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= BAB33195.1 682 aa
(682 letters)
Database: nr
640,428 sequences; 201,912,487 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gi|11465945 RNA polymerase beta' subunit [Nicotiana tabacum] >gi... 1259 0.0
gi|11497515 RNA polymerase beta' subunit [Spinacia oleracea] >gi... 1252 0.0
gi|7525024 RNA polymerase beta' subunit-1 [Arabidopsis thaliana]... 1245 0.0
sp|P12116|RPOC_TOBAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN 1237 0.0
sp|P46819|RPOC_SINAL DNA-DIRECTED RNA POLYMERASE BETA' CHAIN >gi... 1225 0.0
emb|CAB67152.1| (AJ271079) RNA polymerase beta' subunit [Oenothe... 1204 0.0
gi|11467183 RNA polymerase beta' subunit 1 [Zea mays] >gi|133431... 1074 0.0
dbj|BAA78041.1| (AB027572) RNA polymerase subunit beta [Triticum... 1070 0.0
gi|11466778 RNA polymerase beta' subunit-1 [Oryza sativa] >gi|13... 1068 0.0
prf||1211235Q rpoC-like ORF 548 [Nicotiana tabacum] 961 0.0
pir||A05032 rpoC protein homolog rpoC - common tobacco chloroplast 961 0.0
gi|11466680 rpoC1 [Marchantia polymorpha] >gi|133432|sp|P06273|R... 927 0.0
gi|7524614 RNA polymerase beta' subunit [Pinus thunbergii] >gi|1... 910 0.0
gi|11466381 beta' subunit of RNA polymerase [Mesostigma viride] ... 580 e-164
sp|P22704|RPOC_ANASP DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 561 e-158
gi|11465717 DNA-directed RNA polymerase beta' chain [Porphyra pu... 555 e-157
gi|11467689 RNA polymerase b'-chain [Guillardia theta] >gi|60941... 554 e-156
gi|11467372 gamma subunit of RNA polymerase [Cyanophora paradoxa... 552 e-156
sp|P74177|RPOC_SYNY3 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 545 e-154
gi|11465576 unknown; DNA-directed RNA polymerase beta' chain [Cy... 533 e-150
gi|11467789 beta' subunit of RNA polymerase [Nephroselmis olivac... 523 e-147
sp|P14563|RPOC_NOSCO DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 502 e-141
sp|Q9ZE20|RPOC_RICPR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 495 e-139
sp|Q9Z9M1|RPOC_BACHD DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 492 e-138
sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 492 e-138
sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 492 e-138
pir||T09645 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 491 e-137
pir||T09641 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 491 e-137
sp|P43739|RPOC_HAEIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 489 e-137
pir||G82336 DNA-directed RNA polymerase, beta' chain VC0329 [imp... 488 e-137
pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subti... 488 e-136
sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 488 e-136
gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus s... 488 e-136
sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 486 e-136
emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus a... 485 e-135
gb|AAK03820.1| (AE006210) RpoC [Pasteurella multocida] 484 e-135
sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 484 e-135
pir||T10908 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 483 e-135
sp|P77839|RPOC_BROTH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 482 e-135
emb|CAA70579.1| (Y09428) DNA directed RNA polymerase beta' chain... 481 e-134
emb|CAA61515.1| (X89231) DNA-directed RNA polymerase [Brochothri... 481 e-134
gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subun... 480 e-134
prf||0808241A polymerase beta',RNA [Escherichia coli] 480 e-134
sp|P00577|RPOC_ECOLI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 480 e-134
gb|AAF33515.1| (AF170176) 99% identity over 1407 amino acids wit... 479 e-134
sp|P57145|RPOC_BUCAI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 477 e-133
prf||1008145A polymerase beta',RNA [Escherichia coli] 474 e-132
pir||G83112 DNA-directed RNA polymerase beta* chain PA4269 [impo... 473 e-132
pir||C82007 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 473 e-132
pir||F81233 DNA-directed RNA polymerase, beta' chain NMB0133 [im... 473 e-132
dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanel... 467 e-130
pir||D82533 RNA polymerase beta' subunit XF2632 [imported] - Xyl... 467 e-130
gb|AAK05897.1|AE006409_7 (AE006409) DNA-directed RNA polymerase ... 466 e-130
sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 458 e-128
pir||T10432 DNA-directed RNA polymerase (EC 2.7.7.6) - Pediococc... 457 e-127
pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core ... 456 e-127
sp|O83270|RPOC_TREPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 448 e-124
gb|AAB00973.1| (L24376) RNA polymerase beta'-subunit [Bacillus s... 448 e-124
sp|Q9PI30|RPOC_CAMJE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 446 e-124
sp|Q9Z999|RPOC_CHLPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 443 e-123
pir||E81548 DNA-directed RNA polymerase, beta' chain CP0693 [imp... 443 e-123
pir||E72122 RNA polymerase beta' - Chlamydophila pneumoniae (str... 443 e-123
pir||B71846 dna-directed RNA polymerase, beta chain - Helicobact... 443 e-123
