Sbjct: 961 LIYNRKVVKGINSITKINIHRNSKILLFDL-----NYSLLISYKIPYGATLYVDDGSIIS 1015
Query: 416 SEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIY-HVSEFAYSNVHILPKTSHL 474
++ + +YT+ + + ++F + + S + +S SN ++
Sbjct: 1016 KGTLLFDY--NSYTIPILSNYKGNVFFQEKNQKISSVKVRDSMSGIVKSNFNLGINNFKR 1073
Query: 475 WILSGNSHKSDTVSLS 490
W L NS K + +++S
Sbjct: 1074 WFLVNNSLKIENINMS 1089
Score = 67.1 bits (161), Expect = 1e-09
Identities = 47/164 (28%), Positives = 81/164 (48%), Gaps = 21/164 (12%)
Query: 1165 IGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVL-----VSEDGMSNV 1219
I ++ S L+ +IQ Y GV I+ +HIE+I+ Q+ K+ + +D N
Sbjct: 1211 IAEKIEFESSFYHLLEQIQSTYFENGVTINQKHIEVIISQMFFKITCMDLYLDKDHFINE 1270
Query: 1220 FSPGELIGLLRAQ-RTGRALEESICYRTLLL---------------GITKTSLNTQSFIS 1263
E+ + + + R ++ C++++ L GI++ + SF+S
Sbjct: 1271 TKTSEIKEKINIKYKPTRFNKDFFCHQSIRLLVMGLLPIKGKISLGGISQIGVLGGSFLS 1330
Query: 1264 EASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
ASFQ+T++VL +AAL D L G + NL G ++P+GTG K
Sbjct: 1331 SASFQKTSKVLTEAALWKGFDPLIGAQPNLFFGSLMPIGTGLMK 1374
>sp|P75271|RPOC_MYCPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||S73653 DNA-directed RNA polymerase beta' chain - Mycoplasma pneumoniae
(strain ATCC 29342)
gb|AAB95975.1| (AE000030) DNA-directed RNA polymerase beta' chain [Mycoplasma
pneumoniae]
Length = 1290
Score = 203 bits (511), Expect = 1e-50
Identities = 127/353 (35%), Positives = 198/353 (55%), Gaps = 33/353 (9%)
Query: 20 KRIISRLIDHFGMAYT-------SHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLV 72
K++IS+LID + YT IL+ +K LGF+ +T +S ++ + D+ +K
Sbjct: 693 KKVISKLID---LLYTVVEFKDLPRILENIKALGFKYSTHSSTTVSVFDIPKYSNKQQYF 749
Query: 73 QDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD-PFNPVHIM 131
+A+QQ L ++ ++ G + E+ ++ +++W E + E+ + N + +M
Sbjct: 750 DEADQQVLKYKQFYNKGLLTDDERYKRVVKLWNGVKEKVSSEIQDLIKREEYRDNSIVVM 809
Query: 132 SFSGARGNASQVHQLVGMRGLMS-------DPQGQM----IDLPIQSNLREGLSLTEYII 180
+ SGARGN S QL GMRGLMS + Q ++ I++PI+ + EGL++ EY
Sbjct: 810 ADSGARGNISNFTQLFGMRGLMSKSFNYERNNQSKIIKDTIEVPIKHSFLEGLTINEYFN 869
Query: 181 SCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGI----SVNTRNRMMS 236
S YGARKG+ DTA++T+ +GY+TR+LV+ +++ DCGT +GI V T+ R +
Sbjct: 870 SSYGARKGMTDTAMKTAKSGYMTRKLVDATHELIINHDDCGTRKGIVVEAIVETKTRSLV 929
Query: 237 E----RILIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCR 292
E RI+ + IG +L + IV N I L + + + +R+ C
Sbjct: 930 ESLFDRIVNRYTIGPILDPET---KAEIVPANSLITQELAKQICATSIKQVLVRSVIYCE 986
Query: 293 NTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT 345
+ +C+ C+G G LVELG AVG+IA QSIGEPGTQLT+RTFHTGGV T
Sbjct: 987 RENGVCQYCFGVDLSTGKLVELGTAVGVIAAQSIGEPGTQLTMRTFHTGGVST 1039
Score = 101 bits (249), Expect = 6e-20
Identities = 54/139 (38%), Positives = 91/139 (64%), Gaps = 5/139 (3%)
Query: 1171 IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLR 1230
I + R ++ +IQ+VYR QG+ I ++++EII+RQ+TS + V++ G SN+F G+L+
Sbjct: 1135 IQRVRQYMIVEIQKVYRIQGIEIADKYVEIIIRQLTSLLQVTDAGSSNLFV-GQLVHSHH 1193
Query: 1231 AQRTGRALEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWL 1286
++L S + + GI + + + SF+S ASFQ+T ++L AA++ ++D+L
Sbjct: 1194 LNELNKSLLLSGKMPVIAINQVFGIDEAASKSNSFLSAASFQDTKKILTDAAVKTQVDYL 1253
Query: 1287 KGLKENLVLGGIIPVGTGF 1305
GLKEN+++GG IP GTGF
Sbjct: 1254 LGLKENVIIGGKIPAGTGF 1272
>gi|12045199 DNA-directed RNA polymerase, subunit beta' (rpoC) [Mycoplasma
genitalium]
sp|P47582|RPOC_MYCGE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||F64237 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Mycoplasma
genitalium
gb|AAC71565.1| (U39715) DNA-directed RNA polymerase, subunit beta' (rpoC)
[Mycoplasma genitalium]
Length = 1292
Score = 198 bits (497), Expect = 5e-49
Identities = 124/349 (35%), Positives = 193/349 (54%), Gaps = 25/349 (7%)
Query: 20 KRIISRLIDHFGMAYT----SHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
K++IS+LID + LD +K LGF+ +T +S ++ + D+ +K A
Sbjct: 695 KKVISKLIDLLYLLLEFKDLPKTLDNIKALGFKYSTFSSTTVSVFDIPKYTNKQNYFDSA 754
Query: 76 EQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF--NPVHIMSF 133
+QQ L ++ ++ G + E+ ++ +++W E + E+ N + + N + +M+
Sbjct: 755 DQQVLKYKQFYNKGLLTDDERYKRVVKLWNNVKEKVSDEIQ-NLIKQEQYRDNSIVVMAD 813
Query: 134 SGARGNASQVHQLVGMRGLMS-------DPQGQMI----DLPIQSNLREGLSLTEYIISC 182
SGARGN S QL GMRGLMS + Q ++I ++PI+ + EGL++ EY S
Sbjct: 814 SGARGNISNFTQLFGMRGLMSKSFNYERNNQSKIIKDTIEVPIKHSFFEGLTINEYFNSS 873
Query: 183 YGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVN----TRNRMMSER 238
YGARKG+ DTA++T+ +GY+TR+LV+ +++ DCGT +GI V T+ + + E
Sbjct: 874 YGARKGMTDTAMKTAKSGYMTRKLVDATHELIINHDDCGTRKGIVVEAIVETKTKSLIES 933
Query: 239 ILIQTLIGRVLADDIYIGS--RCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSW 296
L ++ R I + IV N I L + + + +R+ C +
Sbjct: 934 -LFDRIVNRYSITPIVDPETQKTIVEANSLITTQLAKQICATSIKEVLVRSVIYCERENG 992
Query: 297 ICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT 345
IC+ C+G G LVELG AVG+IA QSIGEPGTQLT+RTFHTGGV T
Sbjct: 993 ICQYCFGIDLSTGKLVELGTAVGVIAAQSIGEPGTQLTMRTFHTGGVST 1041
Score = 99.5 bits (244), Expect = 2e-19
Identities = 52/139 (37%), Positives = 91/139 (65%), Gaps = 5/139 (3%)
Query: 1171 IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLR 1230
I + R ++ +IQ+VYR QG+ I ++++EII+RQ+T+ + V++ G SN+F G+L+
Sbjct: 1137 IQRVRQYMIVEIQKVYRIQGIDIADKYVEIIIRQLTNLLQVTDAGNSNLFV-GQLVHSHY 1195
Query: 1231 AQRTGRAL----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWL 1286
++L + + + GI + + + SF+S ASFQ+T ++L AA++ ++D+L
Sbjct: 1196 LNELNKSLLLAGKMPVIAINQVFGIDEAASKSNSFLSAASFQDTKKILTDAAVKNQVDYL 1255
Query: 1287 KGLKENLVLGGIIPVGTGF 1305
GLKEN+++GG IP GTGF
Sbjct: 1256 LGLKENVIIGGKIPAGTGF 1274
>pir||D82923 DNA-directed RNA polymerase beta' chain UU188 [imported] - Ureaplasma
urealyticum
gb|AAF30595.1|AE002118_5 (AE002118) DNA-directed RNA polymerase beta' chain [Ureaplasma
urealyticum]
Length = 1305
Score = 191 bits (481), Expect = 4e-47
Identities = 115/345 (33%), Positives = 190/345 (54%), Gaps = 22/345 (6%)
Query: 20 KRIISRLIDHF----GMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
K+ +S +ID+ + +D++K LGF+ + ++ S+ D+ + K ++
Sbjct: 706 KKTLSTVIDYLYKVSEIEVVPQTMDKIKALGFKYSMISATSISAFDIPSYDQKYEYFKET 765
Query: 76 EQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTD-PFNPVHIMSFS 134
++ L + + G + E+ + ++ W T + + ++ + + NP+ IM+ S
Sbjct: 766 DELVSKLREFYLDGKLTDDERYTKVVQAWSQTKDKVTHDIEKLINSNEYKDNPIVIMAKS 825
Query: 135 GARGNASQVHQLVGMRGLMSDPQG-----------QMIDLPIQSNLREGLSLTEYIISCY 183
GARGN S QL GMRGLMS I++PI+ + EGLS++EY S +
Sbjct: 826 GARGNTSNFTQLAGMRGLMSKSYNYDQKNNNGVIKDTIEIPIKHSFIEGLSVSEYFNSSF 885
Query: 184 GARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISV----NTRNRMMSERI 239
GARKG+ DTA++T+ +GY+TR+LV+ Q +V++ DCGT GI V NT++ E
Sbjct: 886 GARKGMTDTAMKTAKSGYMTRKLVDSTQAVVIKDHDCGTKEGIIVREIRNTKDNTSIES- 944
Query: 240 LIQTLIGRVLADDIY-IGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTPFTCRNTSWIC 298
L ++GR + IY ++ I+ ++ I + N N + + +R+P C + +C
Sbjct: 945 LKDRIVGRYSINTIYDTKNKLIIESDKLITSEIANIIQNSGIREVEVRSPLHCASLYGVC 1004
Query: 299 RLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ C+G L+E G A+G+IA QSIGEPGTQLT+RTFHTGGV
Sbjct: 1005 QKCFGLDLSTNKLIETGTAIGVIAAQSIGEPGTQLTMRTFHTGGV 1049
Score = 92.1 bits (225), Expect = 4e-17
Identities = 49/142 (34%), Positives = 83/142 (57%), Gaps = 5/142 (3%)
Query: 1171 IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLR 1230
I R ++ ++Q+VYR QG+ I +++IE+I+ Q+T+K+ ++ G S +F GE I +
Sbjct: 1150 IENVRHYIIKEVQKVYRMQGIEISDKYIEVIISQLTNKITITNPGDSGLFV-GETISINE 1208
Query: 1231 AQRTGRAL----EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWL 1286
+ + ++ + G+ + SF+S ASFQ+T ++L AA R + D L
Sbjct: 1209 FTEVAQNMLVNKKKPPSAINQVFGLDHAPSKSGSFLSAASFQDTKKILTDAAARSQKDML 1268
Query: 1287 KGLKENLVLGGIIPVGTGFKKI 1308
GLKEN++LG +IP GTG K +
Sbjct: 1269 IGLKENVILGNLIPAGTGLKDV 1290
>gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus subtilis]
Length = 933
Score = 186 bits (467), Expect = 2e-45
Identities = 92/221 (41%), Positives = 147/221 (65%), Gaps = 8/221 (3%)
Query: 6 NLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTI 65
N F ++G +II+ + F + TS +LD++K LGF+ +T I++G+ D++ +
Sbjct: 612 NAPFKKGILG-----KIIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVL 666
Query: 66 PSKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF 125
K ++++A+ + + K G + E+ + I IW A + ++ ++ + D
Sbjct: 667 DDKQEILEEAQSKVDNVMKQFRRGLITEEERYERVISIWSAAKDVIQGKLMKSL---DEL 723
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGA 185
NP+++MS SGARGNAS QL GMRGLM++P G++I+LPI+S+ REGL++ EY IS +GA
Sbjct: 724 NPIYMMSDSGARGNASNFTQLAGMRGLMANPAGRIIELPIKSSFREGLTVLEYFISTHGA 783
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGI 226
RKG+ DTA++T+D+GYLTRRLV+V Q +++R TDCGT RGI
Sbjct: 784 RKGLADTALKTADSGYLTRRLVDVAQDVIIRETDCGTDRGI 824
>prf||1413285A rpoC gene [Spinacia oleracea]
Length = 245
Score = 171 bits (429), Expect = 5e-41
Identities = 99/244 (40%), Positives = 144/244 (58%), Gaps = 2/244 (0%)
Query: 1063 LKSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQG 1122
L S Q+I + +F R P+ + + + +L + + ++ DI QG
Sbjct: 3 LHSSQIIQERKEFSIFRKVMPFSTNDDTLMRIEDKPFIRKNQLLYRVNFVREKTYDIVQG 62
Query: 1123 LPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKI 1182
LPKVE++LE R S+ + D E L + L+ A + + L++ +
Sbjct: 63 LPKVEKLLEARMTSSLKEIINNPHDILTESFFTFLD-DYENLVRARKSFEVIQKYLIDGV 121
Query: 1183 QRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESI 1242
Q VY+SQGV I ++HIE+IV+QITSKV+V+ G S+ F G+ + L + + L SI
Sbjct: 122 QTVYKSQGVKIADKHIELIVKQITSKVIVTNPGDSS-FMVGDFLDLNLVEVLNKRLVNSI 180
Query: 1243 CYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVG 1302
Y +++G+T+ SL++QSFI++ASFQET RVL KAAL+GR DWL GLKENLVLG IIP G
Sbjct: 181 VYEPIIMGLTRFSLSSQSFIAQASFQETTRVLTKAALQGRADWLSGLKENLVLGNIIPAG 240
Query: 1303 TGFK 1306
TGFK
Sbjct: 241 TGFK 244
>gb|AAC45308.1| (U81957) RNA polymerase beta' subunit [Streptococcus gordonii]
Length = 465
Score = 168 bits (421), Expect = 4e-40
Identities = 91/195 (46%), Positives = 125/195 (63%), Gaps = 5/195 (2%)
Query: 153 MSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQH 212
M+ P G++++LPI SN REGLS+ E S +GARKG+ DTA++T+D+GYLTRRLV+V Q
Sbjct: 1 MAAPNGRIMELPILSNFREGLSVLEMFFSTHGARKGMTDTALKTADSGYLTRRLVDVAQD 60
Query: 213 IVVRRTDCGTVRGISVN--TRNRMMSERILIQTLIGRVLADDIYIGSRCIVVRNQDIGI- 269
+++R DCGT RG+ + T + M E L + L+GR I V+ D+ +
Sbjct: 61 VIIREDDCGTDRGLLITSITDGKEMIEP-LEERLVGRYTKKSIKHPETGEVLVPADVLVT 119
Query: 270 -GLINRFINFQTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGE 328
+ + +N + IR+ TC +CR CYG + G+ VE+GEAVG IA QSIGE
Sbjct: 120 EDMARQVVNAGVTEVTIRSVLTCNTRHGVCRHCYGINLATGDAVEVGEAVGTIAAQSIGE 179
Query: 329 PGTQLTLRTFHTGGV 343
PGTQLT+RTFHTGGV
Sbjct: 180 PGTQLTMRTFHTGGV 194
Score = 116 bits (287), Expect = 2e-24
Identities = 82/236 (34%), Positives = 121/236 (50%), Gaps = 45/236 (19%)
Query: 1116 SGDITQGLPKVEQVLEVRS----------------IDSISMNLEKRIDAWNERITGILGI 1159
S DITQGLP+V+++ E R+ I+ + K++ + G +
Sbjct: 197 SSDITQGLPRVQEIFEARNPKGEAVITEVKGEVTAIEEDASTRTKKVFVKGQTGEGEYVV 256
Query: 1160 PWRFLI----------GAELT--------------IAQSRISLVNKIQRVYRSQGVHIHN 1195
P+ + GA LT + L+ ++Q+VYRSQGV I +
Sbjct: 257 PFTARMKVEVGDQVSRGAALTEGSIQPKHLLAVRDVLSVETYLLAEVQKVYRSQGVEIGD 316
Query: 1196 RHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEES----ICYRTLLLGI 1251
+HIE++VRQ+ KV V + G +++ G L+ + R + S R +L+GI
Sbjct: 317 KHIEVMVRQMIRKVRVMDPGDTDLLM-GTLMDITDFTDANRDVVISGGVPATARPVLMGI 375
Query: 1252 TKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
TK SL T SF+S ASFQET RVL AA+RG+ D L GLKEN+++G IIP GTG +
Sbjct: 376 TKASLETNSFLSAASFQETTRVLTDAAIRGKKDHLLGLKENVIIGKIIPAGTGMAR 431
>gb|AAA84228.1| (M22010) RNA polymerase subunit [Euglena gracilis]
Length = 246
Score = 165 bits (414), Expect = 3e-39
Identities = 98/245 (40%), Positives = 143/245 (58%), Gaps = 3/245 (1%)
Query: 1063 LKSGQVITVQM-DFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQ 1121
L S Q+I + +F R P+ + + + +L + + ++ DI Q
Sbjct: 3 LHSSQIIIQERKEFSIFRKVMPFSTNDDTLMRIEDKPFIRKNQLLYRVNFVREKTYDIVQ 62
Query: 1122 GLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNK 1181
GLPKVE++LE R S+ + D E L + + A + + L++
Sbjct: 63 GLPKVEKLLEARMTSSLKEIINNPHDILTESFFTFLD-DYENRVAARKSFEVIQKYLIDG 121
Query: 1182 IQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEES 1241
+Q VY+SQGV I ++HIE+IV+QITSKV+V+ G S+ F G+ + L + + L S
Sbjct: 122 VQTVYKSQGVKIADKHIELIVKQITSKVIVTNPGDSS-FMVGDFLDLNLVEVLNKRLVNS 180
Query: 1242 ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPV 1301
I Y +++G+T+ SL++QSFI++ASFQET RVL KAAL+GR DWL GLKENLVLG IIP
Sbjct: 181 IVYEPIIMGLTRFSLSSQSFIAQASFQETTRVLTKAALQGRADWLSGLKENLVLGNIIPA 240
Query: 1302 GTGFK 1306
GTGFK
Sbjct: 241 GTGFK 245
>sp|P36252|RPOC_THEMA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||S41467 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Thermotoga
maritima (strain MSB8)
emb|CAA51247.1| (X72695) RNA polymerase, beta' subunit (prime) [Thermotoga maritima]
gb|AAD35544.1|AE001724_2 (AE001724) DNA-directed RNA polymerase, beta' subunit [Thermotoga
maritima]
Length = 1690
Score = 159 bits (399), Expect = 2e-37
Identities = 94/282 (33%), Positives = 152/282 (53%), Gaps = 27/282 (9%)
Query: 10 HNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKG 69
+N++ I ++ G+ + +LD +K +GF AT + ++L + DL P +
Sbjct: 879 YNRIFDKKQINALVYETFKRHGIDRAADLLDDIKDIGFHYATVSGLTLSLKDLKIPPERD 938
Query: 70 WLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVH 129
+++ ++ I+E+++ G + ++ + I +W + +E + + + + DPFNP++
Sbjct: 939 EILRKTWEKVRIIEENYEKGFLTEEQRKSEIIRLWMSVTEEITKLTSKTLA-EDPFNPIY 997
Query: 130 IMSFSGARGNASQVHQLVGMRGLMS---DPQGQMI----------------DLPIQSNLR 170
+M SGARGN QV QL G+RGLM DP+ + I D P+ NLR
Sbjct: 998 MMVNSGARGNIDQVKQLAGIRGLMIKAYDPRSREIKSKIFKGQAIHEALTFDYPVDKNLR 1057
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT 230
EG+ + ++ IS YGARKG VDTA+ TS AGYLTRRLV+V Q + V DCGT GI
Sbjct: 1058 EGVDILQFFISTYGARKGQVDTAMNTSFAGYLTRRLVDVAQSVTVAEPDCGTHEGIRAMD 1117
Query: 231 RNRMMSERILIQT----LIGRVLADDIYIGSRCIVVRNQDIG 268
++ E +++ L GRVLA D+ V++N + G
Sbjct: 1118 ---LIKEGTVVEKMNEFLFGRVLARDVLDPETKEVLKNPETG 1156
Score = 83.9 bits (204), Expect = 1e-14
Identities = 46/125 (36%), Positives = 62/125 (48%), Gaps = 7/125 (5%)
Query: 283 IFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
I +R+P TC + +C CYG + +V +GEAVG++A QSIGEPGTQLT+RTFH GG
Sbjct: 1287 IIVRSPLTCESEYGVCAACYGMDLSNHKIVNVGEAVGVVAAQSIGEPGTQLTMRTFHVGG 1346
Query: 343 VFTGG-------TAEYVRSPSNGKIKFNENSAYPTRTRHGHPAFLCYIDLYVTIESNDIM 395
V T E P + R +G A LC +D +V + D
Sbjct: 1347 VMGASDIVSGLTTVEKTFEPYAFLREEKSGGKKEIRKYYGSEAILCEVDGFVKDIATDES 1406
Query: 396 HNVII 400
+I
Sbjct: 1407 GRTVI 1411
Score = 66.7 bits (160), Expect = 2e-09
Identities = 32/66 (48%), Positives = 47/66 (70%)
Query: 1239 EESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGI 1298
+E I Y+ LL + K +LN ++S A+F+ETA VL AA+ G++D L GLKEN+++G +
Sbjct: 1603 KEPIKYKRRLLSLKKAALNYPGWLSAAAFEETAWVLTAAAIEGKVDPLIGLKENVIVGQL 1662
Query: 1299 IPVGTG 1304
IP GTG
Sbjct: 1663 IPAGTG 1668
Score = 43.0 bits (99), Expect = 0.024
Identities = 26/90 (28%), Positives = 47/90 (51%), Gaps = 1/90 (1%)
Query: 1151 ERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVL 1210
E +T + W+ L + ++L+ I+ Y QGV IH++H EII +Q+ S
Sbjct: 1443 ETLTSGAIVWWKLLELESEKGVMTAMNLLKIIKNAYVQQGVSIHDKHFEIIFKQMLSMAT 1502
Query: 1211 VSEDGMSNVFSPGELIGLLRAQRTGRALEE 1240
+ + G S+ + P +L+ L+ +R R + E
Sbjct: 1503 IVDPGDSD-YLPDQLVPLVDIKRFNREILE 1531
>emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconostoc carnosum]
Length = 772
Score = 159 bits (398), Expect = 2e-37
Identities = 78/207 (37%), Positives = 134/207 (64%), Gaps = 3/207 (1%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
+I+ + + + TS +LD++K LG+ ++T + +++ ++D+ + K +++DA +Q
Sbjct: 557 VIAEVYKRYKVTETSLLLDRMKDLGYDKSTESGLTVSMNDVTELTEKPAILEDAHKQVAT 616
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNAS 141
+ K G + E+ ++ EIW + ++ ++ +F +P NP+ +M SGARGN S
Sbjct: 617 VTKQFRRGLITDTERYQRVTEIWTKAKDIIQDKLIESF---EPTNPIFMMQDSGARGNIS 673
Query: 142 QVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGY 201
QL GMRGLM+ P G++I+LP+ +N REGL++ E IS +GARKG+ DTA++T+++GY
Sbjct: 674 NFVQLAGMRGLMAGPGGKIIELPVTANFREGLTVMEMFISTHGARKGMSDTALKTANSGY 733
Query: 202 LTRRLVEVVQHIVVRRTDCGTVRGISV 228
LTRRLV+V Q ++VR D RG+ V
Sbjct: 734 LTRRLVDVAQDVIVREWDNDADRGVPV 760
>prf||1211235N ORF 90 [Nicotiana tabacum]
Length = 90
Score = 153 bits (384), Expect = 9e-36
Identities = 71/89 (79%), Positives = 78/89 (86%)
Query: 228 VNTRNRMMSERILIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRT 287
V+ RN MM ERI IQTLIGRVLADDIY+G RCI RNQDIGIGL+NRFI F+ QPI IRT
Sbjct: 1 VSPRNGMMPERIFIQTLIGRVLADDIYMGPRCIATRNQDIGIGLVNRFITFRAQPISIRT 60
Query: 288 PFTCRNTSWICRLCYGRSPIHGNLVELGE 316
PFTCR+TSWICRLCYGRSP HG+LVELG+
Sbjct: 61 PFTCRSTSWICRLCYGRSPTHGDLVELGK 89
>pir||A05186 hypothetical protein 90 - common tobacco chloroplast
Length = 90
Score = 152 bits (381), Expect = 2e-35
Identities = 70/89 (78%), Positives = 78/89 (86%)
Query: 228 VNTRNRMMSERILIQTLIGRVLADDIYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRT 287
++ RN MM ERI IQTLIGRVLADDIY+G RCI RNQDIGIGL+NRFI F+ QPI IRT
Sbjct: 1 MSPRNGMMPERIFIQTLIGRVLADDIYMGPRCIATRNQDIGIGLVNRFITFRAQPISIRT 60
Query: 288 PFTCRNTSWICRLCYGRSPIHGNLVELGE 316
PFTCR+TSWICRLCYGRSP HG+LVELG+
Sbjct: 61 PFTCRSTSWICRLCYGRSPTHGDLVELGK 89