pir||F64669 DNA-directed RNA polymerase, beta subunit - Helicoba... 443 e-123
sp|O84316|RPOC_CHLTR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 441 e-122
sp|O51349|RPOC_BORBU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 441 e-122
prf||1605164A RNA polymerase beta' [Pseudomonas putida] 441 e-122
pir||F81686 DNA-directed RNA polymerase, beta' chain TC0588 [imp... 440 e-122
sp|P19176|RPOC_PSEPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 437 e-121
emb|CAC10564.1| (Y16470) DNA-dependent RNA polymerase subunit be... 427 e-118
sp|P95405|RPOC_OENOE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 406 e-112
sp|P95816|RPOC_STRPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 400 e-110
gb|AAA25987.1| (M38319) RNA polymerase (rpoC) (EC 2.7.7.6) [Pseu... 400 e-110
pir||JN0420 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 400 e-110
sp|P96178|RPOC_WEIPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 399 e-110
sp|P96177|RPOC_WEIHE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 398 e-109
emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconost... 398 e-109
sp|P94892|RPOC_LEUME DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 397 e-109
sp|P94899|RPOC_LEUPS DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 396 e-109
gi|11467567 RNA polymerase beta'-chain [Odontella sinensis] >gi|... 390 e-107
gi|11467043 RNA polymerase subunit [Euglena gracilis] >gi|133428... 377 e-103
sp|O33431|RPOC_PORCN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 372 e-102
gb|AAK00446.1|AC060755_16 (AC060755) putative RNA polymerase sub... 370 e-101
prf||0805230A rpoC gene EcoRID fragment [Escherichia coli] 369 e-101
gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli] 369 e-101
sp|P75271|RPOC_MYCPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 362 9e-99
gi|12045199 DNA-directed RNA polymerase, subunit beta' (rpoC) [M... 361 1e-98
emb|CAC30844.1| (AL583923) [beta]' subunit of RNA polymerase [My... 357 3e-97
sp|P30761|RPOC_MYCLE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 357 3e-97
sp|P47769|RPOC_MYCTU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 356 4e-97
emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' cha... 355 8e-97
emb|CAB65466.3| (Y19223) RNA polymerase, beta-prime subunit [The... 354 2e-96
sp|Q9X6Y2|RPOC_AQUPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 351 2e-95
sp|O67763|RPOC_AQUAE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 349 8e-95
pir||F75461 DNA-directed RNA polymerase, beta' subunit - Deinoco... 341 1e-92
sp|P36252|RPOC_THEMA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 335 1e-90
gi|12545457 RNA polymerase subunit [Astasia longa] >gi|12329921|... 333 3e-90
gi|7524892 RNA polymerase gamma subunit [Chlorella vulgaris] >gi... 305 1e-81
pir||D82923 DNA-directed RNA polymerase beta' chain UU188 [impor... 300 3e-80
gi|11496557 RNA polymerase C1 [Toxoplasma gondii] >gi|5231260|gb... 296 7e-79
pir||A05033 rpoC protein homolog - common tobacco chloroplast >g... 282 9e-75
emb|CAB56763.1| (AJ012558) RNA polymerase [Allium cepa] 265 1e-69
emb|CAB56766.1| (AJ012559) RNA polymerase [Arabidopsis thaliana] 257 4e-67
emb|CAB56767.1| (AJ012564) RNA polymerase [Arabidopsis thaliana] 251 2e-65
sp|P21422|RPOC_PLAFA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN >gi... 246 8e-64
emb|CAB56764.1| (AJ012563) RNA polymerase [Allium cepa] 232 1e-59
gi|11466501 RNA polymerase subunit beta' [Reclinomonas americana... 231 3e-59
pir||S10439 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 229 8e-59
gb|AAC63551.1| (AF031457) RNA polymerase C1 [Gossypium arboreum]... 207 4e-52
pir||S48843 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 205 2e-51
emb|CAB56784.1| (AJ012560) RNA polymerase [Ginkgo biloba] 185 1e-45
emb|CAB56813.1| (AJ012562) RNA polymerase [Zamia floridana] 185 2e-45
gi|11499472 DNA-directed RNA polymerase, subunit A' (rpoA1) [Arc... 180 6e-44
emb|CAB56785.1| (AJ012566) RNA polymerase [Ginkgo biloba] 176 1e-42
emb|CAB56778.1| (AJ012565) RNA polymerase [Cycas revoluta] 170 4e-41
gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A;... 169 7e-41
sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 169 7e-41
pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - H... 166 8e-40
sp|P31813|RPA1_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 162 2e-38
pir||B75182 DNA-directed RNA polymerase, chain A' (rpoa1) PAB042... 157 4e-37
pir||H71031 probable DNA-directed RNA polymerase subunit A' - Py... 156 9e-37
sp|P11512|RPA1_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 154 3e-36
pir||T31436 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 154 4e-36
pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [va... 153 5e-36
sp|P41556|RPA1_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 151 2e-35
pir||D72571 probable DNA-directed RNA polymerase subunit A' APE1... 150 5e-35
gb|AAF24186.1| (AF159374) RpoC1 [Anabaenopsis circularis] 148 2e-34
dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [As... 146 6e-34
pir||S20583 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain... 146 6e-34
sp|P42075|RPOC_PROHO DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 146 8e-34
sp|Q03585|RPA1_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 146 1e-33
sp|O27125|RPA1_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 145 1e-33
gb|AAA97919.1| (U52343) DNA-dependent RNA polymerase [Synechococ... 145 2e-33
sp|P42074|RPOC_FISP4 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 144 3e-33
sp|P42077|RPOC_PROV1 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 144 3e-33
sp|P36594|RPB1_SCHPO DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 144 3e-33
sp|P42076|RPOC_PROMA DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 143 7e-33
gb|AAF24187.1| (AF159375) RpoC1 [Anabaena bergii] 143 9e-33
pir||T31435 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 142 1e-32
gb|AAA97918.1| (U52342) DNA-dependent RNA polymerase [Synechococ... 142 1e-32
sp|P42079|RPOC_SYNP7 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 142 1e-32
prf||1804349C DNA-dependent RNA polymerase [Prochlorothrix holla... 142 2e-32
gb|AAC45874.1| (AF013609) RNA polymerase subunit [Synechococcus ... 141 2e-32
prf||1804349B DNA-dependent RNA polymerase [Prochlorococcus sp.] 141 2e-32
prf||1804349A DNA-dependent RNA polymerase [Prochlorococcus sp.] 141 3e-32
gb|AAK00310.1|AF315820_1 (AF315820) DNA-dependent RNA polymerase... 141 3e-32
gi|6320061 RNA polymerase II large subunit; Rpo21p [Saccharomyce... 141 3e-32
gb|AAA97916.1| (U52340) DNA-dependent RNA polymerase [Gloeobacte... 141 3e-32
emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit ... 141 3e-32
gb|AAG48696.1|AF323594_1 (AF323594) DNA-dependent RNA polymerase... 140 5e-32
pir||T43026 probable DNA-directed RNA polymerase (EC 2.7.7.6) II... 140 5e-32
gb|AAA97922.1| (U52346) DNA-dependent RNA polymerase [Porphyra p... 140 5e-32
gb|AAA97920.1| (U52344) DNA-dependent RNA polymerase [Synechocys... 140 6e-32
gb|AAA97917.1| (U52341) DNA-dependent RNA polymerase [Dermocarpa... 140 6e-32
gb|AAC45872.1| (AF013607) RNA polymerase subunit [Synechococcus ... 139 8e-32
gb|AAF24183.1| (AF159371) RpoC1 [Cylindrospermopsis raciborskii] 139 1e-31
gb|AAC45875.1| (AF013610) RNA polymerase subunit [Synechococcus ... 138 2e-31
gb|AAF73275.1|AF154560_1 (AF154560) RNA polymerase subunit [Syne... 138 2e-31
gb|AAA92726.1| (L34062) RNA polymerase [Synechococcus sp.] 138 2e-31
gb|AAC45873.1| (AF013608) RNA polymerase subunit [Synechococcus ... 138 3e-31
sp|Q55085|RPOC_SYNP2 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 138 3e-31
sp|Q55348|RPOC_SYNPZ DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 138 3e-31
sp|P42078|RPOC_PROSC DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 138 3e-31
gb|AAF73276.1|AF154561_1 (AF154561) RNA polymerase subunit [Syne... 137 4e-31
gb|AAF24185.1| (AF159373) RpoC1 [Anabaena circinalis] 137 4e-31
gb|AAF19008.1|AF153335_1 (AF153335) RNA polymerase subunit [Syne... 137 4e-31
gb|AAC14137.1| (AF058710) RNA polymerase II largest subunit [Dic... 137 5e-31
pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest c... 135 2e-30
emb|CAA37130.1| (X52954) RNA polymerase II [Arabidopsis thaliana] 135 2e-30
pir||S59956 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 134 3e-30
sp|Q55346|RPOC_SYNPW DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN >gi... 134 3e-30
pir||T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 133 6e-30
prf||1804349D DNA-dependent RNA polymerase [Prochloron sp.] 133 6e-30
gb|AAF63343.1|AF245124_1 (AF245124) RNA polymerase subunit [Syne... 133 8e-30
gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acant... 132 1e-29
pir||T43217 RNA polymerase (EC 2.7.7.-) II, largest chain - Porp... 132 1e-29
gb|AAK00309.1|AF315819_1 (AF315819) DNA-dependent RNA polymerase... 132 1e-29
gb|AAF63355.1|AF245136_1 (AF245136) RNA polymerase subunit [Syne... 132 2e-29
sp|P09846|RPA1_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 132 2e-29
gb|AAK00313.1|AF315823_1 (AF315823) DNA-dependent RNA polymerase... 131 2e-29
gb|AAF63351.1|AF245132_1 (AF245132) RNA polymerase subunit [Syne... 131 3e-29
dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cric... 131 3e-29
gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus m... 131 3e-29
pir||I38186 RNA polymerase II largest subunit - human >gi|825713... 131 3e-29
sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 131 3e-29
gi|6677795 RNA polymerase II 1 [Mus musculus] >gi|90464|pir||A28... 131 3e-29
gi|4505939 polymerase (RNA) II (DNA directed) polypeptide A (220... 131 3e-29
gb|AAF63370.1|AF245151_1 (AF245151) RNA polymerase subunit [Syne... 131 4e-29
gb|AAF63360.1|AF245141_1 (AF245141) RNA polymerase subunit [Syne... 130 5e-29
gb|AAF63357.1|AF245138_1 (AF245138) RNA polymerase subunit [Syne... 130 5e-29
gb|AAF63347.1|AF245128_1 (AF245128) RNA polymerase subunit [Syne... 130 5e-29