>gb|AAA24408.1| (M38288) RNA polymerase beta subunit (rpoC) (EC 2.7.7.6) [Escherichia
coli]
Length = 421
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 247 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 305
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 306 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 365
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 366 IVGRLIPAGTGYAYHQDRMRRR 387
>pir||A00696 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain (version 2) -
Escherichia coli (fragment)
Length = 335
Score = 120 bits (299), Expect = 9e-26
Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 5/142 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
+VN++Q VYR QGV I+++HIE+IVRQ+ K + G S+ F GE + R + R
Sbjct: 161 IVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSD-FLEGEQVEYSRVKIANRE 219
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
LE + Y LLGITK SL T+SFIS ASFQET RVL +AA+ G+ D L+GLKEN+
Sbjct: 220 LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV 279
Query: 1294 VLGGIIPVGTGFKKIGDRSSAR 1315
++G +IP GTG+ DR R
Sbjct: 280 IVGRLIPAGTGYAYHQDRMRRR 301
>pir||S72284 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - Plasmodium
falciparum plastid
emb|CAA64574.1| (X95275) frameshift [Plasmodium falciparum]
Length = 960
Score = 119 bits (296), Expect = 2e-25
Identities = 95/381 (24%), Positives = 183/381 (47%), Gaps = 49/381 (12%)
Query: 118 NFSMTDPFNPVHIMSF----SGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGL 173
N ++ + NP++ F + + SQ+ QL+G +G +S+ +G + + P+ +N L
Sbjct: 105 NNNLYNKINPIYSNLFLFFNNKIKIKYSQLQQLIGYKGYISNIKGMIYEKPVINNYINEL 164
Query: 174 SLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNR 233
++ EYI+SCYG++KG++DTA++T+D+GYLT+RL+ + + +++ +C + +
Sbjct: 165 NIYEYILSCYGSKKGIIDTALKTADSGYLTKRLINITSNFIIKELNCKSPFILKYILNMD 224
Query: 234 MMSERIL-IQTLIGRVLADDI--YIGSRCIVVRNQDIGIGLINRFINFQTQP---IFIRT 287
+ IL + L ++L ++I I +N I ++N+ +N + + I++
Sbjct: 225 IYGNIILPLNILRFKILQNNILNLNNGTFIYTKNTYITKYILNKLLNLYNRRNIYLNIKS 284
Query: 288 PFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGG 347
+ C + IC C ++ LG+ +G+I+ ++I EP TQ+ LRTFH +
Sbjct: 285 VYLCNIYNNICNTCLNYKQLY--KYNLGQHIGVISSEAISEPSTQMVLRTFHASSIL--- 339
Query: 348 TAEYVRSPSNGKIKFNENSAYP--TRTRHGHPAFLCYIDL--YVTIESNDI--MHNVIIP 401
K FN+ Y + + F I+ Y+ I+ N I M+ ++
Sbjct: 340 ---------KDKFNFNKYLIYKIYLYKLNINKIFKLIINFKKYINIKFNLIFLMNKILYN 390
Query: 402 PKSFLL----VQNDQYVKSEQIIAEIRAGTYTLNLKEKVRKHIFSDSEGEMHWSTNIYHV 457
+ L + +QY+K I I + + NL + K++ N+ +
Sbjct: 391 YNNILFEYKYILQNQYIKCNFIYNSI-SKNFKYNLNNIIIKYL-----------NNV--I 436
Query: 458 SEFAYSNVHILPKTSH-LWIL 477
+ YSN+ +L K H WIL
Sbjct: 437 KYYNYSNIQLLIKNIHNKWIL 457
Score = 64.8 bits (155), Expect = 7e-09
Identities = 34/132 (25%), Positives = 70/132 (52%), Gaps = 5/132 (3%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
L+ I + Y Q +++ + + E+I++++ S + + + +F ++I L +
Sbjct: 824 LIESILKQYSYQNIYLPSIYFELIIKKMLSCIKIISNNFK-IFKYNDIISLQLINIINYS 882
Query: 1238 LEES----ICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENL 1293
L + Y ++LGITK+ L F++ SFQ T ++++ L +IDWL +K +
Sbjct: 883 LNLNKHYIYKYEPIILGITKSILANSGFLTNISFQNTFKIISLNILNNKIDWLIDIKSKI 942
Query: 1294 VLGGIIPVGTGF 1305
+L ++PVG G+
Sbjct: 943 ILTDLLPVGNGW 954
>sp|P13440|ARGE_LEPBI POSSIBLE ACETYLORNITHINE DEACETYLASE (ACETYLORNITHINASE)
pir||A31840 RNA polymerase beta chain homolog - Leptospira biflexa (serotype
patoc)
gb|AAA25260.1| (M22622) acetylornithine deacetylase (EC 5.1.1.16) [Leptospira
biflexa]
Length = 277
Score = 118 bits (294), Expect = 3e-25
Identities = 62/136 (45%), Positives = 94/136 (68%), Gaps = 3/136 (2%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
LV+++Q VYR QGVHI+++HIE++VR + KV++++ G ++ + ++ L + R
Sbjct: 94 LVSEVQEVYRLQGVHINDKHIEVVVRSMLRKVIITDSGDTSFVNQQQVDKFLFDEENDRV 153
Query: 1238 LEE--SICYRT-LLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
+E S T +LLG+TK SLNT+S+ S ASFQET +VL AA++G+ D L GLKEN++
Sbjct: 154 EKEGGSPAQGTPVLLGLTKASLNTESYFSAASFQETTKVLTDAAIKGKTDNLMGLKENVI 213
Query: 1295 LGGIIPVGTGFKKIGD 1310
+G +IP GTG KK D
Sbjct: 214 IGHMIPAGTGMKKYRD 229
>emb|CAB81846.1| (AL161691) DNA-directed RNA polymerase beta' chain (fragment)
[Streptomyces coelicolor A3(2)]
Length = 279
Score = 115 bits (286), Expect = 3e-24
Identities = 61/137 (44%), Positives = 91/137 (65%), Gaps = 5/137 (3%)
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRT 1234
++ LV ++Q+VY SQGV IH++HIEII+RQ+ +V + E G + + PGEL+ + +
Sbjct: 94 QVHLVGEVQKVYNSQGVSIHDKHIEIIIRQMLRRVTIIESGDAELL-PGELVERTKFETE 152
Query: 1235 GRALEESICY----RTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLK 1290
R + + + R L+GITK SL T+S++S ASFQET RVL AA+ + D L GLK
Sbjct: 153 NRRVVQEGGHPASGRPQLMGITKASLATESWLSAASFQETTRVLTDAAINAKSDSLIGLK 212
Query: 1291 ENLVLGGIIPVGTGFKK 1307
EN+++G +IP GTG +
Sbjct: 213 ENVIIGKLIPAGTGLSR 229
>pir||JE0011 DNA-directed RNA polymerase beta' chain-like protein - Chlorella
ellipsoidea chloroplast (fragment)
gb|AAA84107.1| (M20655) pot. RNA polymerase beta' subunit; putative [Chlorella
ellipsoidea]
Length = 240
Score = 115 bits (285), Expect = 4e-24
Identities = 69/238 (28%), Positives = 132/238 (54%), Gaps = 12/238 (5%)
Query: 1068 VITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVE 1127
++ + + +R A P+L + +H ++L + IL+T ++ ++ DI QG+PK+E
Sbjct: 1 ILDITATQITVRKALPFLGSRRGLVHVAQNDLLQKNHILMTLRSKQLQTEDIVQGIPKIE 60
Query: 1128 QVLEVRSI---DSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQR 1184
Q+ E R + I N+ R++++ + FL +L++ + LV +
Sbjct: 61 QLFEARETKDGEIIRYNMHFRLNSFFSLAKRVKP----FLEAFDLSLLYIQRFLVKTLLE 116
Query: 1185 VYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRAL----EE 1240
Y +QGV+I +H+E++VRQ+T++V ++ G PGE I L + R+L +E
Sbjct: 117 AYSNQGVNIAEKHVEVVVRQMTARVRITF-GKDTSLLPGEFIQLRLLEEINRSLVEAKKE 175
Query: 1241 SICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGI 1298
Y ++LG+TK+ L ++SF+ ASFQ+ ++VL ++AL + D+L+GL + L + +
Sbjct: 176 PALYEPVILGLTKSVLQSESFLLAASFQQVSKVLVRSALATKTDFLRGLMKPLYVASL 233
>gb|AAB35479.1| RNA polymerase beta' subunit {Ser 793 to Phe replacement}
[Escherichia coli, CAG 14064, Peptide Partial Mutant,
106 aa]
Length = 106
Score = 111 bits (275), Expect = 6e-23
Identities = 50/87 (57%), Positives = 71/87 (81%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMIDLPIQSNLREGLSLTEYIISCYG 184
FN +++M+ SGARG+A+Q+ QL GMRGLM+ P G +I+ PI +N REGL++ +Y IS +G
Sbjct: 20 FNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQYFISTHG 79
Query: 185 ARKGVVDTAVRTSDAGYLTRRLVEVVQ 211
ARKG+ DTA++T++ GYLTRRLV+V Q
Sbjct: 80 ARKGLADTALKTANFGYLTRRLVDVAQ 106
>gb|AAD00824.1| (U96106) RPOC homolog [Helicobacter pylori]
Length = 296
Score = 99.1 bits (243), Expect = 3e-19
Identities = 85/269 (31%), Positives = 133/269 (48%), Gaps = 46/269 (17%)
Query: 1084 YLATPGATIHGHYGEMLYEGDILVTFIYEKSRSGDITQGLPKVEQVLEVRS--------- 1134
Y P +I G + + ++L +S DIT GLP+V ++ E R
Sbjct: 14 YFLEPKTSIAISDGSSVEQAEVLAKIPKATVKSRDITGGLPRVSELFEARKPKPKDVAIL 73
Query: 1135 --IDSISM------NLE---------KRIDAWNERITGILGIPWRFLIGAELT---IAQS 1174
+D I N+E + +D + ++ IL F+ E + S
Sbjct: 74 SEVDGIVSFGKPIRNIEHIIVTSKDGRSMDYFVDKGKQILVHADEFVHAGEAMTDGVISS 133
Query: 1175 ----RIS--------LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSP 1222
RIS +V+++Q+VYR QGV I ++HIEIIV Q+ +V + + G S F
Sbjct: 134 HDILRISGEKELYKYIVSEVQQVYRRQGVSIADKHIEIIVSQMLRQVRILDSGDSK-FIE 192
Query: 1223 GELIGL-LRAQRTGRALE---ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAA 1278
G+L+ L + R + + +LLGIT+ ++ + S IS ASFQET +VL +A+
Sbjct: 193 GDLVSKKLFKEENARVIALKGKPAIAEPVLLGITRAAIGSDSIISAASFQETTKVLTEAS 252
Query: 1279 LRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
+ + D+L+ LKEN+VLG +IPVGTG K
Sbjct: 253 IAMKKDFLEDLKENVVLGRMIPVGTGMYK 281
>gb|AAA84489.1| (M31208) rpoC2 protein [Zea mays]
Length = 52
Score = 93.2 bits (228), Expect = 2e-17
Identities = 44/52 (84%), Positives = 47/52 (89%)
Query: 1 MAERANLVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATT 52
MAERANLVFHNK I GTA+KR+IS LIDHFGM YTSHILDQ+KTLGF QATT
Sbjct: 1 MAERANLVFHNKEIDGTAMKRLISSLIDHFGMGYTSHILDQIKTLGFHQATT 52
>pir||T08025 DNA-directed RNA polymerase beta' chain homolog - Chlamydomonas
reinhardtii chloroplast (fragment)
gb|AAB01997.1| (U57326) rpoC2 protein [Chlamydomonas reinhardtii]
Length = 2028
Score = 81.9 bits (199), Expect = 5e-14
Identities = 38/66 (57%), Positives = 52/66 (78%)
Query: 1240 ESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGII 1299
E I Y ++LGIT+ SL +SF+S ASFQ+T RVL++AAL + D+LKGLKEN+++G +I
Sbjct: 1957 EPIKYEPIVLGITRASLEVESFLSAASFQQTTRVLSQAALYKKKDFLKGLKENIIIGNLI 2016
Query: 1300 PVGTGF 1305
P GTGF
Sbjct: 2017 PAGTGF 2022
Score = 64.8 bits (155), Expect = 7e-09
Identities = 87/429 (20%), Positives = 183/429 (42%), Gaps = 82/429 (19%)
Query: 814 NWNEDEKSSSIEEALASFVEVSTNGLIRYFLRIDLVKSHISYIRKRNDPSSSGLISYNES 873
+WN K+SS+++ NG+I+ + + ++++Y K + + + N+
Sbjct: 1230 SWN---KNSSLQKTFGY-----QNGIIQAKSLLHTLPTNLNYNLKWINYKQKNIFTTNKV 1281
Query: 874 DRINI--NPFFS----IYKENIQQSLSQKHGTIRMLLNRNK------------ENRSFII 915
+ N FF+ ++ + I + + + TI NK EN F+
Sbjct: 1282 GFFFLKGNTFFNTSQKLFNKKITKQTTFLNATIYNFGRNNKNNLISYNNSNFLENTHFVD 1341
Query: 916 LSSSNCFQMGPFNNVKYHNGIKEEINQFKRNHKIPIKISLGPLGVAPQIANFFSFYHLIT 975
LS C ++ K + +K +++ K P K+ G + + + F +
Sbjct: 1342 LSL--CLELQKIYLNKNYLNLKPILDKTIHCQK-PTKVLFKKSGFSKKQHYYLEFLNTKN 1398
Query: 976 HNKISSIKK------------NLQLNKFKETFQVIKYYLMDENERI-YKPDLYNNII--- 1019
H ++ +K+ +++ F +++ +K MD I ++ LYN++I
Sbjct: 1399 HRRLIGLKEFNDYHMSYSKSQTKEMSNFIDSYYFVKPINMDCAHYIKHELVLYNDLITHF 1458
Query: 1020 ---------------LNPFHLNW--DFIHPNYCEKTFPIISLGQFICENVCIVQTKNGPN 1062
L+ F +N FI N + + I + ++ N+ I + + +
Sbjct: 1459 ASLNLYISREHGLKSLSAFFINILKIFITSNQSQISLAPIGIDKYT--NIYIPEGEGEKD 1516
Query: 1063 L---------KSGQVITVQMDFVGIRLANPYLATPGATIHGHYGEMLYEGDILVTFIYEK 1113
+ KSGQ+I + + + +RL P + +P +TIH +G+ + +VT Y++
Sbjct: 1517 MTKNVFQVIKKSGQLIQMNKEKMTLRLGQPLVISPRSTIHATHGDFIRYKTPVVTLTYQQ 1576
Query: 1114 SRSGDITQGLPKVEQVLEVRSIDSISMNLEKRIDAWNERITGIL-GIPWRFLIGAELTIA 1172
++GDI QG+PK+EQ+ E R+ KR + + +T +L G+ ++ I + +
Sbjct: 1577 LKTGDIVQGIPKIEQLFEART--------TKRGRLFRDNVTNLLTGLFLKYFIKSTYLLR 1628
Query: 1173 QSRISLVNK 1181
++ I K
Sbjct: 1629 KTMIGFSKK 1637
Score = 46.1 bits (107), Expect = 0.003
Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNV 1219
+V+ I RVYRSQGV I ++H+EI+V+Q+TSKV + S +
Sbjct: 1726 IVDGILRVYRSQGVSIADKHVEIVVKQMTSKVRIINSNASKM 1767
>dbj|BAA88026.1| (AB029691) RNA polymerase, beta-subunit [Abies mariesii]
Length = 99
Score = 80.8 bits (196), Expect = 1e-13
Identities = 40/45 (88%), Positives = 43/45 (94%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
SFISEASFQETARVLAKAAL+GRID LKGLKEN++LGGIIP GTG
Sbjct: 1 SFISEASFQETARVLAKAALQGRIDRLKGLKENVILGGIIPAGTG 45
>dbj|BAA88018.1| (AB029683) RNA polymerase, bata-subunit [Abies fabri]
dbj|BAA88019.1| (AB029684) RNA polymerase, beta-subunit [Abies fargesii]
dbj|BAA88020.1| (AB029685) RNA polymerase, beta-subunit [Abies firma]
dbj|BAA88021.1| (AB029686) RNA polymerase, beta-subunit [Abies fraseri]
dbj|BAA88022.1| (AB029687) RNA polymerase, beta-subunit [Abies holophylla]
dbj|BAA88023.1| (AB029688) RNA polymerase, beta-subunit [Abies homolepis]
dbj|BAA88024.1| (AB029689) RNA polymerase, beta-subunit [Abies koreana]
dbj|BAA88025.1| (AB029690) RNA polymerase, beta-subunit [Abies lasiocarpa]
dbj|BAA88027.1| (AB029692) RNA polymerase, beta-subunit [Abies nephrolepis]
dbj|BAA88028.1| (AB029693) RNA polymerase, beta-subunit [Abies sachalinensis]
dbj|BAA88029.1| (AB029694) RNA polymerase, beta-subunit [Abies sibirica]
dbj|BAA88030.1| (AB029695) RNA polymerase, beta-subunit [Abies veitchii]
Length = 99
Score = 80.8 bits (196), Expect = 1e-13
Identities = 40/45 (88%), Positives = 43/45 (94%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
SFISEASFQETARVLAKAAL+GRID LKGLKEN++LGGIIP GTG
Sbjct: 1 SFISEASFQETARVLAKAALQGRIDRLKGLKENVILGGIIPAGTG 45
>pir||T06754 DNA-directed RNA polymerase I 190K chain homolog F15B8.150 -
Arabidopsis thaliana
emb|CAB41189.1| (AL049660) DNA-directed RNA polymerase I 190K chain-like protein
[Arabidopsis thaliana]
Length = 1670
Score = 78.0 bits (189), Expect = 7e-13
Identities = 72/254 (28%), Positives = 114/254 (44%), Gaps = 44/254 (17%)
Query: 126 NPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP--------------I 165
N + +M+ SGA+G N Q+ +G + L +M+ LP I
Sbjct: 936 NCISLMTISGAKGSKVNFQQISSHLGQQDLEGKRVPRMVSGKTLPCFHPWDWSPRAGGFI 995
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR- 224
GL EY C R+G+VDTAV+TS +GYL R L++ ++ + V DC TVR
Sbjct: 996 SDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLMKNLESLKVNY-DC-TVRD 1053
Query: 225 -------------GISVNTRN--RMMSERILIQTLIGRVLADDIYIGSRCIVVRNQDIGI 269
G+ V+ + E + Q ++ + ++D+ G+ + D+ I
Sbjct: 1054 ADGSIIQFQYGEDGVDVHRSSFIEKFKELTINQDMVLQKCSEDMLSGASSYI---SDLPI 1110
Query: 270 GLINRFINF-QTQPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGE 328
L F + P+ R + +L +S +L + GE VG++A QS+GE
Sbjct: 1111 SLKKGAEKFVEAMPMNERIASKFVRQEELLKLV--KSKFFASLAQPGEPVGVLAAQSVGE 1168
Query: 329 PGTQLTLRTFHTGG 342
P TQ+TL TFH G
Sbjct: 1169 PSTQMTLNTFHLAG 1182
>gb|AAF08591.1|U35380_1 (U35380) similar to P. putida RNA-polymerase beta'-subunit, encoded
by GenBank Accession Number X16538 [Streptococcus
pyogenes]
Length = 61
Score = 75.7 bits (183), Expect = 3e-12
Identities = 35/59 (59%), Positives = 43/59 (72%)
Query: 281 QPIFIRTPFTCRNTSWICRLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFH 339
+ + IR+ FTC +CR CYG + G+ VE+GEAVG IA QSIGEPGTQLT+RTFH
Sbjct: 2 EEVTIRSVFTCATRHGVCRHCYGINLATGDAVEVGEAVGTIAAQSIGEPGTQLTMRTFH 60
>pir||D72571 probable DNA-directed RNA polymerase subunit A' APE1853 - Aeropyrum
pernix (strain K1)
dbj|BAA80857.1| (AP000062) 895aa long hypothetical DNA-directed RNA polymerase
subunit A' [Aeropyrum pernix]
Length = 895
Score = 72.6 bits (175), Expect = 3e-11
Identities = 63/252 (25%), Positives = 114/252 (45%), Gaps = 34/252 (13%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
V K IG ++ + +G + +LD + R +++ + D+ +P
Sbjct: 609 VLDKKAIGAEEPNNLLHIIALEYGNSKARQLLDSFYRMFIRMLELRGLTISLHDI-DLPD 667
Query: 68 KGW-----LVQDAEQQSLILEKHHHYGNVHAV--EKLRQSIEI--WYATSEYLRQEMNPN 118
+ L+++ + + + + + G + + L +S+EI E ++
Sbjct: 668 RAKQEIEELIREYKGRVYSIIEEYRKGTLEPIPGRSLEESLEIKIMEVLDELRKRVQEVA 727
Query: 119 FSMTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI---------------DL 163
+ DPFN V +M+ +GARG+ + Q+ M G + +G+ I D+
Sbjct: 728 SNNLDPFNDVFVMARTGARGSDVNISQMAAMLGQQA-VRGRRIRRGLRNRVLAHFKENDI 786
Query: 164 P------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRR 217
++S+ R+GL TE R+G+VDTAV+TS +GY+ RRL+ +Q IVV
Sbjct: 787 EPEAWGFVRSSFRKGLRPTEVFFHAAAGREGLVDTAVKTSQSGYMQRRLINALQDIVV-- 844
Query: 218 TDCGTVRGISVN 229
T GTVR + N
Sbjct: 845 TYDGTVRDLYGN 856
>sp|P11512|RPA1_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S04717 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Sulfolobus
acidocaldarius
emb|CAA32925.1| (X14818) RNA polymerase subunit A (AA 1-880) [Sulfolobus
acidocaldarius]
Length = 880
Score = 66.7 bits (160), Expect = 2e-09
Identities = 62/249 (24%), Positives = 113/249 (44%), Gaps = 34/249 (13%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
VF K IG + ++ I +G Y ++D V + R ++ ++D+ TIP
Sbjct: 597 VFDKKAIGNQQPESMLHWSIREYGTEYGKWLMDNVFKMFIRFLEMRGFTMTLEDI-TIPD 655
Query: 68 KGW-----LVQDAEQQSLILEKHHHYGNVHAV--EKLRQSIEIWYA-TSEYLRQEMNPNF 119
+ +++ Q + + G + + + +S+E + T + LR+
Sbjct: 656 EAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESYILDTLDKLRKVAGEIA 715
Query: 120 SM-TDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI---------------DL 163
+ DPFN V+IM+ +GARG+ + Q+ + G S +G+ I D+
Sbjct: 716 TKYLDPFNNVYIMAITGARGSELNITQMTALLGQQS-VRGERIRRGYRERTLSLFKYGDI 774
Query: 164 P------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRR 217
++++ GLS E G R+G+VDTAV+TS +GY+ RRL+ + + +
Sbjct: 775 APEARGFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTSQSGYMQRRLINALSDLRIEY 834
Query: 218 TDCGTVRGI 226
GTVR +
Sbjct: 835 D--GTVRSL 841
>sp|P35018|RPOD_CYACA DNA-DIRECTED RNA POLYMERASE BETA" CHAIN
pir||S39512 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain - red alga
(Cyanidium caldarium) chloroplast (fragment)
emb|CAA48017.1| (X67814) RNA polymerase beta'' [Galdieria sulphuraria]
Length = 85
Score = 66.0 bits (158), Expect = 3e-09
Identities = 29/42 (69%), Positives = 34/42 (80%)
Query: 1266 SFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
SFQET RVL KAA IDWLKGLKEN+++G +IP GTGFK+
Sbjct: 1 SFQETRRVLTKAAFENHIDWLKGLKENVIIGRLIPAGTGFKQ 42
>pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [validated] -
Sulfolobus acidocaldarius
Length = 880
Score = 64.8 bits (155), Expect = 7e-09
Identities = 62/249 (24%), Positives = 112/249 (44%), Gaps = 34/249 (13%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
VF K IG + + I +G Y ++D V + R ++ ++D+ TIP
Sbjct: 597 VFDKKAIGNQQPESNLHWSIREYGTEYGKWLMDNVFKMFIRFLEHRGFTMTLEDI-TIPD 655
Query: 68 KGW-----LVQDAEQQSLILEKHHHYGNVHAV--EKLRQSIEIWYA-TSEYLRQEMNPNF 119
+ +++ Q + + G + + + +S+E + T + LR+
Sbjct: 656 EAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESYILDTLDKLRKVAGEIA 715
Query: 120 SM-TDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI---------------DL 163
+ DPFN V+IM+ +GARG+ + Q+ + G S +G+ I D+
Sbjct: 716 TKYLDPFNNVYIMAITGARGSELNITQMTALLGQQS-VRGERIRRGYRERTLSLFKYGDI 774