gb|AAF63345.1|AF245126_1 (AF245126) RNA polymerase subunit [Syne... 130 5e-29
sp|P41185|RPOC_BUCAP DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 130 7e-29
gb|AAA24582.1| (M38293) RNA polymerase beta subunit (rpoC) (gtg ... 130 7e-29
gb|AAF63367.1|AF245148_1 (AF245148) RNA polymerase subunit [Syne... 129 1e-28
gb|AAF63354.1|AF245135_1 (AF245135) RNA polymerase subunit [Syne... 129 1e-28
sp|P18616|RPB1_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 129 1e-28
gb|AAA21417.1| (L27989) RNA polymerase beta'-subunit [Mycobacter... 129 1e-28
gb|AAF63364.1|AF245145_1 (AF245145) RNA polymerase subunit [Syne... 128 2e-28
gb|AAF63363.1|AF245144_1 (AF245144) RNA polymerase subunit [Syne... 128 2e-28
gb|AAF63359.1|AF245140_1 (AF245140) RNA polymerase subunit [Syne... 128 2e-28
gb|AAF63356.1|AF245137_1 (AF245137) RNA polymerase subunit [Syne... 128 2e-28
gb|AAF63349.1|AF245130_1 (AF245130) RNA polymerase subunit [Syne... 128 2e-28
gb|AAK00312.1|AF315822_1 (AF315822) DNA-dependent RNA polymerase... 128 3e-28
gb|AAF63378.1|AF245159_1 (AF245159) RNA polymerase subunit [Syne... 128 3e-28
gb|AAF63376.1|AF245157_1 (AF245157) RNA polymerase subunit [Syne... 127 3e-28
gb|AAF63374.1|AF245155_1 (AF245155) RNA polymerase subunit [Syne... 127 3e-28
gb|AAF63373.1|AF245154_1 (AF245154) RNA polymerase subunit [Syne... 127 3e-28
gb|AAF63353.1|AF245134_1 (AF245134) RNA polymerase subunit [Syne... 127 4e-28
gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Tryp... 127 4e-28
pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypa... 127 4e-28
gb|AAF63344.1|AF245125_1 (AF245125) RNA polymerase subunit [Syne... 127 6e-28
gb|AAF63377.1|AF245158_1 (AF245158) RNA polymerase subunit [Syne... 126 8e-28
gb|AAF63366.1|AF245147_1 (AF245147) RNA polymerase subunit [Syne... 126 8e-28
gb|AAF63365.1|AF245146_1 (AF245146) RNA polymerase subunit [Syne... 126 8e-28
gb|AAF63362.1|AF245143_1 (AF245143) RNA polymerase subunit [Syne... 126 8e-28
gb|AAF63352.1|AF245133_1 (AF245133) RNA polymerase subunit [Syne... 126 8e-28
sp|P17545|RPB1_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 126 8e-28
gb|AAF63379.1|AF245160_1 (AF245160) RNA polymerase subunit [Syne... 126 1e-27
gb|AAF63361.1|AF245142_1 (AF245142) RNA polymerase subunit [Syne... 126 1e-27
gb|AAF63358.1|AF245139_1 (AF245139) RNA polymerase subunit [Syne... 126 1e-27
gb|AAF63350.1|AF245131_1 (AF245131) RNA polymerase subunit [Syne... 126 1e-27
gb|AAF63348.1|AF245129_1 (AF245129) RNA polymerase subunit [Syne... 126 1e-27
gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Tryp... 126 1e-27
pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypa... 126 1e-27
gi|5902062 polymerase (RNA) III (DNA directed) (155kD) [Homo sap... 125 1e-27
sp|P17546|RPB2_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 125 1e-27
pir||T29959 DNA-directed RNA polymerase II large subunit ama-1 -... 125 2e-27
pir||T34157 hypothetical protein C42D4.8 - Caenorhabditis elegan... 125 2e-27
sp|P16356|RPB1_CAEEL DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 125 2e-27
gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melan... 125 2e-27
emb|CAB42800.1| (Y18876) largest subunit of the RNA polymerase I... 125 2e-27
emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase I... 125 2e-27
emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase I... 125 2e-27
emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase I... 125 2e-27
sp|P04052|RPB1_DROME DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 125 2e-27
dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II larges... 124 4e-27
gb|AAG15526.1| (AF199432) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAG15523.1| (AF199429) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAG15522.1| (AF199428) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAG15520.1| (AF199426) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAG15519.1| (AF199425) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAG15517.1| (AF199423) DNA dependent RNA polymerase [Anabaena... 123 5e-27
gb|AAF63375.1|AF245156_1 (AF245156) RNA polymerase subunit [Syne... 123 5e-27
sp|O94666|RPC1_SCHPO DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 123 9e-27
gb|AAK00311.1|AF315821_1 (AF315821) DNA-dependent RNA polymerase... 122 1e-26
gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Cras... 122 1e-26
gb|AAF63372.1|AF245153_1 (AF245153) RNA polymerase subunit [Syne... 122 1e-26
gb|AAF63371.1|AF245152_1 (AF245152) RNA polymerase subunit [Syne... 122 1e-26
gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leish... 122 1e-26
emb|CAB56787.1| (AJ012567) RNA polymerase [Gnetum gnemon] 122 2e-26
gb|AAA50229.1| (U10338) RNA polymerase II, largest subunit [Ilya... 122 2e-26
gb|AAG15527.1| (AF199433) DNA dependent RNA polymerase [Anabaena... 121 3e-26
gb|AAF36438.1|AF126254_1 (AF126254) RNA polymerase II largest su... 120 6e-26
emb|CAC27103.1| (AJ010592) DNA-directed RNA polymerase II larges... 120 7e-26
gb|AAC83397.1| (U10331) RNA polymerase II, largest subunit [Arte... 120 7e-26