Query: 164 P------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRR 217
++++ GLS E G R+G+VDTAV+TS +GY+ RRL+ + + +
Sbjct: 775 APEARGFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTSQSGYMQRRLINALSDLRIEY 834
Query: 218 TDCGTVRGI 226
GTVR +
Sbjct: 835 D--GTVRSL 841
>gb|AAA30233.1| (M27163) RNA polymerase III [Trypanosoma brucei]
Length = 1530
Score = 63.6 bits (152), Expect = 1e-08
Identities = 64/242 (26%), Positives = 110/242 (45%), Gaps = 31/242 (12%)
Query: 12 KVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS---- 67
K++GG A + +RL G YT+ ++ ++ R T SLG+ D+ P
Sbjct: 654 KLLGGGAKDGLFARLHTIAGGGYTARVMSRIAQFTSRYLTNYGFSLGLGDVAPTPELNKQ 713
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHAVEKL--RQSIEIWYATS-EYLRQEMNPNFSMTDP 124
K ++ + + L K G + + L +QS+E T +R E T
Sbjct: 714 KAAVLARSVEVCDGLIKSAKTGRMIPLPGLTVKQSLEARLNTELSKVRDECGTAAVQTLS 773
Query: 125 F--NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID------LP------------ 164
N IM SG++G+A + Q++ G + +++D LP
Sbjct: 774 IHNNTPLIMVQSGSKGSALNIAQMMACVGQQTVSGKRILDAFQDRSLPHFHRFEEAPAAR 833
Query: 165 --IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT 222
+ ++ GLS TE+ R+G+VDTAV+T++ GY+ RRL++ ++++ VR GT
Sbjct: 834 GFVANSFYSGLSPTEFFFHTMAGREGLVDTAVKTAETGYIYRRLMKAMENLSVRYD--GT 891
Query: 223 VR 224
VR
Sbjct: 892 VR 893
Score = 44.1 bits (102), Expect = 0.011
Identities = 29/64 (45%), Positives = 31/64 (48%), Gaps = 9/64 (14%)
Query: 313 ELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV----FTGGTAEYVRSPSNGKIKFNENSAY 368
E G G IA QS+GEP TQ+TLRTFH GV T G V I N N A
Sbjct: 1140 EPGTPCGAIAAQSVGEPSTQMTLRTFHFAGVASMSITQGVPRLVE-----VINANRNIAT 1194
Query: 369 PTRT 372
P T
Sbjct: 1195 PVVT 1198
Score = 38.3 bits (87), Expect = 0.62
Identities = 40/195 (20%), Positives = 88/195 (44%), Gaps = 23/195 (11%)
Query: 1127 EQVLEVRSIDSISM------------NLEKRIDAWNERITGILGIPWRFLIGAELTIAQS 1174
E +EV S+D++++ +L + + E + G +G R +I + T +
Sbjct: 1289 EDCIEVFSLDTLAVYPHFQDARWVHFSLRRILGLLPEVVVGGIGGINRAMISSNGTEVLA 1348
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVR----QITSKVLVSEDGMSNVFSPGELIGLLR 1230
+ + + ++ + H+ ++ R + +V+V E + N+ + L
Sbjct: 1349 EGAELRAVMNLWGVDSTRVVCNHVAVVERVLGIEAARRVIVDE--IQNIL---KAYSLSI 1403
Query: 1231 AQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKG 1288
R L + + R ++LGIT+ + +F ++ ASF+ T L AA R+D
Sbjct: 1404 DVRHVYLLADLMTQRGVVLGITRYGIQKMNFNVLTMASFERTTDHLYNAAATQRVDRDLS 1463
Query: 1289 LKENLVLGGIIPVGT 1303
+ +++++G +P+GT
Sbjct: 1464 VSDSIIVGKPVPLGT 1478
>sp|P08968|RPC1_TRYBB DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
pir||S01393 DNA-directed RNA polymerase (EC 2.7.7.6) III 170K chain -
Trypanosoma brucei brucei
emb|CAA31014.1| (X12494) RNA polymerase III largest subunit (AA 1 - 1530)
[Trypanosoma brucei]
Length = 1530
Score = 63.6 bits (152), Expect = 1e-08
Identities = 64/242 (26%), Positives = 110/242 (45%), Gaps = 31/242 (12%)
Query: 12 KVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS---- 67
K++GG A + +RL G YT+ ++ ++ R T SLG+ D+ P
Sbjct: 654 KLLGGGAKDGLFARLHTIAGGGYTARVMSRIAQFTSRYLTNYGFSLGLGDVAPTPELNKQ 713
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHAVEKL--RQSIEIWYATS-EYLRQEMNPNFSMTDP 124
K ++ + + L K G + + L +QS+E T +R E T
Sbjct: 714 KAAVLARSVEVCDGLIKSAKTGRMIPLPGLTVKQSLEARLNTELSKVRDECGTAAVQTLS 773
Query: 125 F--NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID------LP------------ 164
N IM SG++G+A + Q++ G + +++D LP
Sbjct: 774 IHNNTPLIMVQSGSKGSALNIAQMMACVGQQTVSGKRILDAFQDRSLPHFHRFEEAPAAR 833
Query: 165 --IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT 222
+ ++ GLS TE+ R+G+VDTAV+T++ GY+ RRL++ ++++ VR GT
Sbjct: 834 GFVANSFYSGLSPTEFFFHTMAGREGLVDTAVKTAETGYIYRRLMKAMENLSVRYD--GT 891
Query: 223 VR 224
VR
Sbjct: 892 VR 893
Score = 44.1 bits (102), Expect = 0.011
Identities = 29/64 (45%), Positives = 31/64 (48%), Gaps = 9/64 (14%)
Query: 313 ELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV----FTGGTAEYVRSPSNGKIKFNENSAY 368
E G G IA QS+GEP TQ+TLRTFH GV T G V I N N A
Sbjct: 1140 EPGTPCGAIAAQSVGEPSTQMTLRTFHFAGVASMSITQGVPRLVE-----VINANRNIAT 1194
Query: 369 PTRT 372
P T
Sbjct: 1195 PVVT 1198
Score = 37.1 bits (84), Expect = 1.4
Identities = 39/195 (20%), Positives = 88/195 (45%), Gaps = 23/195 (11%)
Query: 1127 EQVLEVRSIDSISM------------NLEKRIDAWNERITGILGIPWRFLIGAELTIAQS 1174
E +EV S+D++++ +L + + + + G +G R +I + T +
Sbjct: 1289 EDCIEVFSLDTLAVYPHFQDARWVHFSLRRILGLLPDVVVGGIGGINRAMISSNGTEVLA 1348
Query: 1175 RISLVNKIQRVYRSQGVHIHNRHIEIIVR----QITSKVLVSEDGMSNVFSPGELIGLLR 1230
+ + + ++ + H+ ++ R + +V+V E + N+ + L
Sbjct: 1349 EGAELRAVMNLWGVDSTRVVCNHVAVVERVLGIEAARRVIVDE--IQNIL---KAYSLSI 1403
Query: 1231 AQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKG 1288
R L + + R ++LGIT+ + +F ++ ASF+ T L AA R+D
Sbjct: 1404 DVRHVYLLADLMTQRGVVLGITRYGIQKMNFNVLTMASFERTTDHLYNAAATQRVDRDLS 1463
Query: 1289 LKENLVLGGIIPVGT 1303
+ +++++G +P+GT
Sbjct: 1464 VSDSIIVGKPVPLGT 1478
>sp|Q58445|RPA1_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
gb|AAB99046.1| (U67547) DNA-directed RNA polymerase, subunit A' (rpoA1)
[Methanococcus jannaschii]
Length = 1341
Score = 61.7 bits (147), Expect = 6e-08
Identities = 57/232 (24%), Positives = 100/232 (42%), Gaps = 32/232 (13%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW-----LVQDAE 76
I+ ++ FG LD + R + GIDD +P + ++ +AE
Sbjct: 1071 ILHTIVKEFGPEAGRKFLDSATKMAIRAVMLRGFTTGIDDE-DLPEEALKEIEKVLDEAE 1129
Query: 77 QQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF----NPVHIMS 132
++ + + + G + + L S LR+ + ++ + + N IM+
Sbjct: 1130 EKVKEIIEKYERGELELLPGLNLEESREAYISNVLREARDKAGAIAERYLGLDNHAVIMA 1189
Query: 133 FSGARGNASQVHQLVGMRGLMSD--------------PQGQMIDLP------IQSNLREG 172
+GARGN + Q+ G S P + DL ++S+ ++G
Sbjct: 1190 VTGARGNILNLTQMAACLGQQSVRGKRIFRGYRGRVLPHFEKGDLGARSHGFVRSSYKKG 1249
Query: 173 LSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
LS TE+ G R+G+VD AVRT+ +GY+ RRL+ +Q + + GTVR
Sbjct: 1250 LSPTEFFFHAMGGREGLVDQAVRTAQSGYMQRRLINALQDL--KTEFDGTVR 1299
>pir||A64430 DNA-directed RNA polymerase (EC 2.7.7.6) subunit A'
(intein-containing) - Methanococcus jannaschii
Length = 1345
Score = 61.7 bits (147), Expect = 6e-08
Identities = 57/232 (24%), Positives = 100/232 (42%), Gaps = 32/232 (13%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW-----LVQDAE 76
I+ ++ FG LD + R + GIDD +P + ++ +AE
Sbjct: 1075 ILHTIVKEFGPEAGRKFLDSATKMAIRAVMLRGFTTGIDDE-DLPEEALKEIEKVLDEAE 1133
Query: 77 QQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDPF----NPVHIMS 132
++ + + + G + + L S LR+ + ++ + + N IM+
Sbjct: 1134 EKVKEIIEKYERGELELLPGLNLEESREAYISNVLREARDKAGAIAERYLGLDNHAVIMA 1193
Query: 133 FSGARGNASQVHQLVGMRGLMSD--------------PQGQMIDLP------IQSNLREG 172
+GARGN + Q+ G S P + DL ++S+ ++G
Sbjct: 1194 VTGARGNILNLTQMAACLGQQSVRGKRIFRGYRGRVLPHFEKGDLGARSHGFVRSSYKKG 1253
Query: 173 LSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
LS TE+ G R+G+VD AVRT+ +GY+ RRL+ +Q + + GTVR
Sbjct: 1254 LSPTEFFFHAMGGREGLVDQAVRTAQSGYMQRRLINALQDL--KTEFDGTVR 1303
>sp|P15349|RPA1_HALMO DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S03575 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Halococcus
morrhuae (fragment)
Length = 349
Score = 61.7 bits (147), Expect = 6e-08
Identities = 59/244 (24%), Positives = 101/244 (41%), Gaps = 46/244 (18%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
I+ ++ +G +++V +L R S+GIDD + DA + +
Sbjct: 34 IVDTIVKQYGETRARVFINEVASLAMRAIMHFGFSIGIDDES--------ISDAAEAQID 85
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT----------------DPF 125
+ Y V + ++ ++ + + + T D
Sbjct: 86 ESMDNAYERVQELIDTYENDDLESLPGRTVDETLEMKIMQTLGKARDSAGDIADEHFDDD 145
Query: 126 NPVHIMSFSGARG---NASQVHQLVGMRGLMSDP-----QGQMI------DLP------I 165
NP IM+ SGARG N +Q+ VG + + + +G+ + DL +
Sbjct: 146 NPAVIMAESGARGSMLNLTQMAACVGQQAVRGERINRGYEGRTLSHFKPGDLSAEAHGFV 205
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRG 225
+ + R GL+ E+ G R+G+VDTAVRTS +GYL RRL+ + + + GTVR
Sbjct: 206 EDSYRSGLTPREFFFHAMGGREGLVDTAVRTSKSGYLQRRLINALSELETQYD--GTVRD 263
Query: 226 ISVN 229
S N
Sbjct: 264 TSDN 267
>emb|CAA40431.1| (X57145) A subunit [Halococcus morrhuae]
Length = 345
Score = 61.7 bits (147), Expect = 6e-08
Identities = 59/244 (24%), Positives = 101/244 (41%), Gaps = 46/244 (18%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSLI 81
I+ ++ +G +++V +L R S+GIDD + DA + +
Sbjct: 34 IVDTIVKQYGETRARVFINEVASLAMRAIMHFGFSIGIDDES--------ISDAAEAQID 85
Query: 82 LEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMT----------------DPF 125
+ Y V + ++ ++ + + + T D
Sbjct: 86 ESMDNAYERVQELIDTYENDDLESLPGRTVDETLEMKIMQTLGKARDSAGDIADEHFDDD 145
Query: 126 NPVHIMSFSGARG---NASQVHQLVGMRGLMSDP-----QGQMI------DLP------I 165
NP IM+ SGARG N +Q+ VG + + + +G+ + DL +
Sbjct: 146 NPAVIMAESGARGSMLNLTQMAACVGQQAVRGERINRGYEGRTLSHFKPGDLSAEAHGFV 205
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRG 225
+ + R GL+ E+ G R+G+VDTAVRTS +GYL RRL+ + + + GTVR
Sbjct: 206 EDSYRSGLTPREFFFHAMGGREGLVDTAVRTSKSGYLQRRLINALSELETQYD--GTVRD 263
Query: 226 ISVN 229
S N
Sbjct: 264 TSDN 267
>emb|CAC27032.1| (AJ010592) DNA-directed RNA polymerase I chain-like protein
[Guillardia theta]
Length = 1434
Score = 60.5 bits (144), Expect = 1e-07
Identities = 51/180 (28%), Positives = 86/180 (47%), Gaps = 22/180 (12%)
Query: 178 YIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNTRNRMM-- 235
Y C R+G++DTA++TS +GY+ R +++ ++++ + T+R +S N N +
Sbjct: 941 YFFHCMAGREGLLDTAIKTSQSGYIQRNIIKHLENLKINYDF--TLR-MSHNKINSFIFS 997
Query: 236 --SERILIQTLIGRVLADDIYIGSRCIVVRNQDIGI-GLINRFINFQTQPI-FIRTPFTC 291
+RI I ++ + + N D + + NF + I F + F
Sbjct: 998 DDGQRITSIDFISKIR----WKFQNSLRTENDDNNLFNNMKLNSNFTKKNINFHKINFKQ 1053
Query: 292 RNTSWICRLCYG---------RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+ C+ +G S NL+E GE+ GI+ GQ+IGEP TQ+TL TFH G
Sbjct: 1054 IISKRSCKKNFGSFVSYQNILNSNYFENLIEPGESTGILCGQAIGEPCTQMTLNTFHYAG 1113
>emb|CAC09925.1| (AJ249558) RNA polymerase beta subunit [Bacillus stearothermophilus]
Length = 69
Score = 60.5 bits (144), Expect = 1e-07
Identities = 27/48 (56%), Positives = 37/48 (76%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKK 1307
SF+S ASFQET RVL AA++G+ D L GLKEN+++G ++P GTG +
Sbjct: 2 SFLSAASFQETTRVLTDAAIKGKRDELLGLKENVIIGKLVPAGTGMAR 49
>pir||H71031 probable DNA-directed RNA polymerase subunit A' - Pyrococcus
horikoshii
dbj|BAA30656.1| (AP000006) 907aa long hypothetical DNA-directed RNA polymerase
subunit A' [Pyrococcus horikoshii]
Length = 907
Score = 59.7 bits (142), Expect = 2e-07
Identities = 63/234 (26%), Positives = 111/234 (46%), Gaps = 36/234 (15%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW-----LVQDAE 76
I+ ++ +G+ LDQV L T + GIDD +P + ++++AE
Sbjct: 633 ILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDE-DLPEEARDRIREIIREAE 691
Query: 77 QQSLILEKHHHYGNVHAV--EKLRQSIEIWYATSEYLRQEMNPNFSMTDPF----NPVHI 130
++ L + + G + + + L +++E L + + S+ + + N I
Sbjct: 692 ERVQRLIEAYKRGELEPLPGKSLEETLES--KIMAVLAEARDNAGSVAEKYLGMNNHAVI 749
Query: 131 MSFSGARG---NASQVHQLVGM-----RGLMSDPQGQMI------DLP------IQSNLR 170
M+ +GARG N +Q+ L+G R L +G+++ DL + ++ +
Sbjct: 750 MAKTGARGKILNITQMAALLGQQSIRGRRLYRGFKGRVLSHFKPGDLGARAKGFVVNSYK 809
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
GLS EY G R+G+VDTAVRT+ +GY+ RRL+ +Q + V GTVR
Sbjct: 810 SGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD--GTVR 861
>sp|P31813|RPA1_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S25564 DNA-directed RNA polymerase (EC 2.7.7.6) chain A' - Thermococcus
celer
emb|CAA47723.1| (X67313) Subunit A' of DNA-dependent RNA polymerase [Thermococcus
celer]
Length = 905
Score = 59.3 bits (141), Expect = 3e-07
Identities = 64/253 (25%), Positives = 110/253 (43%), Gaps = 35/253 (13%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW 70
+K G +++ ++ +G+ LDQV L T + IDD +P++
Sbjct: 622 DKTAYGREDGKLLDIIVREYGVERARQFLDQVTKLAIWVITHKGFTTAIDDE-DLPTEAL 680
Query: 71 -----LVQDAEQQSLILEKHHHYGNVHAV--EKLRQSIE--IWYATSEYLRQEMNPNFSM 121
++++AE++ L + + G + + + L +++E I A +E
Sbjct: 681 DRIREIIREAEERVNRLIEAYRNGELEPIPGKTLEETLESKIMAALAEARDNAGKVAERY 740
Query: 122 TDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI--------------DLPIQS 167
N IM+ +GARG + Q+ M G S ++ DL ++
Sbjct: 741 LGMSNHAVIMAKTGARGKILNITQMAAMLGQQSIRGKRLYRGYRERVLTHFKPGDLGARA 800
Query: 168 ------NLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCG 221
+ + GL+ EY G R+G+VDTAVRT+ +GY+ RRL+ +Q + V G
Sbjct: 801 RGFVINSYKSGLTPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVEYD--G 858
Query: 222 TVR---GISVNTR 231
TVR GI V R
Sbjct: 859 TVRDPTGIIVQFR 871
>pir||B75182 DNA-directed RNA polymerase, chain A' (rpoa1) PAB0424 - Pyrococcus
abyssi (strain Orsay)
emb|CAB49537.1| (AJ248284) DNA-directed RNA polymerase, subunit A' (rpoA1)
[Pyrococcus abyssi]
Length = 907
Score = 58.9 bits (140), Expect = 4e-07
Identities = 60/234 (25%), Positives = 108/234 (45%), Gaps = 36/234 (15%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW-----LVQDAE 76
I+ ++ +G+ LDQV L T + GIDD +P + ++++AE
Sbjct: 633 ILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDE-DLPEEARDRIKEIIREAE 691
Query: 77 QQSLILEKHHHYGNVHAV--EKLRQSIEIWYATSEYLRQEMNPNFSMTDPF----NPVHI 130
++ L + + G + + + L +++E L + + S+ + + N I
Sbjct: 692 ERVQKLIEAYKRGELEPLPGKTLEETLES--KIMAVLAEARDNAGSIAEKYLGMDNHTVI 749
Query: 131 MSFSGARGNASQVHQLVGMRGLMSDP--------QGQMI------DLP------IQSNLR 170
M+ +GARG + Q+ + G S +G+++ DL + ++ +
Sbjct: 750 MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYK 809
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
GLS EY G R+G+VDTAVRT+ +GY+ RRL+ +Q + V GTVR
Sbjct: 810 SGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD--GTVR 861
>gb|AAF48509.1| (AE003500) CG17209 gene product [Drosophila melanogaster]
Length = 1259
Score = 57.8 bits (137), Expect = 8e-07
Identities = 43/126 (34%), Positives = 65/126 (51%), Gaps = 22/126 (17%)
Query: 119 FSMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGLMSD--PQG-QMIDLP-------- 164
F+ P N IM+ SG++G N SQ+ VG + + P G + LP
Sbjct: 642 FAELHPTNSALIMALSGSKGSNINISQMIACVGQQAISGKRVPNGFENRALPHFERHSAI 701
Query: 165 ------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRT 218
+Q++ GL+ TE+ R+G+VDTAV+T++ GYL RRLV+ ++ +VV
Sbjct: 702 PAARGFVQNSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYLQRRLVKCLEDLVVHYD 761
Query: 219 DCGTVR 224
GTVR
Sbjct: 762 --GTVR 765
Score = 49.6 bits (116), Expect = 2e-04
Identities = 23/33 (69%), Positives = 26/33 (78%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ E G AVG IA QSIGEPGTQ+TL+TFH GV
Sbjct: 894 VTEPGTAVGAIAAQSIGEPGTQMTLKTFHFAGV 926
Score = 44.9 bits (104), Expect = 0.006
Identities = 37/148 (25%), Positives = 66/148 (44%), Gaps = 35/148 (23%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++++I V G+ + RHI ++ Q+T++ GE++G+
Sbjct: 1127 LGIEAARTIIMSEITEVMEGHGMSVDWRHIMLLASQMTAR--------------GEVLGI 1172
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
R G+ K +S + ASF++TA L AA G+ D + G
Sbjct: 1173 TRH------------------GLAKM---RESVFNLASFEKTADHLFDAAYYGQTDAING 1211
Query: 1289 LKENLVLGGIIPVGTGFKKIGDRSSARQ 1316
+ E ++LG +GTG K+ + +Q
Sbjct: 1212 VSERIILGMPACIGTGIFKLLQQHEDKQ 1239
>pir||S22812 DNA-directed RNA polymerase (EC 2.7.7.6) III largest chain - Giardia
lamblia
Length = 1735
Score = 57.4 bits (136), Expect = 1e-06
Identities = 89/403 (22%), Positives = 157/403 (38%), Gaps = 90/403 (22%)
Query: 26 LIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLL----TIPSKGWLVQDAEQQSLI 81
L+ ++G + I+ + + R ++GIDD++ + K +VQ+ +++
Sbjct: 922 LVQNYGPVSAARIMLRFAKVAARFLMNYGFTIGIDDVMPSQRVLGKKEVIVQEGYEKAQE 981
Query: 82 LEKHHHYGNVHAV------EKLRQSI-EIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFS 134
+ + G + A+ E L ++ +I E Q T N IMS
Sbjct: 982 KIRDYESGKLEAIPGSTVQETLEATLNQILSNVRESCAQIALKELHFT---NKPLIMSLC 1038
Query: 135 GARGNASQVHQLVGMRGLMSDPQGQMID------LP--------------IQSNLREGLS 174
G++G+ + Q++ + G S + D P I ++ GL
Sbjct: 1039 GSKGSPINIAQMIIILGQQSFGGSRAPDDFYTRSTPYFYHYSKEPNAKGFILNSFYTGLL 1098
Query: 175 LTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR------------------ 216
E++ R GV+D+A +T+D GYL RRLV+ ++ + V
Sbjct: 1099 PFEFLAHARAGRDGVIDSACKTADTGYLQRRLVKCLEDLSVSYDFTVRNSKKSVVQFRFG 1158
Query: 217 -------RTDCGTVRGISVNTRNR-----------------MMSERILIQTLIGRVLADD 252
+ + GT + ++T R ++ +R + + +L D
Sbjct: 1159 HDGFDPIKLEVGTGQCFDLDTLLRHIILLNRSQDLAEGAFPVLLDRYKAEAELDVLLNKD 1218
Query: 253 IYIGSRCIVVRN-------QDIGIGLI-NRFINFQTQPI----FIRTPFTCRNTSWICRL 300
Y C++ R+ Q I L N I P F++T T ++ R
Sbjct: 1219 FYGQEACLIERSNVTSYFQQSILPKLTTNTHIATTVAPALAASFLQTTLTKKDIDDFLRQ 1278
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R I NL E G G +A QS+GEP TQ+TL++FH G+
Sbjct: 1279 VR-RKYIRLNL-EPGSPCGAVAAQSVGEPSTQMTLKSFHHAGL 1319
Score = 48.8 bits (114), Expect = 4e-04
Identities = 28/81 (34%), Positives = 45/81 (54%), Gaps = 3/81 (3%)
Query: 1227 GLLRAQRTGRALEESICYRTLLLGITK---TSLNTQSFISEASFQETARVLAKAALRGRI 1283
G+ R R L + +C+R +LG T+ T + S I ASF++T L AAL ++
Sbjct: 1569 GMAVDMRHIRLLADIMCFRGRVLGFTRFGLTKMKADSVIMLASFEKTGEHLFNAALGNKV 1628
Query: 1284 DWLKGLKENLVLGGIIPVGTG 1304
D G+ E+++LG + +GTG
Sbjct: 1629 DEANGVTESIILGKPMSMGTG 1649
>sp|P25202|RPC1_GIALA DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
emb|CAA42895.1| (X60325) subunit A of DNA dependent RNA polymerase III [Giardia
intestinalis]
Length = 1741
Score = 57.4 bits (136), Expect = 1e-06
Identities = 89/403 (22%), Positives = 157/403 (38%), Gaps = 90/403 (22%)
Query: 26 LIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLL----TIPSKGWLVQDAEQQSLI 81
L+ ++G + I+ + + R ++GIDD++ + K +VQ+ +++
Sbjct: 922 LVQNYGPVSAARIMLRFAKVAARFLMNYGFTIGIDDVMPSQRVLGKKEVIVQEGYEKAQE 981
Query: 82 LEKHHHYGNVHAV------EKLRQSI-EIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFS 134
+ + G + A+ E L ++ +I E Q T N IMS
Sbjct: 982 KIRDYESGKLEAIPGSTVQETLEATLNQILSNVRESCAQIALKELHFT---NKPLIMSLC 1038
Query: 135 GARGNASQVHQLVGMRGLMSDPQGQMID------LP--------------IQSNLREGLS 174
G++G+ + Q++ + G S + D P I ++ GL
Sbjct: 1039 GSKGSPINIAQMIIILGQQSFGGSRAPDDFYTRSTPYFYHYSKEPNAKGFILNSFYTGLL 1098
Query: 175 LTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR------------------ 216
E++ R GV+D+A +T+D GYL RRLV+ ++ + V
Sbjct: 1099 PFEFLAHARAGRDGVIDSACKTADTGYLQRRLVKCLEDLSVSYDFTVRNSKKSVVQFRFG 1158
Query: 217 -------RTDCGTVRGISVNTRNR-----------------MMSERILIQTLIGRVLADD 252
+ + GT + ++T R ++ +R + + +L D
Sbjct: 1159 HDGFDPIKLEVGTGQCFDLDTLLRHIILLNRSQDLAEGAFPVLLDRYKAEAELDVLLNKD 1218
Query: 253 IYIGSRCIVVRN-------QDIGIGLI-NRFINFQTQPI----FIRTPFTCRNTSWICRL 300
Y C++ R+ Q I L N I P F++T T ++ R
Sbjct: 1219 FYGQEACLIERSNVTSYFQQSILPKLTTNTHIATTVAPALAASFLQTTLTKKDIDDFLRQ 1278
Query: 301 CYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R I NL E G G +A QS+GEP TQ+TL++FH G+
Sbjct: 1279 VR-RKYIRLNL-EPGSPCGAVAAQSVGEPSTQMTLKSFHHAGL 1319
Score = 48.8 bits (114), Expect = 4e-04
Identities = 28/81 (34%), Positives = 45/81 (54%), Gaps = 3/81 (3%)
Query: 1227 GLLRAQRTGRALEESICYRTLLLGITK---TSLNTQSFISEASFQETARVLAKAALRGRI 1283
G+ R R L + +C+R +LG T+ T + S I ASF++T L AAL ++
Sbjct: 1569 GMAVDMRHIRLLADIMCFRGRVLGFTRFGLTKMKADSVIMLASFEKTGEHLFNAALGNKV 1628
Query: 1284 DWLKGLKENLVLGGIIPVGTG 1304
D G+ E+++LG + +GTG
Sbjct: 1629 DEANGVTESIILGKPMSMGTG 1649
>pir||T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Mastigamoeba invertens (fragment)
gb|AAC62246.1| (AF083338) DNA-dependent RNA polymerase II largest subunit
[Mastigamoeba invertens]
Length = 1690
Score = 57.0 bits (135), Expect = 1e-06
Identities = 61/239 (25%), Positives = 102/239 (42%), Gaps = 32/239 (13%)
Query: 8 VFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPS 67
V NK +G + II L G L +V+ L T S+G +D L P
Sbjct: 543 VITNKAVGKSGQGSIIHILWKDQGPMAARDFLSRVQLLTNAYILTRGFSVGTEDTLADPD 602
Query: 68 KGWLVQDAEQQSLILEKHHHYGNVHA----VEKLRQSIEIWYATSEYLRQEMNPN----- 118
V+ AE + H + A V+ R +E + A + Q+ N
Sbjct: 603 TLQAVK-AEIEGAKRNVKIHIDDARAGRLKVQAGRSLVESFEAKTNKSLQDALSNAGKKS 661
Query: 119 FSMTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI-------DLP------- 164
S N +M SG++G+ + Q+ GM G + +G+ I LP
Sbjct: 662 LSSLKYDNNFKLMIESGSKGSEMNICQITGMVG-QQNVEGKRIAFGFQRRTLPHFRKDDY 720
Query: 165 -------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GLS E+ G R+G++DTAV+TS++GY+ R+L++ ++ I V+
Sbjct: 721 EPEARGFVENSYVSGLSPQEFFFHMMGGREGLIDTAVKTSESGYIQRKLMKSMEDISVK 779
Score = 48.0 bits (112), Expect = 7e-04
Identities = 32/96 (33%), Positives = 50/96 (51%), Gaps = 3/96 (3%)
Query: 1238 LEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVL 1295
L + + +R L+ IT+ +N + ASF+ET VL AA D L+G+ +N++L
Sbjct: 1330 LVDVMTFRGYLMSITRFGMNRTDNGILMRASFEETVDVLQDAAQFAGHDELRGVSDNIML 1389
Query: 1296 GGIIPVGTG-FKKIGDRSSARQDTKITLETIKIIRG 1330
G + PVGTG F + D + R+ + T RG
Sbjct: 1390 GQVAPVGTGTFDLLLDAALLREAYQFRTTTESDARG 1425
Score = 46.9 bits (109), Expect = 0.002
Identities = 23/35 (65%), Positives = 25/35 (70%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFT 345
LV GE VG IA QS GEP TQ+TL TFH+ GV T
Sbjct: 996 LVAPGEMVGAIAAQSFGEPTTQMTLNTFHSAGVGT 1030
>gi|11499472 DNA-directed RNA polymerase, subunit A' (rpoA1) [Archaeoglobus
fulgidus]
pir||G69485 DNA-directed RNA polymerase, subunit A' (rpoA1) homolog -
Archaeoglobus fulgidus
gb|AAB89365.1| (AE000972) DNA-directed RNA polymerase, subunit A' (rpoA1)
[Archaeoglobus fulgidus]
Length = 867
Score = 57.0 bits (135), Expect = 1e-06
Identities = 61/237 (25%), Positives = 101/237 (41%), Gaps = 40/237 (16%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQD----AEQ 77
II + +G +D + L R + ++GIDD P +++ AE
Sbjct: 594 IIDEIARKYGKEMAKKFIDDMTQLAIRIISKLGFTVGIDDEDIPPEAAEQIEEVLKEAEN 653
Query: 78 QSLILEKHHHYGNVHAV------EKLRQSI-EIWYATSEYLRQEMNPNFSMTDPFNPVHI 130
+ L + + G++ + E L I ++ + + + M N I
Sbjct: 654 EVNRLIEAYRRGDLEPMPGRSIEETLEMRIMQVLGRARDRAGKIAQRHLGMD---NAAVI 710
Query: 131 MSFSGARGNASQVHQLVGMRGLMSDPQGQMI-----------------DLP------IQS 167
M+ SGARG+ + Q+ G S +G+ I DL ++S
Sbjct: 711 MAVSGARGSMLNLTQMAACIGQQS-VRGERISRGYTYTNRTLSHFKPGDLGAEARGFVRS 769
Query: 168 NLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
+ ++GLS E+ G R+G+VDTAVRTS +GYL RR++ +Q + V GTVR
Sbjct: 770 SYKKGLSPVEFFFHAAGGREGLVDTAVRTSQSGYLQRRMINALQDLKVEYD--GTVR 824
>pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Halobacterium
salinarum
Length = 972
Score = 56.6 bits (134), Expect = 2e-06
Identities = 58/225 (25%), Positives = 103/225 (45%), Gaps = 46/225 (20%)
Query: 39 LDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSL-----ILEKHHHYGNVHA 93
+++V +L R S+GIDD + +A Q ++ ++E + + G++ +
Sbjct: 686 INEVASLAMRSINHFGFSIGIDDETVSTEARERIDEAIQSAIDRVQELIETYEN-GDLES 744
Query: 94 VE----------KLRQSIEIWYATSEYLRQEMNPNFSMTDPFNPVHIMSFSGARGNASQV 143
+ K+ Q++ ++ + +E NF D NP +M+ SGARG+ +
Sbjct: 745 LPGRTVDETLEMKIMQTLGKARDSAGDVAEE---NF---DEDNPAVVMANSGARGSMLNL 798
Query: 144 HQLVGMRGLMSDPQGQMI---------------DLP------IQSNLREGLSLTEYIISC 182
Q+ G G + +G+ I DL ++++ GL+ E+
Sbjct: 799 TQMAGCVGQQA-VRGERINRGYEDRTLSHFAPNDLSSEAHGFVENSYTSGLTPKEFFFHA 857
Query: 183 YGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGIS 227
G R+G+VDTAVRTS +GYL RRL+ + + + GTVR S
Sbjct: 858 MGGREGLVDTAVRTSKSGYLQRRLINALSELETQYD--GTVRDTS 900
>gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A; RpoA
[Halobacterium sp. NRC-1]
Length = 926
Score = 56.2 bits (133), Expect = 2e-06
Identities = 41/126 (32%), Positives = 62/126 (48%), Gaps = 24/126 (19%)
Query: 123 DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI---------------DLP--- 164
D NP +M+ SGARG+ + Q+ G G + +G+ I DL
Sbjct: 732 DEDNPAVVMANSGARGSMLNLTQMAGCVGQQA-VRGERINRGYEDRTLSHFAPNDLSSEA 790
Query: 165 ---IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCG 221
++++ GL+ E+ G R+G+VDTAVRTS +GYL RRL+ + + + G
Sbjct: 791 HGFVENSYTSGLTPKEFFFHAMGGREGLVDTAVRTSKSGYLQRRLINALSELETQYD--G 848
Query: 222 TVRGIS 227
TVR S
Sbjct: 849 TVRDTS 854
>gi|11499473 DNA-directed RNA polymerase, subunit A'' (rpoA2) [Archaeoglobus
fulgidus]
pir||H69485 DNA-directed RNA polymerase, subunit A'' (rpoA2) homolog -
Archaeoglobus fulgidus
gb|AAB89364.1| (AE000972) DNA-directed RNA polymerase, subunit A'' (rpoA2)
[Archaeoglobus fulgidus]
Length = 380
Score = 56.2 bits (133), Expect = 2e-06
Identities = 25/34 (73%), Positives = 29/34 (84%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
NL+E GEA GI+A QSIGEPGTQ+T+RTFH GV
Sbjct: 51 NLMEPGEAAGIVAAQSIGEPGTQMTMRTFHYAGV 84
Score = 43.4 bits (100), Expect = 0.018
Identities = 20/46 (43%), Positives = 31/46 (66%)
Query: 1259 QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
QS ++ A+F+ T L AA+RG D L+G+ EN+++G I +GTG
Sbjct: 323 QSILARAAFEMTVNNLLDAAVRGEEDHLRGITENIIVGQPIKLGTG 368
>sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
emb|CAA40426.1| (X57144) RNA polymerase subunit A [Halobacterium halobium]
Length = 971
Score = 56.2 bits (133), Expect = 2e-06
Identities = 41/126 (32%), Positives = 62/126 (48%), Gaps = 24/126 (19%)
Query: 123 DPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI---------------DLP--- 164
D NP +M+ SGARG+ + Q+ G G + +G+ I DL
Sbjct: 777 DEDNPAVVMANSGARGSMLNLTQMAGCVGQQA-VRGERINRGYEDRTLSHFAPNDLSSEA 835
Query: 165 ---IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCG 221
++++ GL+ E+ G R+G+VDTAVRTS +GYL RRL+ + + + G
Sbjct: 836 HGFVENSYTSGLTPKEFFFHAMGGREGLVDTAVRTSKSGYLQRRLINALSELETQYD--G 893
Query: 222 TVRGIS 227
TVR S
Sbjct: 894 TVRDTS 899
>gb|AAK00311.1|AF315821_1 (AF315821) DNA-dependent RNA polymerase II largest subunit RPB1
[Monosiga brevicollis]
Length = 1743
Score = 55.8 bits (132), Expect = 3e-06
Identities = 27/59 (45%), Positives = 41/59 (68%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQS--FISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q+ + +ASF+ET +L +AA G D+LKG+ EN++LG +IP GTG
Sbjct: 1331 LMAITRHGVNRQNTGVLMKASFEETVDILLEAAAHGETDYLKGVSENIMLGQVIPGGTG 1389
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1002 GEMVGALAAQSLGEPATQMTLNTFHLAGV 1030
Score = 43.4 bits (100), Expect = 0.018
Identities = 18/41 (43%), Positives = 29/41 (69%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQ 211
+GLS E G R+G++DTAV+T++ GY+ RRLV+ ++
Sbjct: 747 KGLSAQEMFFHAMGGREGLIDTAVKTAETGYIQRRLVKSME 787
>gb|AAC17170.1| (AF064760) DNA-directed RNA polymerase beta' subunit 2
[Streptochaeta angustifolia]
Length = 250
Score = 55.4 bits (131), Expect = 4e-06
Identities = 26/37 (70%), Positives = 31/37 (83%)
Query: 611 SIFQKEDLIEYRGIREFKPKYQIKVDRFFFIPQEVHI 647
SIF+KE LIE+RG +EF KYQ +VDRFFFI QE+HI
Sbjct: 214 SIFKKEGLIEHRGTKEFSLKYQKEVDRFFFILQELHI 250
Score = 50.8 bits (119), Expect = 1e-04
Identities = 33/97 (34%), Positives = 54/97 (55%), Gaps = 11/97 (11%)
Query: 560 RERNNELMP--DISVEIPIDGIIHKNSILAYFDDPQYRTQ--SSGIAKYKTIGIHSIFQK 615
+E+ EL+ IS+EIP GI+ +N+I AYFDDP+YR + SGI K++ + ++
Sbjct: 6 QEQEKELISCFGISMEIPFMGILRRNNIFAYFDDPRYRKEKKGSGIIKFR----YRTLEE 61
Query: 616 EDLIEYRGIREFKPKYQIKVDRFFFIPQEVHILSESS 652
+ EY + + +Y I + + + E IL E S
Sbjct: 62 DSEDEYETLED---EYGIPENEYRTLEDEYGILEEDS 95
>sp|O27125|RPA1_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||G69006 DNA-directed RNA polymerase (EC 2.7.7.6) chain A' -
Methanobacterium thermoautotrophicum (strain Delta H)
gb|AAB85542.1| (AE000876) DNA-dependent RNA polymerase, subunit A'
[Methanothermobacter thermautotrophicus]
Length = 870
Score = 55.4 bits (131), Expect = 4e-06
Identities = 36/110 (32%), Positives = 55/110 (49%), Gaps = 20/110 (18%)
Query: 126 NPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP--------------I 165
N IM+ +GARG N +Q+ VG + + + D LP +
Sbjct: 712 NHAVIMALTGARGSMLNLTQITACVGQQSVRGGRISRGYDNRTLPHFKKGELGAKSRGFV 771
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
S+ +EGL E+ G R+G+VDTA+RT+ +GY+ RRLV +Q + V
Sbjct: 772 HSSYKEGLDPIEFFFHAMGGREGLVDTAIRTAQSGYMQRRLVNALQDLTV 821
>sp|P14247|RPA2_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A"
pir||S47163 DNA-directed RNA polymerase (EC 2.7.7.6) - Methanococcus vannielii
emb|CAA51729.1| (X73293) DNA-directed RNA polymerase [Methanococcus vannielii]
Length = 386
Score = 55.0 bits (130), Expect = 6e-06
Identities = 24/33 (72%), Positives = 29/33 (87%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
++E GEAVG+IA QSIGEPGTQ+T+RTFH GV
Sbjct: 53 VIEPGEAVGVIAAQSIGEPGTQMTMRTFHYAGV 85
Score = 43.0 bits (99), Expect = 0.024
Identities = 19/45 (42%), Positives = 32/45 (70%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
S ++ A+F+ET + L A++RG +D L G+ EN+++G I +GTG
Sbjct: 326 SVLARAAFEETVKHLYSASMRGYVDDLSGVVENIIVGKPISMGTG 370
>sp|Q03585|RPA1_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S26723 DNA-directed RNA polymerase (EC 2.7.7.6) chain A' - Thermoplasma
acidophilum
emb|CAA48281.1| (X68198) DNA-directed RNA polymerase [Thermoplasma acidophilum]
emb|CAC11535.1| (AL445064) probable DNA-directed RNA polymerase, chain A
[Thermoplasma acidophilum]
Length = 885
Score = 55.0 bits (130), Expect = 6e-06
Identities = 37/109 (33%), Positives = 54/109 (48%), Gaps = 20/109 (18%)
Query: 127 PVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI------DLP--------------IQ 166
P IM+ SGAR + ++ G+ G S G++ LP ++
Sbjct: 731 PSVIMARSGARATMLNISEVAGIVGQQSVRGGRLNRGYYNRTLPHFKRGDIGADARGFVR 790
Query: 167 SNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
S+ GLS TEY G R+G+VDTAVRTS +GY+ RRL+ + + V
Sbjct: 791 SSYMTGLSPTEYFFHSIGGREGLVDTAVRTSRSGYMQRRLINAFEDLKV 839
>sp|P41556|RPA1_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S47162 DNA-directed RNA polymerase (EC 2.7.7.6) - Methanococcus vannielii
emb|CAA51728.1| (X73293) DNA-directed RNA polymerase [Methanococcus vannielii]
Length = 889
Score = 54.7 bits (129), Expect = 7e-06
Identities = 62/261 (23%), Positives = 107/261 (40%), Gaps = 46/261 (17%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGW-----LVQDAE 76
+++ ++ FG LD + + + GIDD IPS+ L+ AE
Sbjct: 619 VLNTIVKDFGSEDARTFLDSATKMSVKSMMLRGFTTGIDDE-DIPSEAIQEIQDLLDKAE 677
Query: 77 QQSLILEKHHHYGNVHAV--EKLRQSIEIWYATSEYLRQEMNPNFSMTDPF----NPVHI 130
+ + + G + + + +S E + + L + + + + + N +
Sbjct: 678 SDVQEIVERYEGGTLDPLPGRGIEESREAYIM--QILGKARDDTGKVAEKYLSKENHAAL 735
Query: 131 MSFSGARGNASQVHQLVGMRGLMSDPQGQMI------DLP--------------IQSNLR 170
M+ +GARG+ + + G S G++ LP ++S +
Sbjct: 736 MARTGARGSLLNITMMAASVGQQSVRGGRVFRGYRGRTLPHFGEGSLDAKSHGFVRSCYK 795
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGISVNT 230
+GL+ TEY G R+G+VD AVRT+ +GY+ RRLV +Q I GTVR
Sbjct: 796 KGLAPTEYFFHAMGGREGLVDQAVRTAQSGYMQRRLVNALQDIKAEYD--GTVRD----- 848
Query: 231 RNRMMSERILIQTLIGRVLAD 251
S I++Q G L D
Sbjct: 849 -----SRGIIVQFNYGEDLVD 864
>gb|AAK00313.1|AF315823_1 (AF315823) DNA-dependent RNA polymerase II largest subunit RPB1
[Stylonychia mytilus]
Length = 1678
Score = 54.3 bits (128), Expect = 1e-05
Identities = 39/163 (23%), Positives = 73/163 (43%), Gaps = 46/163 (28%)
Query: 1151 ERITGILGIPWRFLIGAE-------LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVR 1203
+++ G+ GI ++ + + L I R+SL+N+++ V S G++++ RH+ +
Sbjct: 1228 QKVLGLEGINYKKTVSNDIIEILRVLGIEAVRMSLINELRFVLSSYGIYVNYRHLSTLCD 1287
Query: 1204 QITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNT--QSF 1261
+T R +L IT+ +N S
Sbjct: 1288 VMTQ-------------------------------------RGILTAITRHGINRVDSSP 1310
Query: 1262 ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
+ + SF+ET +L +AA+ D LKG+ EN+++G + P GTG
Sbjct: 1311 LRKCSFEETVEILLEAAVFAETDPLKGITENIIMGQLAPFGTG 1353
Score = 49.2 bits (115), Expect = 3e-04
Identities = 33/130 (25%), Positives = 67/130 (51%), Gaps = 26/130 (20%)
Query: 118 NFSMTD--PFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI-------DLP---- 164
N ++ D +N + M ++G++G+ + Q++ G + +G+ I LP
Sbjct: 633 NMALADLSSWNRLKAMVYAGSKGSNLNISQIMACVG-QQNVEGKRIPFGFYKRSLPHFSK 691
Query: 165 ----------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV 214
+++ GL+ E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++
Sbjct: 692 DDFGPESKGFVENCYLNGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKALEDVM 751
Query: 215 VRRTDCGTVR 224
V+ GTVR
Sbjct: 752 VKYD--GTVR 759
Score = 44.5 bits (103), Expect = 0.008
Identities = 21/33 (63%), Positives = 23/33 (69%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
LV GE VG I QS+GEP TQ+TL TFH GV
Sbjct: 973 LVNPGEMVGSIGAQSMGEPATQMTLNTFHFAGV 1005
>gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Crassostrea gigas]
Length = 1340
Score = 54.3 bits (128), Expect = 1e-05
Identities = 54/242 (22%), Positives = 103/242 (42%), Gaps = 40/242 (16%)
Query: 16 GTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDA 75
GT+ + + +G + ++TL S+GI D + P +QD
Sbjct: 557 GTSSGSLAHVVFMEYGWVIAGEMYGHIQTLVNNWLLLEGHSIGIGDTIADPQTYIDIQDT 616
Query: 76 EQQSL-----ILEKHHHY------GNVHAVEKLRQSIE-----IWYATSEYLRQEMNPNF 119
+++ ++EK H+ GN LRQ+ E I + + +
Sbjct: 617 IKKAKHDVIEVIEKAHNDDLEPTPGNT-----LRQTFENMVNRILNDARDKTGSKAQKSL 671
Query: 120 SMTDPFNPVHIMSFSGARGNASQVHQLVGMRGL-----------------MSDPQGQMID 162
S + F + + G++ N SQV VG + + + D G
Sbjct: 672 SDYNNFKAMVVAGSKGSKINISQVIACVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESR 731
Query: 163 LPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGT 222
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+ GT
Sbjct: 732 GFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVKYD--GT 789
Query: 223 VR 224
VR
Sbjct: 790 VR 791
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 995 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1023
>pir||C33926 DNA-directed RNA polymerase (EC 2.7.7.6) C - Sulfolobus
acidocaldarius
Length = 381
Score = 54.3 bits (128), Expect = 1e-05
Identities = 21/34 (61%), Positives = 29/34 (84%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+L+E GEA+G++ QS+GEPGTQ+TLRTFH G+
Sbjct: 60 SLIEPGEAIGVVTAQSVGEPGTQMTLRTFHFAGI 93
Score = 37.5 bits (85), Expect = 1.1
Identities = 18/45 (40%), Positives = 29/45 (64%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
S ++ A+F+ T + L AA RG + KG+ EN+++G I +GTG
Sbjct: 337 SVLARAAFEVTVKHLLDAAARGEREEFKGVIENIIIGQPIRLGTG 381
>sp|P09847|RPA2_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUBUNIT C)
pir||S02197 DNA-directed RNA polymerase (EC 2.7.7.6) chain A'' -
Methanobacterium thermoautotrophicum (strain Winter)
emb|CAA30839.1| (X08038) RNA polymerase subunit C (AA 1-449) [Methanobacterium
thermoautotrophicum]
Length = 449
Score = 54.3 bits (128), Expect = 1e-05
Identities = 23/33 (69%), Positives = 28/33 (84%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+VE GEAVG +A QS+GEPGTQ+T+RTFH GV
Sbjct: 125 MVEAGEAVGTVAAQSVGEPGTQMTMRTFHYAGV 157
Score = 52.7 bits (124), Expect = 3e-05
Identities = 34/136 (25%), Positives = 61/136 (44%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R +++++ +R QG+ + RHI ++ +T+ V G +
Sbjct: 341 LGIEAARNAIIHEAKRTMEEQGLTVDIRHIMLVADMMTADGSVKSIGRHGI--------- 391