prf||0612199A polymerase beta,RNA [Escherichia coli] 118 2e-25
gb|AAA30233.1| (M27163) RNA polymerase III [Trypanosoma brucei] 118 2e-25
gb|AAA24584.1| (M38303) RNA polymerase beta subunit (rpoC) (gtg ... 118 2e-25
sp|P08968|RPC1_TRYBB DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 118 2e-25
emb|CAB56786.1| (AJ012561) RNA polymerase [Gnetum gnemon] 118 2e-25
gb|AAA50227.1| (U10336) RNA polymerase II, largest subunit [Helo... 118 2e-25
gb|AAG15521.1| (AF199427) DNA dependent RNA polymerase [Anabaena... 117 5e-25
gi|6324690 RNA polymerase III large subunit; Rpo31p [Saccharomyc... 116 6e-25
gb|AAF48509.1| (AE003500) CG17209 gene product [Drosophila melan... 116 8e-25
gb|AAA19615.1| (U11452) RNA polymerase beta' subunit [Mycobacter... 115 2e-24
gb|AAC69339.1| (AF087812) RNA polymerase B'-subunit [Legionella ... 114 4e-24
pir||T18492 hypothetical protein C0805w - malaria parasite (Plas... 111 4e-23
sp|P14248|RPB1_PLAFD DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 111 4e-23
pir||T43260 RNA polymerase (EC 2.7.7.-) II - Trichomonas vaginal... 110 5e-23
pir||A69138 DNA-dependent RNA polymerase, subunit A' - Methanoba... 109 1e-22
gb|AAG48836.1|AC084218_6 (AC084218) similar to Arabidopsis thali... 104 5e-21
gb|AAF58234.1| (AE003814) RpI1 gene product [Drosophila melanoga... 104 5e-21
dbj|BAA82753.1| (AB018418) largest subunit of the DNA-dependent ... 102 1e-20
sp|Q58445|RPA1_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 101 2e-20
pir||A64430 DNA-directed RNA polymerase (EC 2.7.7.6) subunit A' ... 101 2e-20
sp|P28364|RPB1_EUPOC DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 101 3e-20
gb|AAA84488.1| (M31207) rpoC1 protein [Zea mays] 101 4e-20
gb|AAF24184.1| (AF159372) RpoC1 [Nodularia spumigena] 100 9e-20
sp|P91875|RPA1_DROME DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 98 3e-19
gi|6677793 RNA polymerase 1-4 (194 kDa subunit) [Mus musculus] >... 98 4e-19
sp|O54889|RPA1_RAT DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT... 98 5e-19
sp|P15398|RPA1_SCHPO DNA-DIRECTED RNA POLYMERASE I 190 KDA POLYP... 96 1e-18
pir||JS0206 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chai... 96 1e-18
gi|7661686 DKFZP586M0122 protein [Homo sapiens] >gi|12643662|sp|... 96 2e-18
pir||S22812 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 93 9e-18
sp|P25202|RPC1_GIALA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 93 9e-18
gb|AAF22436.1| (AF076435) RNA polymerase beta' subunit; RpoC [Ri... 92 2e-17
gb|AAF22434.1|AF076434_2 (AF076434) RNA polymerase beta' subunit... 92 2e-17
gb|AAF22432.1| (AF076433) RNA polymerase beta' subunit; RpoC [Ri... 92 2e-17
gb|AAD12323.1| (U01797) unknown [Mycoplasma genitalium] 91 4e-17
gb|AAA28863.1| (M11798) large subunit of RNA polymerase II [Dros... 87 7e-16
pir||JDMU2 DNA-directed RNA polymerase (EC 2.7.7.6) II largest c... 86 1e-15
pir||T06754 DNA-directed RNA polymerase I 190K chain homolog F15... 85 2e-15
gb|AAA92868.1| (L34213) DNA-dependent RNA polymerase largest sub... 85 3e-15
pir||T19606 hypothetical protein Y48E1A.1 - Caenorhabditis elega... 84 5e-15
pir||A34374 DNA-directed RNA polymerase (EC 2.7.7.6) I largest c... 84 5e-15
sp|P16355|RPA1_TRYBB DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 84 5e-15
pir||S73104 DNA-directed RNA polymerase (EC 2.7.7.6) III large c... 83 8e-15
sp|P28363|RPA1_EUPOC DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 83 8e-15
emb|CAA43746.1| (X61534) random genomic sequence MG35 [Mycoplasm... 83 1e-14
gi|6324917 RNA polymerase I subunit 190 (alpha); Rpa190p [Saccha... 80 7e-14
gb|AAA34890.1| (J03530) RNA polymerase A(I) large subunit [Sacch... 80 7e-14
pir||A45597 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 79 2e-13
gi|9628206 RNA polymerase subunit 1 [African swine fever virus] ... 79 2e-13
sp|P27625|RPC1_PLAFA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 79 2e-13
gb|AAF75815.1|AC011000_18 (AC011000) Contains similarity to DNA-... 78 3e-13
emb|CAC27032.1| (AJ010592) DNA-directed RNA polymerase I chain-l... 76 1e-12
gb|AAD34797.1| (AF136511) DNA-directed RNA polymerase beta and b... 73 1e-11
gb|AAB95288.1| (AF002109) putative DNA-directed RNA polymerase I... 72 2e-11
gb|AAD34795.1| (AF136509) DNA-directed RNA polymerase beta and b... 72 3e-11
gb|AAD34792.1| (AF136506) DNA-directed RNA polymerase beta and b... 72 3e-11
gb|AAD34794.1| (AF136508) DNA-directed RNA polymerase beta and b... 71 3e-11
gb|AAD34801.1| (AF136517) DNA-directed RNA polymerase beta and b... 71 4e-11
gb|AAD34800.1| (AF136515) DNA-directed RNA polymerase beta and b... 71 4e-11
gb|AAD34799.1| (AF136513) DNA-directed RNA polymerase beta and b... 71 4e-11
gb|AAD34798.1| (AF136512) DNA-directed RNA polymerase beta and b... 71 4e-11
gb|AAD34796.1| (AF136510) DNA-directed RNA polymerase beta and b... 71 4e-11
gb|AAD34793.1| (AF136507) DNA-directed RNA polymerase beta and b... 71 4e-11
pir||T28156 DNA-directed RNA polymerase homolog - malaria parasi... 71 6e-11