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
S S ++ ASF+ET + L +A++RG +D L G
Sbjct: 392 --------------------------SGEKASVLARASFEETGKHLLRASIRGEVDHLTG 425
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN+++G IP+GTG
Sbjct: 426 IIENIIIGQPIPLGTG 441
>sp|P11514|RPA2_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A" (SUBUNIT C)
pir||S04718 DNA-directed RNA polymerase (EC 2.7.7.6) chain C [validated] -
Sulfolobus acidocaldarius
emb|CAA32926.1| (X14818) RNA polymerase subunit C (AA 1-392) [Sulfolobus
acidocaldarius]
Length = 392
Score = 54.3 bits (128), Expect = 1e-05
Identities = 21/34 (61%), Positives = 29/34 (84%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+L+E GEA+G++ QS+GEPGTQ+TLRTFH G+
Sbjct: 60 SLIEPGEAIGVVTAQSVGEPGTQMTLRTFHFAGI 93
Score = 38.3 bits (87), Expect = 0.62
Identities = 19/56 (33%), Positives = 34/56 (59%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKIGDRSSAR 1315
S ++ A+F+ T + L AA RG + KG+ EN+++G I +GTG ++ + + R
Sbjct: 337 SVLARAAFEVTVKHLLDAAARGEREEFKGVIENIIIGQPIRLGTGIVELTMKPNMR 392
>gb|AAK00310.1|AF315820_1 (AF315820) DNA-dependent RNA polymerase II largest subunit RPB1
[Glaucosphaera vacuolata]
Length = 1746
Score = 53.9 bits (127), Expect = 1e-05
Identities = 23/60 (38%), Positives = 42/60 (69%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ TE+ G R+G++DTAV+TS+ GY+ RRL++ ++ ++V+ GTVR
Sbjct: 788 VENSYLRGLTATEFFFHAMGGREGLIDTAVKTSETGYIQRRLIKALEDVMVKYD--GTVR 845
Score = 52.3 bits (123), Expect = 4e-05
Identities = 37/136 (27%), Positives = 63/136 (46%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R +L+N+I+ V G +++ RH+ I+ +T + G ++ +
Sbjct: 1365 LGIEGVRAALLNEIRGVISFDGAYVNYRHLAILADIMTCR--------------GHIMSI 1410
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
R GI + + SF+ETA +L +AA+ G +D +KG
Sbjct: 1411 TRH------------------GINRVETGA---LMRCSFEETADILLEAAMYGEVDDMKG 1449
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN++LG + PVGTG
Sbjct: 1450 VAENIMLGQMAPVGTG 1465
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 1079 GEMIGAVAPQSIGEPATQMTLNTFHFAGV 1107
>pir||A69138 DNA-dependent RNA polymerase, subunit A' - Methanobacterium
thermoautotrophicum (strain Delta H)
gb|AAB84805.1| (AE000815) DNA-dependent RNA polymerase, subunit A'
[Methanothermobacter thermautotrophicus]
Length = 664
Score = 53.9 bits (127), Expect = 1e-05
Identities = 27/64 (42%), Positives = 37/64 (57%), Gaps = 5/64 (7%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR-----RTD 219
+QS+ REGL E+ G R +VDTAVRT+ +GY+ RRL+ +Q + V R
Sbjct: 566 VQSSYREGLDPIEFFFHAMGGRDALVDTAVRTAQSGYMQRRLINALQDLTVDEDGRVRDS 625
Query: 220 CGTV 223
CG V
Sbjct: 626 CGNV 629
>gb|AAA50227.1| (U10336) RNA polymerase II, largest subunit [Helobdella stagnalis]
Length = 1337
Score = 53.9 bits (127), Expect = 1e-05
Identities = 34/121 (28%), Positives = 63/121 (51%), Gaps = 24/121 (19%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID-------LP------------- 164
FN M +G++GN + Q++ G + +G+ I LP
Sbjct: 670 FNNFKSMVVAGSKGNKINISQVIACVG-QQNVEGKRIPFGFRQRTLPHFIKDDYGPESRG 728
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTV 223
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+ GTV
Sbjct: 729 FVENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVKYD--GTV 786
Query: 224 R 224
R
Sbjct: 787 R 787
Score = 45.3 bits (105), Expect = 0.005
Identities = 20/32 (62%), Positives = 24/32 (74%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
V+ GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 988 VQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 1019
>pir||T28156 DNA-directed RNA polymerase homolog - malaria parasite (Plasmodium
falciparum)
gb|AAA72349.1| (L11172) [Plasmodium falciparum RNA polymerase I gene, complete
cds.], gene product
Length = 2910
Score = 53.9 bits (127), Expect = 1e-05
Identities = 59/224 (26%), Positives = 89/224 (39%), Gaps = 62/224 (27%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGY----LTRRLVEVVQHI--VVRRTDCGTVR 224
EGL EY C R+G++DTAV+T+ +GY L + + V+ H VR D ++
Sbjct: 1872 EGLRPQEYFFHCMSGREGLIDTAVKTAKSGYIQRCLIKCMESVILHYDGTVRNEDNSIIQ 1931
Query: 225 ----------------------------GISVNTRNRMMSERILIQTLIGRVLADD---- 252
S N M S+ + Q L + D+
Sbjct: 1932 FLYGEDGIDPSKTAYLDLSKDLLHNYHLSFSKYLNNNMHSKILNNQELFLKHEKDNDTKD 1991
Query: 253 ------------IYIGSRCIVVRNQDIGIGLINRFINFQTQPIFIRTP--FTCRNTSWIC 298
YIGS N+ + L+ +NF P + P F ++S +
Sbjct: 1992 NEEPLISKYNPYTYIGSVSDKFNNK-LNNTLLWNDLNF---PEYENVPMNFDTLSSSLL- 2046
Query: 299 RLCYGRSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+S + +L GE++GI+ QS GEP TQ+TL TFH G
Sbjct: 2047 -----KSKYYNSLCNPGESIGILVAQSFGEPATQMTLNTFHLAG 2085
>sp|O27126|RPA2_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A"
pir||H69006 DNA-directed RNA polymerase (EC 2.7.7.6) chain A'' -
Methanobacterium thermoautotrophicum (strain Delta H)
gb|AAB85543.1| (AE000876) DNA-dependent RNA polymerase, subunit A''
[Methanothermobacter thermautotrophicus]
Length = 451
Score = 53.5 bits (126), Expect = 2e-05
Identities = 23/32 (71%), Positives = 27/32 (83%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
VE GEAVG +A QS+GEPGTQ+T+RTFH GV
Sbjct: 126 VEAGEAVGTVAAQSVGEPGTQMTMRTFHYAGV 157
Score = 52.7 bits (124), Expect = 3e-05
Identities = 34/136 (25%), Positives = 61/136 (44%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R +++++ +R QG+ + RHI ++ +T+ V G +
Sbjct: 341 LGIEAARNAIIHEAKRTMEEQGLTVDIRHIMLVADMMTADGSVKSIGRHGI--------- 391
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
S S ++ ASF+ET + L +A++RG +D L G
Sbjct: 392 --------------------------SGEKASVLARASFEETGKHLLRASIRGEVDHLTG 425
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN+++G IP+GTG
Sbjct: 426 IIENIIIGQPIPLGTG 441
>emb|CAC11536.1| (AL445064) probable DNA-directed RNA polymerase, chain A
[Thermoplasma acidophilum]
Length = 511
Score = 52.7 bits (124), Expect = 3e-05
Identities = 25/37 (67%), Positives = 29/37 (77%)
Query: 307 IHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
I L++ EAVGIIA QSIGEPGTQ+T+RTFH GV
Sbjct: 175 IGNELIDPYEAVGIIAAQSIGEPGTQMTMRTFHFAGV 211
Score = 45.3 bits (105), Expect = 0.005
Identities = 35/136 (25%), Positives = 63/136 (45%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R +++N+ R + QG+++ RH+ ++ +T FS G
Sbjct: 397 LGIEAARNAILNEALRTLQEQGLNVDVRHLMLVADMMT-------------FS-----GS 438
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
+RA +G T S S ++ A+F+ T + L +A + G +D L G
Sbjct: 439 VRA-----------------VGRTGISGRKSSVLARAAFEITTKHLLRAGIMGEVDKLAG 481
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN+++G I +GTG
Sbjct: 482 VAENIIVGQPITLGTG 497
>pir||C72571 probable DNA-directed RNA polymerase subunit A APE1852 - Aeropyrum
pernix (strain K1)
dbj|BAA80856.1| (AP000062) 410aa long hypothetical DNA-directed RNA polymerase
subunit A [Aeropyrum pernix]
Length = 410
Score = 52.7 bits (124), Expect = 3e-05
Identities = 23/34 (67%), Positives = 28/34 (81%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+L + GEAVG +A QSIGEPGTQ+TLRTFH G+
Sbjct: 58 SLAQPGEAVGTVAAQSIGEPGTQMTLRTFHYAGI 91
>gi|6324917 RNA polymerase I subunit 190 (alpha); Rpa190p [Saccharomyces
cerevisiae]
sp|P10964|RPA1_YEAST DNA-DIRECTED RNA POLYMERASE I 190 KD POLYPEPTIDE (A190)
pir||S67250 DNA-directed RNA polymerase (EC 2.7.7.6) I 190K chain - yeast
(Saccharomyces cerevisiae)
emb|CAA65029.1| (X95720) O6276 [Saccharomyces cerevisiae]
emb|CAA99665.1| (Z75249) ORF YOR341w [Saccharomyces cerevisiae]
Length = 1664
Score = 52.7 bits (124), Expect = 3e-05
Identities = 55/240 (22%), Positives = 99/240 (40%), Gaps = 46/240 (19%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDL-LTIPSKGWLV-------- 72
I+ L + +G + +L + L T T+ + G+DDL LT W
Sbjct: 793 IVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLRLTAEGNKWRTDILKTSVD 852
Query: 73 --QDAEQQSLILEKHHHYGNVHAVEKLRQ---------------SIEIWYATSEYLRQEM 115
++A + L+K + +++L++ S ++ TS+ + + +
Sbjct: 853 TGREAAAEVTNLDKDTPADDPELLKRLQEILRDNNKSGILDAVTSSKVNAITSQVVSKCV 912
Query: 116 NPNFSMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP----- 164
P N + M+ SGA+G N SQ+ L+G + L M+ LP
Sbjct: 913 PDGTMKKFPCNSMQAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPVMVSGKTLPSFKPY 972
Query: 165 ---------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
++ G+ EY C R+G++DTAV+TS +GYL R L + ++ + V
Sbjct: 973 ETDAMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLTKQLEGVHV 1032
Score = 49.6 bits (116), Expect = 2e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+L+ GEAVGIIA QS+GEP TQ+TL TFH G
Sbjct: 1177 SLINPGEAVGIIASQSVGEPSTQMTLNTFHFAG 1209
>gb|AAA34890.1| (J03530) RNA polymerase A(I) large subunit [Saccharomyces cerevisiae]
Length = 1664
Score = 52.7 bits (124), Expect = 3e-05
Identities = 55/240 (22%), Positives = 99/240 (40%), Gaps = 46/240 (19%)
Query: 22 IISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDL-LTIPSKGWLV-------- 72
I+ L + +G + +L + L T T+ + G+DDL LT W
Sbjct: 793 IVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLRLTAEGNKWRTDILKTSVD 852
Query: 73 --QDAEQQSLILEKHHHYGNVHAVEKLRQ---------------SIEIWYATSEYLRQEM 115
++A + L+K + +++L++ S ++ TS+ + + +
Sbjct: 853 TGREAAAEVTNLDKDTPADDPELLKRLQEILRDNNKSGILDAVTSSKVNAITSQVVSKCV 912
Query: 116 NPNFSMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP----- 164
P N + M+ SGA+G N SQ+ L+G + L M+ LP
Sbjct: 913 PDGTMKKFPCNSMQAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPVMVSGKTLPSFKPY 972
Query: 165 ---------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
++ G+ EY C R+G++DTAV+TS +GYL R L + ++ + V
Sbjct: 973 ETDAMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLTKQLEGVHV 1032
Score = 49.6 bits (116), Expect = 2e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+L+ GEAVGIIA QS+GEP TQ+TL TFH G
Sbjct: 1177 SLINPGEAVGIIASQSVGEPSTQMTLNTFHFAG 1209
>sp|Q03586|RPA2_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A"
pir||S26724 DNA-directed RNA polymerase (EC 2.7.7.6) chain A'' - Thermoplasma
acidophilum
emb|CAA48282.1| (X68198) DNA-directed RNA polymerase [Thermoplasma acidophilum]
Length = 508
Score = 52.7 bits (124), Expect = 3e-05
Identities = 25/37 (67%), Positives = 29/37 (77%)
Query: 307 IHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
I L++ EAVGIIA QSIGEPGTQ+T+RTFH GV
Sbjct: 172 IGNELIDPYEAVGIIAAQSIGEPGTQMTMRTFHFAGV 208
Score = 45.3 bits (105), Expect = 0.005
Identities = 35/136 (25%), Positives = 63/136 (45%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R +++N+ R + QG+++ RH+ ++ +T FS G
Sbjct: 394 LGIEAARNAILNEALRTLQEQGLNVDVRHLMLVADMMT-------------FS-----GS 435
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
+RA +G T S S ++ A+F+ T + L +A + G +D L G
Sbjct: 436 VRA-----------------VGRTGISGRKSSVLARAAFEITTKHLLRAGIMGEVDKLAG 478
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN+++G I +GTG
Sbjct: 479 VAENIIVGQPITLGTG 494
>emb|CAC27103.1| (AJ010592) DNA-directed RNA polymerase II largest chain [Guillardia
theta]
Length = 1473
Score = 52.3 bits (123), Expect = 4e-05
Identities = 46/182 (25%), Positives = 86/182 (46%), Gaps = 37/182 (20%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI-------DLP------------- 164
+N + M FSG++G+ + Q+V G + +G+ I LP
Sbjct: 729 YNNLKKMIFSGSKGSLINISQIVACVG-QQNVEGKRIPFGFRKRSLPHYHYKNFEPETRG 787
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTV 223
+ ++ EGL E+ G R+G++DTA++TS+ GY+ RRL + ++ IVV
Sbjct: 788 FVVNSYIEGLFPDEFFFHSMGGREGLIDTAIKTSETGYIQRRLSKSMEDIVVE------- 840
Query: 224 RGISVNTRNRMMSERILIQTLIGRVLADDIYIGSRCIVV-RNQDIGIGLINRFINFQTQP 282
+ RN +++ +I L G D +Y+ ++ I + + DI + ++ + Q+ P
Sbjct: 841 --YDFSVRN---NQQEIISFLYGEDCFDAVYLENQKIFLGKMSDIEMNMVYKVT--QSSP 893
Query: 283 IF 284
F
Sbjct: 894 CF 895
Score = 46.9 bits (109), Expect = 0.002
Identities = 21/37 (56%), Positives = 27/37 (72%)
Query: 307 IHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
I +L++ GE VG I+ QSIG+P TQ+TL TFH GV
Sbjct: 1047 IRKSLIQPGEMVGTISAQSIGQPATQMTLNTFHFAGV 1083
Score = 35.6 bits (80), Expect = 4.1
Identities = 27/109 (24%), Positives = 56/109 (50%), Gaps = 7/109 (6%)
Query: 1198 IEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLN 1257
++++ + T K+L+ E + N+ S G R L + I +R L+ I + +N
Sbjct: 1362 LKVLGIEATRKILIQE--LRNLIS---FDGSYVNYRHLCTLVDLITFRGSLMSINRHGIN 1416
Query: 1258 --TQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
I++++F+ET + ++A+ G D L+G+ ++ G + +GTG
Sbjct: 1417 KCNSGPIAKSTFEETVDIFYESAVFGLNDNLRGVSAQIMTGMVPKIGTG 1465
>pir||T43217 RNA polymerase (EC 2.7.7.-) II, largest chain - Porphyra yezoensis
(fragment)
gb|AAC17924.1| (U90208) RNA polymerase II largest subunit [Porphyra yezoensis]
Length = 1685
Score = 52.3 bits (123), Expect = 4e-05
Identities = 37/136 (27%), Positives = 64/136 (46%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R +L+N+I+ V G +++ RH+ ++V +T + G L+ +
Sbjct: 1321 LGIEAVRATLLNEIRTVISFDGAYVNYRHLSVLVDVMTFR--------------GHLMAI 1366
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
R GI + S S + + SF+ET+ +L AA+ G D L G
Sbjct: 1367 SRH------------------GINRVS---SSALMKCSFEETSDILLDAAMHGETDTLTG 1405
Query: 1289 LKENLVLGGIIPVGTG 1304
+ E+++LG + P+GTG
Sbjct: 1406 VSESIMLGQLAPLGTG 1421
Score = 50.0 bits (117), Expect = 2e-04
Identities = 35/119 (29%), Positives = 62/119 (51%), Gaps = 22/119 (18%)
Query: 126 NPVHIMSFSGARG---NASQVHQLVGMRGLMSD-----------PQGQMIDLP------I 165
N + M +G++G N SQ+ VG + + P +M DL +
Sbjct: 671 NNIKRMVSAGSKGSFINISQICACVGQQNVEGKRISYGFRRRTLPHFRMDDLGPESRGFV 730
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
+++ GL +E+ G R+G++DTAV+T++ GY+ RRLV+ ++ ++V+ GTVR
Sbjct: 731 ENSYLIGLRPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKAMEDVMVKYD--GTVR 787
Score = 44.5 bits (103), Expect = 0.008
Identities = 21/33 (63%), Positives = 22/33 (66%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
L GE VG A QSIGEP TQ+TL TFH GV
Sbjct: 1019 LAPAGEMVGATAAQSIGEPATQMTLNTFHYAGV 1051
>dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cricetulus griseus]
Length = 1970
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 49.6 bits (116), Expect = 2e-04
Identities = 26/67 (38%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G D +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus musculus]
Length = 1966
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 49.6 bits (116), Expect = 2e-04
Identities = 26/67 (38%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G D +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>pir||T29959 DNA-directed RNA polymerase II large subunit ama-1 - Caenorhabditis
elegans
gb|AAA96158.1| (U53333) C. elegans DNA-directed RNA polymerase II large subunit
(ama-1) (SP:P16356) [Caenorhabditis elegans]
Length = 1862
Score = 52.3 bits (123), Expect = 4e-05
Identities = 57/222 (25%), Positives = 96/222 (42%), Gaps = 40/222 (18%)
Query: 34 YTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSL-ILEKHHHY---- 88
+ SHI + R+ T I I D T ++ A+Q + ++EK H+
Sbjct: 658 FYSHIQTVINAWLIREGHTIGIGDTIADQATYLDIQNTIRKAKQDVVDVIEKAHNDDLEP 717
Query: 89 --GNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDP----FNPVHIMSFSGARG---N 139
GN LRQ+ E ++ L + S FN M SG++G N
Sbjct: 718 TPGNT-----LRQTFE--NKVNQILNDARDRTGSSAQKSLSEFNNFKSMVVSGSKGSKIN 770
Query: 140 ASQVHQLVGMRGL-----------------MSDPQGQMIDLPIQSNLREGLSLTEYIISC 182
SQV VG + + + D G ++++ GL+ +E+
Sbjct: 771 ISQVIACVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPSEFFFHA 830
Query: 183 YGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 831 MGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 870
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1080 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
Score = 43.0 bits (99), Expect = 0.024
Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET +L +AA+ D +KG+ EN++LG + GTG
Sbjct: 1409 LMAITRHGINRQEVGALMRCSFEETVDILMEAAVHAEEDPVKGVSENIMLGQLARCGTG 1467
>pir||I38186 RNA polymerase II largest subunit - human
emb|CAA52862.1| (X74874) RNA polymerase II largest subunit [Homo sapiens]
Length = 1970
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 46.1 bits (107), Expect = 0.003
Identities = 25/67 (37%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESYPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RPB1)
Length = 1970
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 49.6 bits (116), Expect = 2e-04
Identities = 26/67 (38%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G D +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>sp|P16356|RPB1_CAEEL DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
pir||A34092 DNA-directed RNA polymerase (EC 2.7.7.6) II large chain -
Caenorhabditis elegans
gb|AAA28126.1| (M29235) RNA polymerase II [Caenorhabditis elegans]
Length = 1859
Score = 52.3 bits (123), Expect = 4e-05
Identities = 57/222 (25%), Positives = 96/222 (42%), Gaps = 40/222 (18%)
Query: 34 YTSHILDQVKTLGFRQATTTSISLGIDDLLTIPSKGWLVQDAEQQSL-ILEKHHHY---- 88
+ SHI + R+ T I I D T ++ A+Q + ++EK H+
Sbjct: 658 FYSHIQTVINAWLIREGHTIGIGDTIADQATYLDIQNTIRKAKQDVVDVIEKAHNDDLEP 717
Query: 89 --GNVHAVEKLRQSIEIWYATSEYLRQEMNPNFSMTDP----FNPVHIMSFSGARG---N 139
GN LRQ+ E ++ L + S FN M SG++G N
Sbjct: 718 TPGNT-----LRQTFE--NKVNQILNDARDRTGSSAQKSLSEFNNFKSMVVSGSKGSKIN 770
Query: 140 ASQVHQLVGMRGL-----------------MSDPQGQMIDLPIQSNLREGLSLTEYIISC 182
SQV VG + + + D G ++++ GL+ +E+
Sbjct: 771 ISQVIACVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPSEFFFHA 830
Query: 183 YGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 831 MGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 870
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1080 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
Score = 39.5 bits (90), Expect = 0.27
Identities = 20/59 (33%), Positives = 34/59 (56%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ ++ +N Q + SF+ET +L +AA+ D +KG+ EN++LG + GTG
Sbjct: 1406 LMAYSRHGINRQEVGALMRCSFEETVDILMEAAVHAEEDPVKGVSENIMLGQLARCGTG 1464
>gi|6677795 RNA polymerase II 1 [Mus musculus]
pir||A28490 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - mouse
gb|AAA40071.1| (M12130) RNA polymerase II [Mus musculus]
Length = 1932
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 49.6 bits (116), Expect = 2e-04
Identities = 26/67 (38%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G D +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>sp|P15398|RPA1_SCHPO DNA-DIRECTED RNA POLYMERASE I 190 KDA POLYPEPTIDE
pir||JS0080 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chain - fission yeast
(Schizosaccharomyces pombe)
pir||T40492 dna-directed rna polymerase i 190 kd polypeptide - fission yeast
(Schizosaccharomyces pombe)
gb|AAA35326.1| (M37411) RNA polymerase I largest subunit [Schizosaccharomyces pombe]
emb|CAA16827.1| (AL021730) dna-directed rna polymerase i 190 kd polypeptide
[Schizosaccharomyces pombe]
Length = 1689
Score = 52.3 bits (123), Expect = 4e-05
Identities = 36/113 (31%), Positives = 57/113 (49%), Gaps = 20/113 (17%)
Query: 124 PFNPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP------------- 164
P+N + M+ SGA+G N SQ+ L+G + L M+ LP
Sbjct: 934 PYNHMQTMTVSGAKGSNVNVSQISCLLGQQELEGRRVPLMVSGKSLPSFVPYETSAKSGG 993
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
I S G++ EY C R+G++DTAV+TS +GYL R L++ ++ + V+
Sbjct: 994 FIASRFLTGIAPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLMKHLEGLCVQ 1046
Score = 48.8 bits (114), Expect = 4e-04
Identities = 21/33 (63%), Positives = 27/33 (81%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+LV+ GE+VG++A QSIGEP TQ+TL TFH G
Sbjct: 1186 SLVDPGESVGVLASQSIGEPSTQMTLNTFHFAG 1218
Score = 34.8 bits (78), Expect = 7.0
Identities = 20/48 (41%), Positives = 27/48 (55%), Gaps = 1/48 (2%)
Query: 1257 NTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
NT F ++ SF+ T L +AALRG +D L LV+G + GTG
Sbjct: 1629 NTSPF-AKMSFETTCHFLTEAALRGDVDDLSNPSSRLVVGRVGNFGTG 1675
>gi|4505939 polymerase (RNA) II (DNA directed) polypeptide A (220kD) [Homo
sapiens]
ref|XP_008659.1| polymerase (RNA) II (DNA directed) polypeptide A (220kD) [Homo
sapiens]
sp|P24928|RPB1_HUMAN DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RPB1)
pir||S21054 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - human
emb|CAA45125.1| (X63564) RNA polymerase II largest subunit [Homo sapiens]
dbj|BAA22377.1| (D87294) RNA polymerase II largest subunit [Cricetulus griseus]
Length = 1970
Score = 52.3 bits (123), Expect = 4e-05
Identities = 32/112 (28%), Positives = 58/112 (51%), Gaps = 20/112 (17%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQMIDLP 164
+N M SGA+G N SQV +VG + + + D G
Sbjct: 763 YNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGF 822
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+
Sbjct: 823 VENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVK 874
Score = 49.6 bits (116), Expect = 2e-04
Identities = 26/67 (38%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ R L+ IT+ +N Q + + SF+ET VL +AA G D +KG+ EN++LG
Sbjct: 1403 DTMTCRGHLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQ 1462
Query: 1298 IIPVGTG 1304
+ P GTG
Sbjct: 1463 LAPAGTG 1469
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1084 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1112
>pir||JS0206 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chain - fission yeast
(Schizosaccharomyces pombe)
emb|CAA32887.1| (X14783) nuc1 product, RNA polymerase I largest subunit (AA 1-1689)
[Schizosaccharomyces pombe]
Length = 1689
Score = 52.3 bits (123), Expect = 4e-05
Identities = 36/113 (31%), Positives = 57/113 (49%), Gaps = 20/113 (17%)
Query: 124 PFNPVHIMSFSGARG---NASQVHQLVGMRGLMSDPQGQMID---LP------------- 164
P+N + M+ SGA+G N SQ+ L+G + L M+ LP
Sbjct: 934 PYNHMQTMTVSGAKGSNVNVSQISCLLGQQELEGRRVPLMVSGKSLPSFVPYETSAKSGG 993
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
I S G++ EY C R+G++DTAV+TS +GYL R L++ ++ + V+
Sbjct: 994 FIASRFLTGIAPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLMKHLEGLCVQ 1046
Score = 48.8 bits (114), Expect = 4e-04
Identities = 21/33 (63%), Positives = 27/33 (81%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+LV+ GE+VG++A QSIGEP TQ+TL TFH G
Sbjct: 1186 SLVDPGESVGVLASQSIGEPSTQMTLNTFHFAG 1218
Score = 35.2 bits (79), Expect = 5.4
Identities = 44/169 (26%), Positives = 67/169 (39%), Gaps = 50/169 (29%)
Query: 1136 DSISMNLEKRIDAWNERITGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHN 1195
+ ISMN D + I IL I G E T R ++V+++ V+ G+ +
Sbjct: 1557 NEISMN-----DIYTNDIAAILRI-----YGVEAT----RNAIVHEVSSVFGVYGIAVDP 1602
Query: 1196 RHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTS 1255
RH+ +I +T +G F+ +GI
Sbjct: 1603 RHLSLIADYMTF------EGGYKAFNR--------------------------MGI---E 1627
Query: 1256 LNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
NT F ++ SF+ T L +AALRG +D L LV+G + GTG
Sbjct: 1628 YNTSPF-AKMSFETTCHFLTEAALRGDVDDLSNPSSRLVVGRVGNFGTG 1675
>gb|AAG48836.1|AC084218_6 (AC084218) similar to Arabidopsis thaliana DNA-directed RNA
polymerase (EC 2.7.7.6) II largest chain (JDMU1) [Oryza
sativa]
Length = 1741
Score = 51.9 bits (122), Expect = 5e-05
Identities = 33/94 (35%), Positives = 53/94 (56%), Gaps = 12/94 (12%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+V+ GTVR
Sbjct: 766 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYD--GTVR 823
Query: 225 GISVNTRNRMMSERILIQTLIGRVLADDIYIGSR 258
S +IQ L G D I+I S+
Sbjct: 824 N----------SLGDVIQFLYGEDGMDAIWIESQ 847
Score = 48.4 bits (113), Expect = 6e-04
Identities = 24/67 (35%), Positives = 40/67 (58%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA+ D L+G+ EN++LG
Sbjct: 1341 DTMTYRGHLMAITRHGINRNDTGPLMRCSFEETVDILLDAAVYAESDPLRGVSENIMLGQ 1400
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 1401 LAPIGTG 1407
Score = 46.9 bits (109), Expect = 0.002
Identities = 21/34 (61%), Positives = 25/34 (72%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 1023 SLVAPGEMIGCVAAQSIGEPATQMTLNTFHYAGV 1056
>dbj|BAA88485.1| (AB025332) RNA polymerase II largest subunit [Lampetra reissneri]
Length = 595
Score = 51.9 bits (122), Expect = 5e-05
Identities = 32/117 (27%), Positives = 60/117 (50%), Gaps = 19/117 (16%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGL-----------------MSDPQGQMIDLPIQS 167
F + + G++ N SQV +VG + + + D G +++
Sbjct: 265 FKSMVVAGSKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVEN 324
Query: 168 NLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
+ GL+ TE+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+ GTVR
Sbjct: 325 SYLAGLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYD--GTVR 379
>pir||T43026 probable DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain
- Bonnemaisonia hamifera (fragment)
gb|AAC18416.1| (U90209) RNA polymerase II largest subunit [Bonnemaisonia hamifera]
Length = 1732
Score = 51.9 bits (122), Expect = 5e-05
Identities = 23/60 (38%), Positives = 42/60 (69%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ I+VR GTVR
Sbjct: 712 VENSYLRGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMEDIMVRYD--GTVR 769
Score = 49.2 bits (115), Expect = 3e-04
Identities = 37/138 (26%), Positives = 61/138 (43%), Gaps = 39/138 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R L+N+I+ V G +++ RH+ I+V +T
Sbjct: 1295 LGIEAVREVLLNEIRGVISFDGAYVNYRHLAILVDTMT---------------------- 1332
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWL 1286
YR L+ IT+ +N + + SF+ T +L +AA+ G D L
Sbjct: 1333 ---------------YRGHLMAITRHGVNRVDTGPLMKCSFEGTTDILLEAAMWGERDGL 1377
Query: 1287 KGLKENLVLGGIIPVGTG 1304
+G+ EN++LG + P+GTG
Sbjct: 1378 RGVTENIMLGQLAPIGTG 1395
Score = 44.9 bits (104), Expect = 0.006
Identities = 20/29 (68%), Positives = 22/29 (74%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE +G IA QSIGEP TQ+TL TFH GV
Sbjct: 1009 GENIGAIAAQSIGEPATQMTLNTFHYAGV 1037
>pir||S71186 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain -
Arabidopsis thaliana chloroplast (fragment)
gb|AAA17834.1| (U08269) RNA polymerase [Arabidopsis thaliana]
Length = 39
Score = 51.9 bits (122), Expect = 5e-05
Identities = 23/32 (71%), Positives = 28/32 (86%)
Query: 570 ISVEIPIDGIIHKNSILAYFDDPQYRTQSSGI 601
ISVEIPI+GI +NSI A+FDDP+YR +SSGI
Sbjct: 8 ISVEIPINGIFRRNSIFAFFDDPRYRRKSSGI 39
>gb|AAK00312.1|AF315822_1 (AF315822) DNA-dependent RNA polymerase II largest subunit RPB1
[Monoblepharis macrandra]
Length = 1603
Score = 51.5 bits (121), Expect = 6e-05
Identities = 37/120 (30%), Positives = 63/120 (51%), Gaps = 22/120 (18%)
Query: 125 FNPVHIMSFSGARG---NASQVHQLVGMRGLMSD--PQG-QMIDLP-------------- 164
+N V M +G++G N SQ+ VG + + P G + LP
Sbjct: 680 YNNVKQMVIAGSKGSFINISQMTACVGQQNVEGKRIPYGFRYRTLPHFTKDDHSPESRGF 739
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GLS E+ G R+G++DTAV+T++ GY+ RRLV+ ++ ++V+ GTVR
Sbjct: 740 VENSYLRGLSPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDVMVKYD--GTVR 797
Score = 51.2 bits (120), Expect = 8e-05
Identities = 35/142 (24%), Positives = 63/142 (43%), Gaps = 39/142 (27%)
Query: 1165 IGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGE 1224
I A L I R +L+ +I++V G +++ RH+ ++V
Sbjct: 1286 IYAVLGIEAGRAALLKEIRKVIEFDGSYVNYRHLALLV---------------------- 1323
Query: 1225 LIGLLRAQRTGRALEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGR 1282
+ +C + L+ IT+ +N ++ +SF+ET +L AA G
Sbjct: 1324 ---------------DVMCQKGGLMSITRHGINRTENGALARSSFEETVEILMDAAGSGE 1368
Query: 1283 IDWLKGLKENLVLGGIIPVGTG 1304
D +G+ EN++LG + P+GTG
Sbjct: 1369 TDICRGVSENIILGQLAPLGTG 1390
Score = 43.8 bits (101), Expect = 0.014
Identities = 21/32 (65%), Positives = 22/32 (68%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
V E VG IA QSIGEP TQ+TL TFH GV
Sbjct: 1004 VNPAEMVGTIAAQSIGEPATQMTLNTFHFAGV 1035
>gb|AAK00309.1|AF315819_1 (AF315819) DNA-dependent RNA polymerase II largest subunit RPB1
[Botryocladia uvarioides]
Length = 1712
Score = 51.5 bits (121), Expect = 6e-05
Identities = 22/60 (36%), Positives = 42/60 (69%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++VR GTVR
Sbjct: 713 VENSYLRGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMEDVMVRYD--GTVR 770
Score = 50.8 bits (119), Expect = 1e-04
Identities = 40/142 (28%), Positives = 63/142 (44%), Gaps = 39/142 (27%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R +L+ +I+ V G +++ RH+ I+V +T
Sbjct: 1300 LGIEAVREALLQEIRGVISFDGAYVNYRHLSILVDVMT---------------------- 1337
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWL 1286
YR L+ IT+ +N + + SF+ET +L +AA G D L
Sbjct: 1338 ---------------YRGHLMAITRHGINRVDTGPLMKCSFEETTDILLEAATFGMRDNL 1382
Query: 1287 KGLKENLVLGGIIPVGTGFKKI 1308
+G+ EN+VLG + PVGTG K+
Sbjct: 1383 QGVSENIVLGQLAPVGTGSFKM 1404
Score = 45.7 bits (106), Expect = 0.004
Identities = 21/35 (60%), Positives = 24/35 (68%)
Query: 309 GNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G + GE +G IA QSIGEP TQ+TL TFH GV
Sbjct: 1000 GAIAAPGENIGAIAAQSIGEPATQMTLNTFHYAGV 1034
>pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Arabidopsis thaliana
Length = 1834
Score = 51.5 bits (121), Expect = 6e-05
Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+V+ GTVR
Sbjct: 814 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYD--GTVR 871
Score = 48.4 bits (113), Expect = 6e-04
Identities = 24/67 (35%), Positives = 39/67 (57%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA D L+G+ EN++LG
Sbjct: 1389 DTMTYRGHLMAITRHGINRNDTGPLMRCSFEETVDILLDAAAYAETDCLRGVTENIMLGQ 1448
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 1449 LAPIGTG 1455
Score = 46.9 bits (109), Expect = 0.002
Identities = 21/34 (61%), Positives = 25/34 (72%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 1071 SLVAPGEMIGCVAAQSIGEPATQMTLNTFHYAGV 1104
>gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melanogaster]
Length = 1887
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 751 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 809
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 810 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 868
Query: 220 CGTVR 224
GTVR
Sbjct: 869 -GTVR 872
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1076 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1104
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1403 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1461
>sp|P18616|RPB1_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
emb|CAA21466.2| (AL031986) DNA-directed RNA polymerase (EC 2.7.7.6) II largest
chain [Arabidopsis thaliana]
emb|CAB81489.1| (AL161588) DNA-directed RNA polymerase (EC 2.7.7.6) II largest
chain [Arabidopsis thaliana]
Length = 1840
Score = 51.5 bits (121), Expect = 6e-05
Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+V+ GTVR
Sbjct: 820 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYD--GTVR 877
Score = 48.4 bits (113), Expect = 6e-04
Identities = 24/67 (35%), Positives = 39/67 (57%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA D L+G+ EN++LG
Sbjct: 1395 DTMTYRGHLMAITRHGINRNDTGPLMRCSFEETVDILLDAAAYAETDCLRGVTENIMLGQ 1454
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 1455 LAPIGTG 1461
Score = 46.9 bits (109), Expect = 0.002
Identities = 21/34 (61%), Positives = 25/34 (72%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 1077 SLVAPGEMIGCVAAQSIGEPATQMTLNTFHYAGV 1110
>emb|CAB42800.1| (Y18876) largest subunit of the RNA polymerase II complex
[Drosophila subobscura]
gb|AAF89193.1|AF272643_1 (AF272643) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89194.1|AF272644_1 (AF272644) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89195.1|AF272645_1 (AF272645) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89196.1|AF272646_1 (AF272646) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89197.1|AF272647_1 (AF272647) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89198.1|AF272648_1 (AF272648) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89199.1|AF272649_1 (AF272649) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89200.1|AF272650_1 (AF272650) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89201.1|AF272651_1 (AF272651) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89202.1|AF272652_1 (AF272652) RNA polymerase II largest subunit [Drosophila
subobscura]
gb|AAF89203.1|AF272653_1 (AF272653) RNA polymerase II largest subunit [Drosophila
subobscura]
Length = 1889
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 751 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 809
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 810 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 868
Query: 220 CGTVR 224
GTVR
Sbjct: 869 -GTVR 872
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1076 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1104
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1403 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1461
>emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase II complex
[Drosophila pseudoobscura]
Length = 1811
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 673 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 731
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 732 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 790
Query: 220 CGTVR 224
GTVR
Sbjct: 791 -GTVR 794
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 998 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1026
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1325 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1383
>emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase II complex
[Drosophila guanche]
Length = 1889
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 751 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 809
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 810 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 868
Query: 220 CGTVR 224
GTVR
Sbjct: 869 -GTVR 872
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1076 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1104
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1403 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1461
>emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase II complex
[Drosophila madeirensis]
Length = 1889
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 751 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 809
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 810 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 868
Query: 220 CGTVR 224
GTVR
Sbjct: 869 -GTVR 872
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1076 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1104
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1403 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1461
>gb|AAC49712.1| (U90210) RNA polymerase II largest subunit [Spirogyra sp.]