emb|CAA06995.1| (AJ006357) RNA polymerase beta' subunit [Lycoper... 70 8e-11
gb|AAA62413.1| (M81388) DNA-directed RNA polymerase I largest su... 70 1e-10
dbj|BAA10999.1| (D64127) RNA polymerase beta' subunit [Bacillus ... 69 2e-10
pir||T03179 probable DNA-directed RNA polymerase (EC 2.7.7.6) la... 69 2e-10
gb|AAC25195.1| (AF068779) DNA-directed RNA polymerase subunit Rp... 67 9e-10
gb|AAC25193.1| (AF068778) DNA-directed RNA polymerase subunit Rp... 67 9e-10
gi|12085054 71R protein [Yaba-like disease virus] >gi|12056230|e... 64 4e-09
gb|AAC25188.1| (AF068774) DNA-directed RNA polymerase subunit Rp... 64 6e-09
dbj|BAA88785.1| (AB015885) similar to vaccinia J6R [Yaba monkey ... 63 1e-08
pir||S15965 hypothetical protein 6 - yeast (Saccharomyces kluyve... 63 1e-08
gi|9633278 M6R protein [variola minor virus] >gi|7519933|pir||A7... 62 2e-08
gb|AAC25191.1| (AF068777) DNA-directed RNA polymerase subunit Rp... 62 2e-08
ref|NP_042127.1| L6R [Variola virus] >gi|417701|sp|P33053|RPO1_V... 62 2e-08
gi|9791022 J6R; putative [Vaccinia virus] >gi|133379|sp|P20504|R... 62 3e-08
sp|P07392|RPO1_VACCV DNA-DIRECTED RNA POLYMERASE 147 KD POLYPEPT... 62 3e-08
pir||T37366 RNA polymerase subunit rpo147 - vaccinia virus (stra... 61 4e-08
emb|CAB98132.1| (X61528) random genomic sequence MG22 [Mycoplasm... 60 1e-07
gi|9629011 MC079R [Molluscum contagiosum virus subtype 1] >gi|74... 60 1e-07
gb|AAC42119.1| (L38927) DNA-dependent RNA polymerase 147 kDa sub... 60 1e-07
pir||PN0600 DNA-directed RNA polymerase (EC 2.7.7.6) III - Pneum... 59 2e-07
gb|AAA33801.1| (L05530) RNA polymerase III [Pneumocystis carinii] 59 2e-07
gi|9633877 gp068R [Rabbit fibroma virus] >gi|6578596|gb|AAF17950... 58 4e-07
ref|NP_051782.1| m68R [Myxoma virus] >gi|6523923|gb|AAF14956.1|A... 58 4e-07
pir||S10340 DNA-directed RNA polymerase (EC 2.7.7.6) - yeast (K... 57 6e-07
emb|CAA30770.1| (X07946) RNA polymerase subunit (AA 1-982) [Kluy... 57 6e-07
sp|P05472|RPOL_KLULA PROBABLE DNA-DIRECTED RNA POLYMERASE (KILLE... 57 6e-07
gi|9634807 ORF FPV137 RNA polymerase subunit, RPO147 [Fowlpox vi... 55 4e-06
gb|AAC36719.1| (AF085744) RNA polymerase beta' subunit [Shewanel... 52 2e-05
gb|AAF60350.1|AF242549_2 (AF242549) DNA-dependent RNA polymerase... 52 2e-05
gi|9634466 TJ7R [Vaccinia virus (strain Tian Tan)] >gi|6969745|g... 50 9e-05
emb|CAC08226.1| (AJ278986) putative RNA-polymerase [Pichia etche... 49 2e-04
gi|9631519 ORF MSV043 putative RNA polymerase largest subunit RP... 47 6e-04
pir||PN0599 DNA-directed RNA polymerase (EC 2.7.7.6) II - Pneumo... 47 8e-04
dbj|BAA88487.1| (AB025334) RNA polymerase III largest subunit [L... 45 0.003
pir||PN0598 DNA-directed RNA polymerase (EC 2.7.7.6) I - Pneumoc... 45 0.003
gb|AAA33799.1| (L05528) RNA polymerase I [Pneumocystis carinii] 45 0.003
gb|AAC49712.1| (U90210) RNA polymerase II largest subunit [Spiro... 44 0.005
dbj|BAA88486.1| (AB025333) RNA polymerase III largest subunit [E... 43 0.009
gi|9964535 AMV221 [Amsacta moorei entomopoxvirus] >gi|9944744|gb... 40 0.11
sp|P36441|RPOC_HETCA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN >gi... 38 0.31
emb|CAC11700.1| (AL445064) hypothetical membrane protein [Thermo... 38 0.41
dbj|BAB14181.1| (AK022689) unnamed protein product [Homo sapiens] 37 0.70
dbj|BAB06919.1| (AP001518) BH3200~unknown conserved protein [Bac... 36 1.6
gb|AAF08287.1|AF190123_1 (AF190123) putative coat protein [tobac... 36 1.6
dbj|BAB29226.1| (AK014255) putative [Mus musculus] 35 3.5
emb|CAB39053.2| (AL034559) hypothetical protein, PFC1065w [Plasm... 34 6.1
gb|AAB94341.1| (U87266) 2,3-oxidosqualene-triterpenoid cyclase [... 34 8.0
gb|AAD05032.1| (U49919) lupeol synthase [Arabidopsis thaliana] 34 8.0
>gi|11465945 RNA polymerase beta' subunit [Nicotiana tabacum]
emb|CAA77411.1| (Z00044) RNA polymerase beta' subunit [Nicotiana tabacum]
Length = 688
Score = 1259 bits (3221), Expect = 0.0
Identities = 603/682 (88%), Positives = 643/682 (93%), Gaps = 3/682 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI
Sbjct: 8 MIDRYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 67
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K++PKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 68 FGPIKSGICACGNYRVIGDEKEDPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 127
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLLDKPLKELEGLVYCDFSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLFF
Sbjct: 128 RLPSYIANLLDKPLKELEGLVYCDFSFARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFT 187
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GFDTFRNREIS+GAGAIREQL DLDLRI+I++SLVEW+ELGEE H NEWEDRKVG
Sbjct: 188 TQGFDTFRNREISTGAGAIREQLADLDLRIIIENSLVEWEELGEEG--HTGNEWEDRKVG 245
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK+FLVRR+ELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR
Sbjct: 246 RRKDFLVRRVELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 305
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNNTL DLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD
Sbjct: 306 VIYRNNTLTDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSD 365
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H
Sbjct: 366 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQH 425
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
ASNIGVAKSKIREKEPIVWEILQEVM+GHP+LLNRAPTLHRLGIQAFQP+LVEGRAICL
Sbjct: 426 LASNIGVAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICL 485
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+HVPLSLEAQ EARLLMFSH NLLSPAIGDPI+VPTQDMLIG
Sbjct: 486 HPLVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIG 545
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMK-KKEPFFSNSYDAIGAFRQKKIN 599
LY+LTSGN RGIC NRYN N +N +N+K D + K KEPFFSNSYDAIGA+RQK+IN
Sbjct: 546 LYVLTSGNHRGICVNRYNPCNRRNYQNQKRSDNSHYKYTKEPFFSNSYDAIGAYRQKRIN 605
Query: 600 FDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIG 659
DSP WLRWRLD+ +++SRE PIEVHYESLGT+++IY HYL++RS+KKQI IYIRTT+G
Sbjct: 606 LDSPLWLRWRLDQRVIASRETPIEVHYESLGTFYEIYGHYLIVRSLKKQILFIYIRTTVG 665
Query: 660 HISFYREIEEAIQGFCRGYSYG 681
HI+ YREIEEAIQGF R YS G
Sbjct: 666 HIALYREIEEAIQGFSRAYSSG 687
>gi|11497515 RNA polymerase beta' subunit [Spinacia oleracea]
sp|P11705|RPOC_SPIOL DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||B29959 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - spinach
chloroplast
emb|CAB88716.1| (AJ400848) RNA polymerase beta' subunit [Spinacia oleracea]
Length = 677
Score = 1252 bits (3205), Expect = 0.0
Identities = 603/679 (88%), Positives = 636/679 (92%), Gaps = 2/679 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI
Sbjct: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K++PKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 61 FGPIKSGICACGNYRVIGDEKEDPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIAN LDKPLKELEGLVYCDFSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLFF
Sbjct: 121 RLPSYIANFLDKPLKELEGLVYCDFSFARPIAKKPTFLRLRGLFEYEIQSWKYSIPLFFT 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GFDTFRNREIS+GAGAIREQL DLDLR +ID S EWKELGEE ST NE WEDRKVG
Sbjct: 181 TQGFDTFRNREISTGAGAIREQLADLDLRTIIDYSFAEWKELGEEGSTGNE--WEDRKVG 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK+FLVRRMEL KHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR
Sbjct: 239 RRKDFLVRRMELVKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNNTL DLL+TSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD
Sbjct: 299 VIYRNNTLTDLLSTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQH 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
ASNIGVAK KIREKEPIVW+ILQEVM+GHP+LLNRAPTLHRLGIQAFQPILVEGRAICL
Sbjct: 419 LASNIGVAKRKIREKEPIVWKILQEVMQGHPVLLNRAPTLHRLGIQAFQPILVEGRAICL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+HVPLSLEAQAEARLLMFSH NLLSPAIGDPI+VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINF 600
LYILTSGNRRGICANRYN N K +NE+I D Y KEPFF N YDAIGA+RQK+I+
Sbjct: 539 LYILTSGNRRGICANRYNPWNHKTYQNERIDDTNYKSMKEPFFCNFYDAIGAYRQKRIHL 598
Query: 601 DSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGH 660
DSP WLRW+LD+ I++S+EAPIEVHYESLGTYH+IY HYL+IRS+KK+I IYIRTT+GH
Sbjct: 599 DSPLWLRWQLDQRIIASKEAPIEVHYESLGTYHEIYAHYLIIRSVKKEIIDIYIRTTVGH 658
Query: 661 ISFYREIEEAIQGFCRGYS 679
IS YREIEEAIQGF + S
Sbjct: 659 ISLYREIEEAIQGFYQACS 677
>gi|7525024 RNA polymerase beta' subunit-1 [Arabidopsis thaliana]
sp|P56763|RPOC_ARATH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
dbj|BAA84376.1| (AP000423) RNA polymerase beta' subunit-1 [Arabidopsis thaliana]
Length = 680
Score = 1245 bits (3187), Expect = 0.0
Identities = 594/680 (87%), Positives = 636/680 (93%), Gaps = 2/680 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIG VSPQQISAWATKI+PNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI
Sbjct: 1 MIDRYKHQQLRIGLVSPQQISAWATKIIPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K++PKFCEQCGVEFVDSRIRRYQMGYIKL CPVTHVWYLK
Sbjct: 61 FGPIKSGICACGNYRVIGDEKEDPKFCEQCGVEFVDSRIRRYQMGYIKLTCPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLLDKPLKELEGLVYCDFSFARP+ KKPTFLRLRG FEYEIQSWKYSIPLFF
Sbjct: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPITKKPTFLRLRGSFEYEIQSWKYSIPLFFT 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GFD FRNREIS+GAGAIREQL DLDLRI+I++SLVEWK+LGEE T NE WEDRK+
Sbjct: 181 TQGFDIFRNREISTGAGAIREQLADLDLRIIIENSLVEWKQLGEEGPTGNE--WEDRKIV 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK+FLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQI+GGKLMSSDINELYRR
Sbjct: 239 RRKDFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIEGGKLMSSDINELYRR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNNTL DLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD
Sbjct: 299 VIYRNNTLTDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQH 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
ASNIGVAKS+IREK+PIVWEILQEVM+GHP+LLNRAPTLHRLGIQ+FQPILVEGR ICL
Sbjct: 419 LASNIGVAKSQIREKKPIVWEILQEVMQGHPVLLNRAPTLHRLGIQSFQPILVEGRTICL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+HVPLSLEAQAEARLLMFSH NLLSPAIGDPI+VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINF 600