Length = 613
Score = 51.5 bits (121), Expect = 6e-05
Identities = 31/96 (32%), Positives = 54/96 (55%), Gaps = 12/96 (12%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ ++V+ GTVR
Sbjct: 328 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDVMVKYD--GTVR 385
Query: 225 GISVNTRNRMMSERILIQTLIGRVLADDIYIGSRCI 260
S +IQ L G D ++I S+ +
Sbjct: 386 N----------SLGDVIQFLYGEDGMDAVWIESQSL 411
Score = 38.7 bits (88), Expect = 0.47
Identities = 16/24 (66%), Positives = 19/24 (78%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTF 338
GE +G +A QSIGEP TQ+TL TF
Sbjct: 590 GEMIGCVAAQSIGEPATQMTLNTF 613
>sp|P04052|RPB1_DROME DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
pir||RNFF2L DNA-directed RNA polymerase (EC 2.7.7.6) II 215K chain [validated]
- fruit fly (Drosophila melanogaster)
gb|AAA28868.1| (M27431) RNA polymerase II [Drosophila melanogaster]
Length = 1896
Score = 51.5 bits (121), Expect = 6e-05
Identities = 36/125 (28%), Positives = 65/125 (51%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 751 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGP 809
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V
Sbjct: 810 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD- 868
Query: 220 CGTVR 224
GTVR
Sbjct: 869 -GTVR 872
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 1076 GEMVGALAAQSLGEPATQMTLNTFHFAGV 1104
Score = 41.8 bits (96), Expect = 0.054
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1248 LLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
L+ IT+ +N Q + SF+ET VL AA D ++G+ EN+++G + +GTG
Sbjct: 1403 LMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTG 1461
>emb|CAA37130.1| (X52954) RNA polymerase II [Arabidopsis thaliana]
Length = 1841
Score = 51.5 bits (121), Expect = 6e-05
Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+V+ GTVR
Sbjct: 814 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYD--GTVR 871
Score = 48.4 bits (113), Expect = 6e-04
Identities = 24/67 (35%), Positives = 39/67 (57%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA D L+G+ EN++LG
Sbjct: 1389 DTMTYRGHLMAITRHGINRNDTGPLMRCSFEETVDILLDAAAYAETDCLRGVTENIMLGQ 1448
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 1449 LAPIGTG 1455
Score = 46.9 bits (109), Expect = 0.002
Identities = 21/34 (61%), Positives = 25/34 (72%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 1071 SLVAPGEMIGCVAAQSIGEPATQMTLNTFHYAGV 1104
>pir||JDMU2 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain (version
2) - Arabidopsis thaliana
emb|CAA36735.1| (X52494) DNA-directed RNA polymerase [Arabidopsis thaliana]
Length = 1860
Score = 51.5 bits (121), Expect = 6e-05
Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+V+ GTVR
Sbjct: 840 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYD--GTVR 897
Score = 48.4 bits (113), Expect = 6e-04
Identities = 24/67 (35%), Positives = 39/67 (57%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA D L+G+ EN++LG
Sbjct: 1415 DTMTYRGHLMAITRHGINRNDTGPLMRCSFEETVDILLDAAAYAETDCLRGVTENIMLGQ 1474
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 1475 LAPIGTG 1481
Score = 44.9 bits (104), Expect = 0.006
Identities = 20/34 (58%), Positives = 24/34 (69%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G + QSIGEP TQ+TL TFH GV
Sbjct: 1097 SLVAPGEMIGCVPAQSIGEPATQMTLNTFHYAGV 1130
>pir||C75182 DNA-directed RNA polymerase, chain A'' (rpoa2) PAB0425 - Pyrococcus
abyssi (strain Orsay)
emb|CAB49538.1| (AJ248284) DNA-directed RNA polymerase, subunit A'' (rpoA2)
[Pyrococcus abyssi]
Length = 397
Score = 51.2 bits (120), Expect = 8e-05
Identities = 24/33 (72%), Positives = 26/33 (78%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
LVE GEAVG +A QSIGEP TQ+TL TFH GV
Sbjct: 59 LVEPGEAVGTVAAQSIGEPSTQMTLNTFHYAGV 91
Score = 47.6 bits (111), Expect = 0.001
Identities = 36/144 (25%), Positives = 60/144 (41%), Gaps = 35/144 (24%)
Query: 1165 IGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGE 1224
I L I +R +++ +I R QG+ + RHI ++ +T +V G V
Sbjct: 274 IAEVLGIEAARNAIIEEIMNTMREQGLEVDIRHIMLVADIMTLDGVVRPIGRHGVVG--- 330
Query: 1225 LIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRID 1284
S ++ A+F+ T + L +AA RG +D
Sbjct: 331 --------------------------------EKASVLARAAFEITVQHLFEAAERGEVD 358
Query: 1285 WLKGLKENLVLGGIIPVGTGFKKI 1308
L G+ EN+++G +PVGTG K+
Sbjct: 359 NLSGVIENVLIGQPVPVGTGMVKL 382
>pir||A45597 DNA-directed RNA polymerase (EC 2.7.7.6) III largest chain -
malaria parasite (Plasmodium falciparum)
Length = 2339
Score = 51.2 bits (120), Expect = 8e-05
Identities = 56/233 (24%), Positives = 105/233 (45%), Gaps = 30/233 (12%)
Query: 12 KVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDL-----LTIP 66
K + G++ + LI H I++++ L R + +++GIDD+ LT
Sbjct: 764 KKVLGSSKYGLFYYLIHHNSSHIALKIMNRLSKLTSRYFSNKGMTIGIDDVRPSQTLTEK 823
Query: 67 SKGWLVQDAEQ-QSLILEKHHHYGNVHAVEKLRQSIEIWYATS-EYLRQEMNPNFSMTDP 124
K L++ E+ + I+ + + L +++EI + + LR + +
Sbjct: 824 KKDLLLKGYEKVNNEIILYNEKKMQIQPGCTLEETLEIKVKSILDDLRNDAGKTCNQYLH 883
Query: 125 F-NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID-------LP------------ 164
+ N IM SGA+G + Q++ G + GQ I LP
Sbjct: 884 YLNKPLIMFNSGAKGALINIAQMIACVG-QQNVAGQRIQNGFINRTLPHFHFHCKDSESR 942
Query: 165 --IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
+Q++ GLS TE+ R+G+VDTAV+T++ GY+ RRL++ ++ + +
Sbjct: 943 GFVQNSFYTGLSPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKALEDLSI 995
Score = 48.0 bits (112), Expect = 7e-04
Identities = 21/29 (72%), Positives = 25/29 (85%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G+AVG I+ QSIGEPGTQ+TL+TFH GV
Sbjct: 1780 GDAVGSISAQSIGEPGTQMTLKTFHFAGV 1808
Score = 43.4 bits (100), Expect = 0.018
Identities = 41/178 (23%), Positives = 80/178 (44%), Gaps = 43/178 (24%)
Query: 1153 ITGILGIPWRFLIGAE-------LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQI 1205
+ G+ G+ ++ +I L I +RI+++N+I++ + + I RHI ++
Sbjct: 2185 VLGLEGVDFKHIISNHVINVFQVLGIEAARITIINEIKKCVEAYSIDIDIRHIMLLA--- 2241
Query: 1206 TSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEA 1265
D M+ G+++G+ R GI K QS + A
Sbjct: 2242 --------DIMA---FTGDILGINR------------------FGIQKA---RQSTLMLA 2269
Query: 1266 SFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG-FKKIGDRSSARQDTKITL 1322
SF+ET L ++ +D + + E++++G IP+GTG F+ + D ++ +TL
Sbjct: 2270 SFEETNEHLFVSSFFKNVDEINNISESIIVGKNIPIGTGAFQLLYDYKFEKETKNLTL 2327
>gb|AAA22034.1| (M60831) RNA polymerase beta'-subunit [Anabaena variabilis]
Length = 64
Score = 51.2 bits (120), Expect = 8e-05
Identities = 21/57 (36%), Positives = 37/57 (64%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLL 63
++F N+V+ ++ +IS H+G A T+ + D++K LGFR AT +S+ +DDL+
Sbjct: 6 MIFRNRVVDKGQLRNLISWAFTHYGTARTAVMADKLKDLGFRYATRAGVSISVDDLM 62
>sp|P27625|RPC1_PLAFA DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
gb|AAA29729.1| (M73770) RNA polymerase III largest subunit [Plasmodium falciparum]
Length = 2339
Score = 51.2 bits (120), Expect = 8e-05
Identities = 56/233 (24%), Positives = 105/233 (45%), Gaps = 30/233 (12%)
Query: 12 KVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDL-----LTIP 66
K + G++ + LI H I++++ L R + +++GIDD+ LT
Sbjct: 764 KKVLGSSKYGLFYYLIHHNSSHIALKIMNRLSKLTSRYFSNKGMTIGIDDVRPSQTLTEK 823
Query: 67 SKGWLVQDAEQ-QSLILEKHHHYGNVHAVEKLRQSIEIWYATS-EYLRQEMNPNFSMTDP 124
K L++ E+ + I+ + + L +++EI + + LR + +
Sbjct: 824 KKDLLLKGYEKVNNEIILYNEKKMQIQPGCTLEETLEIKVKSILDDLRNDAGKTCNQYLH 883
Query: 125 F-NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID-------LP------------ 164
+ N IM SGA+G + Q++ G + GQ I LP
Sbjct: 884 YLNKPLIMFNSGAKGALINIAQMIACVG-QQNVAGQRIQNGFINRTLPHFHFHCKDSESR 942
Query: 165 --IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
+Q++ GLS TE+ R+G+VDTAV+T++ GY+ RRL++ ++ + +
Sbjct: 943 GFVQNSFYTGLSPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKALEDLSI 995
Score = 48.0 bits (112), Expect = 7e-04
Identities = 21/29 (72%), Positives = 25/29 (85%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
G+AVG I+ QSIGEPGTQ+TL+TFH GV
Sbjct: 1780 GDAVGSISAQSIGEPGTQMTLKTFHFAGV 1808
Score = 43.4 bits (100), Expect = 0.018
Identities = 41/178 (23%), Positives = 80/178 (44%), Gaps = 43/178 (24%)
Query: 1153 ITGILGIPWRFLIGAE-------LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQI 1205
+ G+ G+ ++ +I L I +RI+++N+I++ + + I RHI ++
Sbjct: 2185 VLGLEGVDFKHIISNHVINVFQVLGIEAARITIINEIKKCVEAYSIDIDIRHIMLLA--- 2241
Query: 1206 TSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEA 1265
D M+ G+++G+ R GI K QS + A
Sbjct: 2242 --------DIMA---FTGDILGINR------------------FGIQKA---RQSTLMLA 2269
Query: 1266 SFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG-FKKIGDRSSARQDTKITL 1322
SF+ET L ++ +D + + E++++G IP+GTG F+ + D ++ +TL
Sbjct: 2270 SFEETNEHLFVSSFFKNVDEINNISESIIVGKNIPIGTGAFQLLYDYKLEKETKNLTL 2327
>pir||S14181 DNA-directed RNA polymerase (EC 2.7.7.6) largest chain (isoform B1)
- soybean (fragment)
Length = 650
Score = 51.2 bits (120), Expect = 8e-05
Identities = 49/213 (23%), Positives = 89/213 (41%), Gaps = 49/213 (23%)
Query: 1098 EMLYEG--DILVTFIYE-KSRSGDITQGL-PKVEQVLEVRSIDSISMNLEKRIDAWNERI 1153
EM G DI FI K + D+ QG P E +L+ ++ +++ + +D
Sbjct: 113 EMTLRGIPDINKVFIKNTKVQKFDVNQGFKPNEEWMLDTEGVNLLAVMCHEDVDVTRTTS 172
Query: 1154 TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSE 1213
++ + L I R +L+++++ V G +++ RH+ I+ +T
Sbjct: 173 NHLIEVI------EVLGIEAVRRALLDELRVVISFDGSYVNYRHLAILCDTMT------- 219
Query: 1214 DGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETA 1271
YR L+ IT+ +N + SF+ET
Sbjct: 220 ------------------------------YRGHLMAITRHGINRNDTGPMMRCSFEETV 249
Query: 1272 RVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
+L AA+ D+L+G+ EN++LG + P+GTG
Sbjct: 250 DILLDAAVYAETDYLRGVTENIMLGQLAPIGTG 282
>sp|P22705|RPOD_ANASP DNA-DIRECTED RNA POLYMERASE DELTA CHAIN
pir||C42361 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Anabaena
sp. (strain PCC 7120) (fragment)
Length = 63
Score = 51.2 bits (120), Expect = 8e-05
Identities = 21/57 (36%), Positives = 37/57 (64%)
Query: 7 LVFHNKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLL 63
++F N+V+ ++ +IS H+G A T+ + D++K LGFR AT +S+ +DDL+
Sbjct: 6 MIFRNRVVDKGQLRNLISWAFTHYGTARTAVMADKLKDLGFRYATRAGVSISVDDLM 62
>pir||T07796 DNA-directed RNA polymerase (EC 2.7.7.6) largest chain - soybean
(fragment)
emb|CAA36733.1| (X52492) DNA-directed RNA polymerase [Glycine max]
Length = 625
Score = 51.2 bits (120), Expect = 8e-05
Identities = 49/213 (23%), Positives = 89/213 (41%), Gaps = 49/213 (23%)
Query: 1098 EMLYEG--DILVTFIYE-KSRSGDITQGL-PKVEQVLEVRSIDSISMNLEKRIDAWNERI 1153
EM G DI FI K + D+ QG P E +L+ ++ +++ + +D
Sbjct: 117 EMTLRGIPDINKVFIKNTKVQKFDVNQGFKPNEEWMLDTEGVNLLAVMCHEDVDVTRTTS 176
Query: 1154 TGILGIPWRFLIGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSE 1213
++ + L I R +L+++++ V G +++ RH+ I+ +T
Sbjct: 177 NHLIEVI------EVLGIEAVRRALLDELRVVISFDGSYVNYRHLAILCDTMT------- 223
Query: 1214 DGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSF--ISEASFQETA 1271
YR L+ IT+ +N + SF+ET
Sbjct: 224 ------------------------------YRGHLMAITRHGINRNDTGPMMRCSFEETV 253
Query: 1272 RVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
+L AA+ D+L+G+ EN++LG + P+GTG
Sbjct: 254 DILLDAAVYAETDYLRGVTENIMLGQLAPIGTG 286
>dbj|BAA88484.1| (AB025331) RNA polymerase II largest subunit [Eptatretus burgeri]
Length = 595
Score = 50.8 bits (119), Expect = 1e-04
Identities = 34/131 (25%), Positives = 66/131 (49%), Gaps = 23/131 (17%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGL-----------------MSDPQGQMIDLPIQS 167
F + + G++ N SQV +VG + + + D G +++
Sbjct: 265 FKSMVVAGSKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVEN 324
Query: 168 NLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGIS 227
+ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+ GTVR
Sbjct: 325 SYLAGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYD--GTVR--- 379
Query: 228 VNTRNRMMSER 238
N N+++ R
Sbjct: 380 -NATNQVIQLR 389
>pir||G71031 probable DNA-directed RNA polymerase subunit A - Pyrococcus
horikoshii
dbj|BAA30655.1| (AP000006) 397aa long hypothetical DNA-directed RNA polymerase
subunit A [Pyrococcus horikoshii]
Length = 397
Score = 50.8 bits (119), Expect = 1e-04
Identities = 23/33 (69%), Positives = 26/33 (78%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
L+E GEAVG +A QSIGEP TQ+TL TFH GV
Sbjct: 59 LIEPGEAVGTVAAQSIGEPSTQMTLNTFHYAGV 91
Score = 44.5 bits (103), Expect = 0.008
Identities = 21/49 (42%), Positives = 34/49 (68%)
Query: 1260 SFISEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTGFKKI 1308
S ++ A+F+ T + L +AA RG +D L G+ EN+++G +PVGTG K+
Sbjct: 334 SVLARAAFEITVQHLFEAAERGEVDNLSGVIENVLIGQPVPVGTGMVKL 382
>gb|AAA50229.1| (U10338) RNA polymerase II, largest subunit [Ilyanassa obsoleta]
Length = 1343
Score = 50.8 bits (119), Expect = 1e-04
Identities = 32/121 (26%), Positives = 63/121 (51%), Gaps = 24/121 (19%)
Query: 125 FNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID-------LP------------- 164
FN M +G++G+ + Q++ G + +G+ I LP
Sbjct: 677 FNNFKAMVVAGSKGSKINISQVIACVG-QQNAEGKRIPFGFRYRTLPHFIKDDYGPESRG 735
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTV 223
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V+ GTV
Sbjct: 736 FVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVKYD--GTV 793
Query: 224 R 224
R
Sbjct: 794 R 794
Score = 44.1 bits (102), Expect = 0.011
Identities = 19/29 (65%), Positives = 22/29 (75%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 998 GEMVGALAAQSLGEPATQMTLNTFHYAGV 1026
>pir||S14182 DNA-directed RNA polymerase (EC 2.7.7.6) largest chain (isoform B2)
- soybean (fragment)
Length = 491
Score = 50.4 bits (118), Expect = 1e-04
Identities = 24/67 (35%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA+ D+L+G+ EN++LG
Sbjct: 57 DTMTYRGHLMAITRHGINRNDTGPMMRCSFEETVDILLDAAVYAETDYLRGVTENIMLGQ 116
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 117 LAPIGTG 123
>sp|P29158|RPA2_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A"
pir||S25565 DNA-directed RNA polymerase (EC 2.7.7.6) chain A'' - Thermococcus
celer
emb|CAA47724.1| (X67313) Subunit A'' of DNA-dependent RNA polymerase [Thermococcus
celer]
Length = 393
Score = 50.4 bits (118), Expect = 1e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
L+E GEA+G +A QSIGEP TQ+TL TFH GV
Sbjct: 57 LIEPGEAIGTVAAQSIGEPSTQMTLNTFHYAGV 89
Score = 46.5 bits (108), Expect = 0.002
Identities = 35/144 (24%), Positives = 63/144 (43%), Gaps = 35/144 (24%)
Query: 1165 IGAELTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGE 1224
I L I +R +++++I + QG+ + RHI ++ +T DG+
Sbjct: 274 IAEVLGIEAARNAIIDEILKTMEEQGLEVDVRHIMLVADMMTL------DGVIRPIGRHG 327
Query: 1225 LIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRID 1284
++G S ++ A+F+ T + L +AA RG +D
Sbjct: 328 IVG-----------------------------EKASVLARAAFEITTQHLFEAAERGAVD 358
Query: 1285 WLKGLKENLVLGGIIPVGTGFKKI 1308
L G+ EN+++G +PVGTG K+
Sbjct: 359 PLNGVVENVLIGQPVPVGTGTVKL 382
>pir||S14183 DNA-directed RNA polymerase (EC 2.7.7.6) largest chain (isoform C)
- soybean (fragment)
emb|CAA36736.1| (X52495) DNA-directed RNA polymerase [Glycine max]
Length = 977
Score = 50.4 bits (118), Expect = 1e-04
Identities = 23/60 (38%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+TS+ GY+ RRLV+ ++ I+++ GTVR
Sbjct: 10 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMLKYD--GTVR 67
Score = 49.6 bits (116), Expect = 2e-04
Identities = 25/67 (37%), Positives = 39/67 (57%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
E++ YR L+ IT+ +N + SF+ET +L AA D L+G+ EN++LG
Sbjct: 585 ETMTYRGHLMAITRHGINRNDTGPMMRCSFEETVDILLDAAAYAETDSLRGVTENIILGQ 644
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 645 LAPIGTG 651
Score = 48.0 bits (112), Expect = 7e-04
Identities = 21/34 (61%), Positives = 26/34 (75%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+LV GE +G++A QSIGEP TQ+TL TFH GV
Sbjct: 267 SLVVPGEMIGVVAAQSIGEPATQMTLNTFHFAGV 300
>emb|CAA36734.1| (X52493) DNA-directed RNA polymerase [Glycine max]
Length = 494
Score = 50.4 bits (118), Expect = 1e-04
Identities = 24/67 (35%), Positives = 41/67 (60%), Gaps = 2/67 (2%)
Query: 1240 ESICYRTLLLGITKTSLNTQSF--ISEASFQETARVLAKAALRGRIDWLKGLKENLVLGG 1297
+++ YR L+ IT+ +N + SF+ET +L AA+ D+L+G+ EN++LG
Sbjct: 60 DTMTYRGHLMAITRHGINRNDTGPMMRCSFEETVDILLDAAVYAETDYLRGVTENIMLGQ 119
Query: 1298 IIPVGTG 1304
+ P+GTG
Sbjct: 120 LAPIGTG 126
>dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [Aspergillus oryzae]
Length = 1748
Score = 50.0 bits (117), Expect = 2e-04
Identities = 35/126 (27%), Positives = 66/126 (51%), Gaps = 25/126 (19%)
Query: 120 SMTDPFNPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMID-------LP-------- 164
S+ D N + M+ SG++G+ + Q+ + G S +G+ I LP
Sbjct: 756 SLKDLNNAIQ-MARSGSKGSTINISQMTAVVGQQS-VEGKRIPFGFKYRTLPHFTKDDYS 813
Query: 165 ------IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRT 218
++++ GL+ TE+ R+G++DTAV+T++ GY+ R+LV+ ++ ++V+
Sbjct: 814 PESRGFVENSYLRGLTPTEFFFHAMAGREGLIDTAVKTAETGYIQRKLVKALEEVMVKYD 873
Query: 219 DCGTVR 224
GTVR
Sbjct: 874 --GTVR 877
Score = 46.5 bits (108), Expect = 0.002
Identities = 20/29 (68%), Positives = 23/29 (78%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG++A QSIGEP TQ+TL TFH GV
Sbjct: 1081 GEMVGVLAAQSIGEPATQMTLNTFHFAGV 1109
Score = 45.7 bits (106), Expect = 0.004
Identities = 24/69 (34%), Positives = 38/69 (54%), Gaps = 2/69 (2%)
Query: 1238 LEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVL 1295
L + + R L +T+ +N + SF+ET +L +AA G +D +G+ ENL+L
Sbjct: 1397 LVDVMTVRGYLTPVTRHGINRADNGALMRCSFEETVEILLEAAAFGELDDCRGVSENLIL 1456
Query: 1296 GGIIPVGTG 1304
G + P GTG
Sbjct: 1457 GQMAPAGTG 1465
>dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II largest chain
[Arabidopsis thaliana]
Length = 1383
Score = 50.0 bits (117), Expect = 2e-04
Identities = 37/119 (31%), Positives = 61/119 (51%), Gaps = 24/119 (20%)
Query: 130 IMSFSGARGNASQVHQLVGMRGLMS-----DPQGQMID--LP--------------IQSN 168
IMS G++G+ + Q+V G + P G ID LP + ++
Sbjct: 780 IMSQCGSKGSPINISQMVACVGQQTVNGHRAPDG-FIDRSLPHFPRMSKSPAAKGFVANS 838
Query: 169 LREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVRGIS 227
GL+ TE+ G R+G+VDTAV+T+ GY++RRL++ ++ ++V + TVR S
Sbjct: 839 FYSGLTATEFFFHTMGGREGLVDTAVKTASTGYMSRRLMKALEDLLVHYDN--TVRNAS 895
Score = 49.2 bits (115), Expect = 3e-04
Identities = 21/32 (65%), Positives = 25/32 (77%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+E G A+G I QSIGEPGTQ+TL+TFH GV
Sbjct: 1025 IEAGTAIGTIGAQSIGEPGTQMTLKTFHFAGV 1056
Score = 45.3 bits (105), Expect = 0.005
Identities = 25/77 (32%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 1238 LEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVL 1295
L + + YR +LGI +T + +S + +ASF+ T L AA G++D ++G+ E +++
Sbjct: 1292 LADVMTYRGEVLGIQRTGIQKMDKSVLMQASFERTGDHLFSAAASGKVDNIEGVTECVIM 1351
Query: 1296 GGIIPVGTGFKKIGDRS 1312
G + +GTG K+ R+
Sbjct: 1352 GIPMKLGTGILKVLQRT 1368
>gi|5902062 polymerase (RNA) III (DNA directed) (155kD) [Homo sapiens]
sp|O14802|RPC1_HUMAN DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT (RPC155)
gb|AAB86536.1| (AF021351) RNA polymerase III largest subunit [Homo sapiens]
Length = 1391
Score = 50.0 bits (117), Expect = 2e-04
Identities = 22/32 (68%), Positives = 26/32 (80%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+E G AVG + QSIGEPGTQ+TL+TFH GGV
Sbjct: 1027 MEPGSAVGALCAQSIGEPGTQMTLKTFHFGGV 1058
Score = 44.1 bits (102), Expect = 0.011
Identities = 32/111 (28%), Positives = 54/111 (47%), Gaps = 20/111 (18%)
Query: 123 DPFNPVHIMSFSGARG---NASQVHQLVGMRGLMSD--PQG-QMIDLP------------ 164
D N M+ G++G N SQ+ VG + + P G + LP
Sbjct: 772 DKSNSPLTMALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSLPHFEKHSKLPAAK 831
Query: 165 --IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHI 213
+ ++ GL+ TE+ R+G+VDTAV+T++ GY+ RRLV+ ++ +
Sbjct: 832 GFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDL 882
Score = 38.7 bits (88), Expect = 0.47
Identities = 25/73 (34%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 1238 LEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVL 1295
L + + Y+ +LGIT+ L +S + ASF++TA L AA G+ D + G+ E +++
Sbjct: 1291 LSDLMTYKGEVLGITRFGLAKMKESVLMLASFEKTADHLFDAAYFGQKDSVCGVSECIIM 1350
Query: 1296 GGIIPVGTGFKKI 1308
G + +GTG K+
Sbjct: 1351 GIPMNIGTGLFKL 1363
>sp|P36594|RPB1_SCHPO DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RNA POLYMERASE II
SUBUNIT 1)
pir||S26849 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - fission
yeast (Schizosaccharomyces pombe)
emb|CAA39916.1| (X56564) RNA polymerase II large subunit [Schizosaccharomyces
pombe]
emb|CAB57941.1| (AL121795) DNA-directed RNA polymerase II largest subunit
[Schizosaccharomyces pombe]
Length = 1752
Score = 50.0 bits (117), Expect = 2e-04
Identities = 28/94 (29%), Positives = 52/94 (54%), Gaps = 2/94 (2%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
I+++ GL+ E+ R+G++DTAV+T++ GY+ RRLV+ ++ ++VR GTVR
Sbjct: 806 IENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYD--GTVR 863
Query: 225 GISVNTRNRMMSERILIQTLIGRVLADDIYIGSR 258
+ E L TL+ + D + + ++
Sbjct: 864 NAMGDIIQFAYGEDGLDATLVEYQVFDSLRLSTK 897
Score = 47.6 bits (111), Expect = 0.001
Identities = 48/222 (21%), Positives = 86/222 (38%), Gaps = 52/222 (23%)
Query: 1100 LYEGDILVTFIYEKSRSGDITQGLPKVEQV--LEVRSIDSISMNLEKRIDAWNERITGIL 1157
+ E D+ + I +G+P + +V +E + + I +R D W GI
Sbjct: 1259 MIEEDVFLKTIEGHMLESISLRGVPNITRVYMMEHKIVRQIEDGTFERADEWVLETDGIN 1318
Query: 1158 GIPWRFLIGAELT---------------IAQSRISLVNKIQRVYRSQGVHIHNRHIEIIV 1202
+ G + T I +R +L+ +++ V G +++ RH+ ++
Sbjct: 1319 LTEAMTVEGVDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLC 1378
Query: 1203 RQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRALEESICYRTLLLGITKTSLNTQSFI 1262
+TS+ G L+ + R GI + +
Sbjct: 1379 DVMTSR--------------GHLMAITRH------------------GINRAETGA---L 1403
Query: 1263 SEASFQETARVLAKAALRGRIDWLKGLKENLVLGGIIPVGTG 1304
SF+ET +L AA G D KG+ EN++LG + P+GTG
Sbjct: 1404 MRCSFEETVEILMDAAASGEKDDCKGISENIMLGQLAPMGTG 1445
Score = 45.7 bits (106), Expect = 0.004
Identities = 21/33 (63%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+V GE VG +A QSIGEP TQ+TL TFH GV
Sbjct: 1060 VVSPGEMVGTLAAQSIGEPATQMTLNTFHYAGV 1092
>gb|AAF26622.1|AF138972_1 (AF138972) RNA polymerase II largest subunit [Semibalanus
balanoides]
Length = 256
Score = 49.6 bits (116), Expect = 2e-04
Identities = 34/99 (34%), Positives = 48/99 (48%), Gaps = 16/99 (16%)
Query: 257 SRCIVVRNQDIGIGLINRFINFQTQPIF---IRTPFTCRNTSWICRLCYGR--------- 304
SRC+VVR +D +++ N +F +R+ R + RL
Sbjct: 26 SRCVVVRGED----RLSKTANANATILFSCLVRSTLCTRRVAEEYRLSSEAFEWLIGEID 81
Query: 305 SPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ H +V GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 82 TRFHQAMVNPGEMVGALAAQSLGEPATQMTLNTFHFAGV 120
>gb|AAB51212.1| (U73456) large subunit RNA polymerase II [Teratorhabditis palmarum]
Length = 631
Score = 49.6 bits (116), Expect = 2e-04
Identities = 21/60 (35%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 28 VENSYLAGLTAAEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 85
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 285 IAQPGEMVGALAAQSLGEPATQMTLNTFHFAGV 317
>sp|O94666|RPC1_SCHPO DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
pir||T40607 probable dna-directed rna polymerase iii largest subunit - fission
yeast (Schizosaccharomyces pombe)
emb|CAB37604.1| (AL035570) putative dna-directed rna polymerase iii largest subunit
[Schizosaccharomyces pombe]
Length = 1405
Score = 49.2 bits (115), Expect = 3e-04
Identities = 23/32 (71%), Positives = 25/32 (77%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
VE G AVG I QSIGEPGTQ+TL+TFH GV
Sbjct: 1041 VEPGTAVGAIGAQSIGEPGTQMTLKTFHFAGV 1072
Score = 47.3 bits (110), Expect = 0.001
Identities = 33/110 (30%), Positives = 58/110 (52%), Gaps = 20/110 (18%)
Query: 124 PFNPVHIMSFSGARGNASQVHQLVGMRG--LMSD---PQG-QMIDLP------------- 164
P N IM+ G++G+ V Q+V G ++S P G Q LP
Sbjct: 767 PANSPLIMATCGSKGSKINVSQMVACVGQQIISGKRVPDGFQDRSLPHFHKNSKHPLAKG 826
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHI 213
+ ++ GL+ TE++ R+G+VDTAV+T++ GY++RRL++ ++ +
Sbjct: 827 FVSNSFYSGLTPTEFLFHAISGREGLVDTAVKTAETGYMSRRLMKSLEDL 876
Score = 43.8 bits (101), Expect = 0.014
Identities = 37/151 (24%), Positives = 66/151 (43%), Gaps = 35/151 (23%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R S++++I G+ + RHI ++ +T K GE++G+
Sbjct: 1272 LGIEAARYSIISEIGYTMAKHGLTVDPRHIMLLGDVMTCK--------------GEVLGI 1317
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
R G+ K S ++ ASF++T L AA R D ++G
Sbjct: 1318 TR------------------FGVAKMK---DSVLALASFEKTTDHLFNAAARFAKDSIEG 1356
Query: 1289 LKENLVLGGIIPVGTGFKKIGDRSSARQDTK 1319
+ E +VLG + P+GT ++ R+ ++ K
Sbjct: 1357 ISECIVLGKLAPIGTNVFQLIRRTEEEEEQK 1387
>gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acanthamoeba
castellanii]
Length = 1569
Score = 49.2 bits (115), Expect = 3e-04
Identities = 46/234 (19%), Positives = 96/234 (40%), Gaps = 28/234 (11%)
Query: 11 NKVIGGTAIKRIISRLIDHFGMAYTSHILDQVKTLGFRQATTTSISLGIDDLL----TIP 66
NK GT+ K ++ + + G H L+QV+ + S+G+ D + T+
Sbjct: 547 NKKTLGTSHKSLVHVIWNEHGSEVCKHFLNQVQHVVNYWLLHHGFSVGVGDTIADEETLA 606
Query: 67 SKGWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYATSEYLRQEMNP-------NF 119
++ A+ + + G + + ++ L + + +
Sbjct: 607 KITQTIRKAKDEVKERQLEAQQGQLERQPGRTMMESFEFVINQILNKARDDAGNSAQKSL 666
Query: 120 SMTDPFNPVHIMSFSGARGNASQVHQLVGMRGL-----------------MSDPQGQMID 162
++ F + I G+ N SQV VG + + + D G
Sbjct: 667 RRSNNFKAMVIAGSKGSAINISQVLACVGQQNVEGKRIPFCFRDRTLPHFVKDDFGPESR 726
Query: 163 LPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRLV+ ++ ++V+
Sbjct: 727 GFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDVMVK 780
Score = 48.4 bits (113), Expect = 6e-04
Identities = 26/69 (37%), Positives = 41/69 (58%), Gaps = 2/69 (2%)
Query: 1238 LEESICYRTLLLGITKTSLNT--QSFISEASFQETARVLAKAALRGRIDWLKGLKENLVL 1295
L + + YR L+ IT+ +N + SF+ETA +L +AA +D L G+ EN++L
Sbjct: 1304 LADVMTYRGHLMAITRHGINRVETGCLMRCSFEETADILLEAATFSELDPLSGVSENILL 1363
Query: 1296 GGIIPVGTG 1304
G + P+GTG
Sbjct: 1364 GQLPPLGTG 1372
Score = 45.7 bits (106), Expect = 0.004
Identities = 20/34 (58%), Positives = 25/34 (72%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+L + GE +G +A QSIGEP TQ+TL TFH GV
Sbjct: 986 SLCDPGEMIGALAAQSIGEPATQMTLNTFHFAGV 1019
>gb|AAB51213.1| (U73448) large subunit RNA polymerase II [unidentified nematode]
Length = 633
Score = 49.2 bits (115), Expect = 3e-04
Identities = 21/60 (35%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 28 VENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 85
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 285 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 317
>gb|AAB40621.1| (U61762) RNA polymerase II large subunit [Aduncospiculum halicti]
Length = 631
Score = 49.2 bits (115), Expect = 3e-04
Identities = 22/60 (36%), Positives = 41/60 (67%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+T++AGY+ RRL++ ++ ++V GTVR
Sbjct: 28 VENSYLAGLTPAEFFFHAMGGREGLIDTAVKTAEAGYIQRRLIKAMESVMVCYD--GTVR 85
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 285 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 317
>gb|AAC83397.1| (U10331) RNA polymerase II, largest subunit [Artemia salina]
Length = 1341
Score = 49.2 bits (115), Expect = 3e-04
Identities = 36/125 (28%), Positives = 64/125 (50%), Gaps = 23/125 (18%)
Query: 120 SMTDPFNPVHIMSFSGARG---NASQVHQLVGMRGL-----------------MSDPQGQ 159
S+T+ +N + M SG++G N SQV VG + + + D G
Sbjct: 671 SLTE-YNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPFGFRKRTLPHFIKDDYGP 729
Query: 160 MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTD 219
++++ GL+ +E+ G R+G++DTAV+T++ GY+ RRL++ ++ +V
Sbjct: 730 ESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMEACMVAYD- 788
Query: 220 CGTVR 224
GTVR
Sbjct: 789 -GTVR 792
Score = 44.9 bits (104), Expect = 0.006
Identities = 20/29 (68%), Positives = 22/29 (74%)
Query: 315 GEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
GE VG IA QS+GEP TQ+TL TFH GV
Sbjct: 996 GEMVGAIAAQSLGEPATQMTLNTFHFAGV 1024
>gi|11430046 DKFZP586M0122 protein [Homo sapiens]
Length = 601
Score = 48.8 bits (114), Expect = 4e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+L E GEAVG++A QSIGEP TQ+TL TFH G
Sbjct: 84 SLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAG 116
>gb|AAF36438.1|AF126254_1 (AF126254) RNA polymerase II largest subunit [Leishmania donovani]
Length = 1595
Score = 48.8 bits (114), Expect = 4e-04
Identities = 35/139 (25%), Positives = 62/139 (44%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R L+++++ Y + G++I+ RH I+V
Sbjct: 1339 LGIEAARRKLLSELREAYLAYGLNINYRHYTILV-------------------------- 1372
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
+++C R L+ +++T +N T + SF+ET +VL AA G D
Sbjct: 1373 -----------DTMCQRGYLMAVSRTGINRSETSGPLMRCSFEETVKVLMTAAAFGEKDP 1421
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ +LVLG +GTG
Sbjct: 1422 VRGVSASLVLGNQARIGTG 1440
Score = 46.1 bits (107), Expect = 0.003
Identities = 20/40 (50%), Positives = 26/40 (65%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ +L+ GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1048 RTKYQESLITPGEIIGAIAAQSCGEPATQMTLNTFHNAGI 1087
Score = 45.3 bits (105), Expect = 0.005
Identities = 24/54 (44%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+LV+ ++ V + GTVR
Sbjct: 785 EGLQPHEFYFHTMAGREGLIDTAVKTSDTGYLQRKLVKALED--VHASYDGTVR 836
>gb|AAD09356.1| (U33823) DNA-directed RNA polymerase I largest subunit [Homo
sapiens]
Length = 441
Score = 48.8 bits (114), Expect = 4e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+L E GEAVG++A QSIGEP TQ+TL TFH G
Sbjct: 271 SLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAG 303
Score = 40.2 bits (92), Expect = 0.16
Identities = 17/45 (37%), Positives = 30/45 (65%)
Query: 172 GLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
G+ E+ C R+G+VDTAV+TS + YL R +++ ++ +VV+
Sbjct: 25 GIKPPEFFFHCMAGREGLVDTAVKTSRSAYLQRCIIKHLEGLVVQ 69
>gi|7661686 DKFZP586M0122 protein [Homo sapiens]
sp|O95602|RPA1_HUMAN DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT (RNA POLYMERASE I 194
KDA SUBUNIT) (RPA194)
gb|AAC99959.1| (U33460) DNA-directed RNA polymerase I, largest subunit [Homo
sapiens]
Length = 1717
Score = 48.8 bits (114), Expect = 4e-04
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGG 342
+L E GEAVG++A QSIGEP TQ+TL TFH G
Sbjct: 1204 SLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAG 1236
Score = 45.3 bits (105), Expect = 0.005
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 20/113 (17%)
Query: 124 PFNPVHIMSFSGARG---NASQVHQLVG---MRGLMSDPQGQMIDLP------------- 164
P N + +M SGA+G N Q+ L+G + G + LP
Sbjct: 890 PENTLQLMVQSGAKGSTVNTMQISCLLGQIELEGRSTPLMASGKSLPCFEPYEFTPRAGG 949
Query: 165 -IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVR 216
+ G+ E+ C R+G+VDTAV+TS +GYL R +++ ++ +VV+
Sbjct: 950 FVTGRFLTGIKPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVVQ 1002
>gb|AAB51211.1| (U73454) large subunit RNA polymerase II [Mesorhabditis sp.]
Length = 633
Score = 48.8 bits (114), Expect = 4e-04
Identities = 21/60 (35%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 28 VENSYLAGLTPAEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 85
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 285 IAQPGEMVGALAAQSLGEPATQMTLNTFHFAGV 317
>gb|AAB51210.1| (U73451) large subunit RNA polymerase II [Cruznema tripartitum]
Length = 633
Score = 48.8 bits (114), Expect = 4e-04
Identities = 21/60 (35%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 28 VENSYLAGLTPAEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 85
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 285 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 317
>gb|AAB40622.1| (U61763) RNA polymerase II large subunit [Zeldia punctata]
Length = 629
Score = 48.8 bits (114), Expect = 4e-04
Identities = 21/60 (35%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRL++ ++ ++V GTVR
Sbjct: 25 VENSYLAGLTPAEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYD--GTVR 82
Score = 44.5 bits (103), Expect = 0.008
Identities = 19/33 (57%), Positives = 24/33 (72%)
Query: 311 LVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+ + GE VG +A QS+GEP TQ+TL TFH GV
Sbjct: 282 IAQPGEMVGALAAQSLGEPATQMTLNTFHYAGV 314
>pir||T43260 RNA polymerase (EC 2.7.7.-) II - Trichomonas vaginalis
gb|AAB50025.1| (U20501) RNA polymerase II [Trichomonas vaginalis]
Length = 1661
Score = 48.8 bits (114), Expect = 4e-04
Identities = 22/34 (64%), Positives = 26/34 (75%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
++V GE VG IAGQSIGEP TQ+TL TFH G+
Sbjct: 1076 SIVAPGEMVGTIAGQSIGEPSTQMTLNTFHFAGI 1109
Score = 44.5 bits (103), Expect = 0.008
Identities = 25/66 (37%), Positives = 40/66 (59%), Gaps = 10/66 (15%)
Query: 172 GLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQ--HIVVRRTDCGTVRGISVN 229
GL+ E++ G R G++DTA +TSD GY+ RRLV+ ++ H+ GTVR N
Sbjct: 825 GLTPPEFLFHAMGGRTGIIDTACKTSDTGYIQRRLVKSMESHHVAYD----GTVR----N 876
Query: 230 TRNRMM 235
++N ++
Sbjct: 877 SQNEIV 882
>pir||S04198 DNA-directed RNA polymerase (EC 2.7.7.6) II large chain - Crithidia
fasciculata (fragments)
Length = 451
Score = 48.8 bits (114), Expect = 4e-04
Identities = 36/130 (27%), Positives = 64/130 (48%), Gaps = 14/130 (10%)
Query: 1178 LVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGLLRAQRTGRA 1237
LV ++ V+ + + N + E+I ++ EDG+ G + R+
Sbjct: 111 LVKALEDVHAAYDGTVRNANQELI------QLAYGEDGLDGARIEGN-----QTFRSYTI 159
Query: 1238 LEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDWLKGLKENLV 1294
L +++ R L+ +++T +N T + +SF+ET +VL AA G D ++G+ NLV
Sbjct: 160 LVDTMLPRGYLMAVSRTGINRSETSGPLMRSSFEETVKVLMTAAAFGEKDPVRGVSANLV 219
Query: 1295 LGGIIPVGTG 1304
LG +GTG
Sbjct: 220 LGNQARIGTG 229
Score = 43.8 bits (101), Expect = 0.014
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+T+D GYL R+LV+ ++ V GTVR
Sbjct: 76 EGLQPHEFYFHTMAGREGLIDTAVKTADTGYLQRKLVKALED--VHAAYDGTVR 127
>gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Trypanosoma brucei]
Length = 1765
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1364 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1397
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1398 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1446
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1447 VRGVSANLVLGNQARVGTG 1465
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1070 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1109
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 808 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 859
>gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Trypanosoma brucei]
Length = 1765
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1364 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1397
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1398 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1446
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1447 VRGVSANLVLGNQARVGTG 1465
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1070 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1109
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 808 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 859
>pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypanosoma brucei
Length = 1765
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1364 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1397
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1398 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1446
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1447 VRGVSANLVLGNQARVGTG 1465
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1070 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1109
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 808 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 859
>pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypanosoma brucei
Length = 1765
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1364 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1397
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1398 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1446
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1447 VRGVSANLVLGNQARVGTG 1465
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1070 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1109
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 808 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 859
>sp|P09846|RPA1_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
pir||S02196 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Methanobacterium
thermoautotrophicum (strain Winter)
emb|CAA30838.1| (X08038) RNA polymerase subunit A? (AA 1-865) [Methanobacterium
thermoautotrophicum]
Length = 865
Score = 48.4 bits (113), Expect = 6e-04
Identities = 40/129 (31%), Positives = 62/129 (48%), Gaps = 29/129 (22%)
Query: 126 NPVHIMSFSGARGNASQVHQLVGMRGLMSDPQGQMI------DLP--------------I 165
N IM+ +GARG + Q+ G S G++ LP +
Sbjct: 711 NHAVIMALTGARGAMLNLTQITACVGQQSVHGGRITRGYDNRTLPHFKKGELGAKSRGFV 770
Query: 166 QSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTV-- 223
S+ +E L E++ G R+G+VDTA+RT+ +GY+ RRLV +Q + V + G V
Sbjct: 771 HSSYKEDSILLEFM----GGREGLVDTAIRTAQSGYMQRRLVNALQDLTV--DENGRVVD 824
Query: 224 -RGISVNTR 231
RG+ + TR
Sbjct: 825 NRGVIIQTR 833
>sp|P17546|RPB2_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
pir||A31875 DNA-directed RNA polymerase (EC 2.7.7.6) 1 - Trypanosoma brucei
emb|CAA31846.1| (X13491) RNA polymerase II largest subunit [Trypanosoma brucei]
Length = 1766
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1365 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1398
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1399 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1447
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1448 VRGVSANLVLGNQARVGTG 1466
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1071 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1110
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 809 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 860
>sp|P17545|RPB1_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
pir||B31875 DNA-directed RNA polymerase (EC 2.7.7.6) 2 - Trypanosoma brucei
emb|CAA31847.1| (X13492) RNA polymerase II largest subunit [Trypanosoma brucei]
Length = 1766
Score = 48.4 bits (113), Expect = 6e-04
Identities = 35/139 (25%), Positives = 60/139 (42%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++ +++ Y + G++I+ RH I+V
Sbjct: 1365 LGIEAARSKMLTELREAYLAYGLNINYRHYTILV-------------------------- 1398
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
++IC L+ ++++ +N T + SF+ET +VL AA G D
Sbjct: 1399 -----------DTICQHGYLMAVSRSGINRSDTSGPLMRCSFEETVKVLMAAASFGECDP 1447
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ NLVLG VGTG
Sbjct: 1448 VRGVSANLVLGNQARVGTG 1466
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/40 (52%), Positives = 26/40 (64%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ H +L GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1071 RTKYHQSLTTPGENIGAIAAQSCGEPATQMTLNTFHNAGI 1110
Score = 44.9 bits (104), Expect = 0.006
Identities = 23/54 (42%), Positives = 33/54 (60%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+L++ ++ V GTVR
Sbjct: 809 EGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALED--VHAAYDGTVR 860
>gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leishmania major]
Length = 1663
Score = 48.0 bits (112), Expect = 7e-04
Identities = 34/139 (24%), Positives = 62/139 (44%), Gaps = 40/139 (28%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R ++++++ Y + G++I+ RH I+V
Sbjct: 1339 LGIEAARRKMLSELREAYLAYGLNINYRHYTILV-------------------------- 1372
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLN---TQSFISEASFQETARVLAKAALRGRIDW 1285
+++C R L+ +++T +N T + SF+ET +VL AA G D
Sbjct: 1373 -----------DTMCQRGYLMAVSRTGINRSETSGPLMRCSFEETVKVLMTAAAFGEKDP 1421
Query: 1286 LKGLKENLVLGGIIPVGTG 1304
++G+ +LVLG +GTG
Sbjct: 1422 VRGVSASLVLGNQARIGTG 1440
Score = 46.1 bits (107), Expect = 0.003
Identities = 20/40 (50%), Positives = 26/40 (65%)
Query: 304 RSPIHGNLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
R+ +L+ GE +G IA QS GEP TQ+TL TFH G+
Sbjct: 1048 RTKYQQSLITPGEIIGAIAAQSCGEPATQMTLNTFHNAGI 1087
Score = 45.3 bits (105), Expect = 0.005
Identities = 24/54 (44%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 171 EGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTVR 224
EGL E+ R+G++DTAV+TSD GYL R+LV+ ++ V + GTVR
Sbjct: 786 EGLQPHEFYFHTMAGREGLIDTAVKTSDTGYLQRKLVKALED--VHASYDGTVR 837
>gi|6320061 RNA polymerase II large subunit; Rpo21p [Saccharomyces cerevisiae]
sp|P04050|RPB1_YEAST DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (B220)
pir||RNBY2L DNA-directed RNA polymerase (EC 2.7.7.6) II 215K chain - yeast
(Saccharomyces cerevisiae)
emb|CAA65619.1| (X96876) RPB1 [Saccharomyces cerevisiae]
emb|CAA98713.1| (Z74188) ORF YDL140c [Saccharomyces cerevisiae]
Length = 1733
Score = 48.0 bits (112), Expect = 7e-04
Identities = 19/51 (37%), Positives = 36/51 (70%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRLV+ ++ I+V
Sbjct: 800 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMV 850
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/34 (61%), Positives = 26/34 (75%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
++V GE VG++A QSIGEP TQ+TL TFH GV
Sbjct: 1056 SVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGV 1089
Score = 45.7 bits (106), Expect = 0.004
Identities = 32/136 (23%), Positives = 58/136 (42%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R +L ++ V S G +++ RH+ ++V V+ ++ G+++V G
Sbjct: 1339 LGIEAGRAALYKEVYNVIASDGSYVNYRHMALLV-----DVMTTQGGLTSVTRHG----- 1388
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
TG + SF+ET +L +A +D +G
Sbjct: 1389 FNRSNTGALMR-------------------------CSFEETVEILFEAGASAELDDCRG 1423
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN++LG + P+GTG
Sbjct: 1424 VSENVILGQMAPIGTG 1439
>emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit [Saccharomyces
cerevisiae]
Length = 1726
Score = 48.0 bits (112), Expect = 7e-04
Identities = 19/51 (37%), Positives = 36/51 (70%)
Query: 165 IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVV 215
++++ GL+ E+ G R+G++DTAV+T++ GY+ RRLV+ ++ I+V
Sbjct: 800 VENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMV 850
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/34 (61%), Positives = 26/34 (75%)
Query: 310 NLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
++V GE VG++A QSIGEP TQ+TL TFH GV
Sbjct: 1056 SVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGV 1089
Score = 45.7 bits (106), Expect = 0.004
Identities = 32/136 (23%), Positives = 58/136 (42%), Gaps = 35/136 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I R +L ++ V S G +++ RH+ ++V V+ ++ G+++V G
Sbjct: 1339 LGIEAGRAALYKEVYNVIASDGSYVNYRHMALLV-----DVMTTQGGLTSVTRHG----- 1388
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
TG + SF+ET +L +A +D +G
Sbjct: 1389 FNRSNTGALMR-------------------------CSFEETVEILFEAGASAELDDCRG 1423
Query: 1289 LKENLVLGGIIPVGTG 1304
+ EN++LG + P+GTG
Sbjct: 1424 VSENVILGQMAPIGTG 1439
>gi|11431655 polymerase (RNA) III (DNA directed) (155kD) [Homo sapiens]
Length = 539
Score = 47.6 bits (111), Expect = 0.001
Identities = 21/32 (65%), Positives = 25/32 (77%)
Query: 312 VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGV 343
+E G AVG + QSIGEPGTQ+TL+TFH GV
Sbjct: 176 MEPGSAVGALCAQSIGEPGTQMTLKTFHFAGV 207
Score = 38.3 bits (87), Expect = 0.62
Identities = 34/140 (24%), Positives = 63/140 (44%), Gaps = 35/140 (25%)
Query: 1169 LTIAQSRISLVNKIQRVYRSQGVHIHNRHIEIIVRQITSKVLVSEDGMSNVFSPGELIGL 1228
L I +R +++N+IQ + G+ I RH+ ++ +T K GE +G+
Sbjct: 407 LGIEAARTTIINEIQYTMVNHGMSIDRRHVMLLSDLMTYK--------------GEGLGI 452
Query: 1229 LRAQRTGRALEESICYRTLLLGITKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG 1288
R G++K + +S + F++TA L AA G+ D + G
Sbjct: 453 TR------------------FGLSKMN---ESVLMLTCFEKTADHLFDAAYLGQKDSVCG 491
Query: 1289 LKENLVLGGIIPVGTGFKKI 1308
+ E +++G + +GTG K+
Sbjct: 492 VSECIIMGIPMNIGTGLFKL 511
Score = 36.0 bits (81), Expect = 3.1
Identities = 14/28 (50%), Positives = 24/28 (85%)
Query: 186 RKGVVDTAVRTSDAGYLTRRLVEVVQHI 213
R+G+VDTAV+T++ GY+ RRLV+ ++ +
Sbjct: 4 REGLVDTAVKTAETGYMQRRLVKSLEDL 31
Database: nr
Posted date: Mar 14, 2001 1:25 PM
Number of letters in database: 201,912,487
Number of sequences in database: 640,428
Lambda K H
0.321 0.138 0.403
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 520671143
Number of Sequences: 640428
Number of extensions: 22420371
Number of successful extensions: 58037
Number of sequences better than 10.0: 328
Number of HSP's better than 10.0 without gapping: 312
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 56640
Number of HSP's gapped (non-prelim): 962
length of query: 1332
length of database: 201,912,487
effective HSP length: 59
effective length of query: 1273
effective length of database: 164,127,235
effective search space: 208933970155
effective search space used: 208933970155
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.9 bits)
S2: 77 (34.4 bits)
Lotus japonicus(Cp)