LY+LTSG RRGICANRYN N KN +NE+I + Y KEPFF NSYDAIGA+RQKKIN
Sbjct: 539 LYVLTSGTRRGICANRYNPCNRKNYQNERIYETNYKYTKEPFFCNSYDAIGAYRQKKINL 598
Query: 601 DSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGH 660
DSP WLRW+LD+ +++SRE PIEVHYES G YH+IY HYL++RS+KK+ CIYIRTT+GH
Sbjct: 599 DSPLWLRWQLDQRVIASREVPIEVHYESFGNYHEIYAHYLIVRSVKKENFCIYIRTTVGH 658
Query: 661 ISFYREIEEAIQGFCRGYSY 680
ISFYREIEEAIQGF + SY
Sbjct: 659 ISFYREIEEAIQGFSQACSY 678
>sp|P12116|RPOC_TOBAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
Length = 680
Score = 1237 bits (3165), Expect = 0.0
Identities = 596/682 (87%), Positives = 637/682 (93%), Gaps = 4/682 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEK F +
Sbjct: 1 MIDRYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKMDYFVKN- 59
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K++PKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 60 FGPIKSGICACGNYRVIGDEKEDPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 119
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLLDKPLKELEGLVYCDFSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLFF
Sbjct: 120 RLPSYIANLLDKPLKELEGLVYCDFSFARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFT 179
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GFDTFRNREIS+GAGAIREQL DLDLRI+I++SLVEW+ELGEE H NEWEDRKVG
Sbjct: 180 TQGFDTFRNREISTGAGAIREQLADLDLRIIIENSLVEWEELGEEG--HTGNEWEDRKVG 237
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK+FLVRR+ELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR
Sbjct: 238 RRKDFLVRRVELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 297
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNNTL DLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD
Sbjct: 298 VIYRNNTLTDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSD 357
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H
Sbjct: 358 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQH 417
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
ASNIGVAKSKIREKEPIVWEILQEVM+GHP+LLNRAPTLHRLGIQAFQP+LVEGRAICL
Sbjct: 418 LASNIGVAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICL 477
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+HVPLSLEAQ EARLLMFSH NLLSPAIGDPI+VPTQDMLIG
Sbjct: 478 HPLVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIG 537
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMK-KKEPFFSNSYDAIGAFRQKKIN 599
LY+LTSGN RGIC NRYN N +N +N+K D + K KEPFFSNSYDAIGA+RQK+IN
Sbjct: 538 LYVLTSGNHRGICVNRYNPCNRRNYQNQKRSDNSHYKYTKEPFFSNSYDAIGAYRQKRIN 597
Query: 600 FDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIG 659
DSP WLRWRLD+ +++SRE PIEVHYESLGT+++IY HYL++RS+KKQI IYIRTT+G
Sbjct: 598 LDSPLWLRWRLDQRVIASRETPIEVHYESLGTFYEIYGHYLIVRSLKKQILFIYIRTTVG 657
Query: 660 HISFYREIEEAIQGFCRGYSYG 681
HI+ YREIEEAIQGF R YS G
Sbjct: 658 HIALYREIEEAIQGFSRAYSSG 679
>sp|P46819|RPOC_SINAL DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
emb|CAB48413.1| (AJ243754) RNA polymerase A beta prime subunit [Sinapis alba]
Length = 688
Score = 1225 bits (3134), Expect = 0.0
Identities = 588/688 (85%), Positives = 632/688 (91%), Gaps = 10/688 (1%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIG VSPQQISAWATK +PNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI
Sbjct: 1 MIDRYKHQQLRIGLVSPQQISAWATKKIPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K +PKFCEQCGVEFVDSRIRRYQMGYIKL CPVTHVWYLK
Sbjct: 61 FGPIKSGICACGNYRVIGDEKGDPKFCEQCGVEFVDSRIRRYQMGYIKLTCPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCD--------FSFARPVVKKPTFLRLRGLFEYEIQSWK 172
RLPSYIANLLDKPLKELEGLVYCD FSFARP+ KKPTFLRLRG FEYEIQSWK
Sbjct: 121 RLPSYIANLLDKPLKELEGLVYCDVCFDRNPNFSFARPITKKPTFLRLRGSFEYEIQSWK 180
Query: 173 YSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNEN 232
YSIPLFF T GF+ FRNREIS+GAGAIREQL DLDLRI+I++SLVEWK+LGEE T NE
Sbjct: 181 YSIPLFFTTQGFEIFRNREISTGAGAIREQLADLDLRIIIENSLVEWKQLGEEGPTGNE- 239
Query: 233 EWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSS 292
WEDRK+ RRK+FLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQI+GGKLMSS
Sbjct: 240 -WEDRKIVRRKDFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIEGGKLMSS 298
Query: 293 DINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHN 352
DINELYRRVIYRNNTL DLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM+DGHN
Sbjct: 299 DINELYRRVIYRNNTLTDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMRDGHN 358
Query: 353 KVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFL 412
KVYKSFSD+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTF+
Sbjct: 359 KVYKSFSDVIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFV 418
Query: 413 IRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPIL 472
IR LIR+H ASNIGVAKS+IREK+PIVWEILQEVM+GHP+LLNRAPTLHRLGIQ+FQPIL
Sbjct: 419 IRGLIRQHLASNIGVAKSQIREKKPIVWEILQEVMQGHPVLLNRAPTLHRLGIQSFQPIL 478
Query: 473 VEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAV 532
VEGR ICLHPLVCKGFNADFDGDQMA+HVPLSLEAQAEARLLMFSH NLLSPAIGDPI+V
Sbjct: 479 VEGRTICLHPLVCKGFNADFDGDQMAVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISV 538
Query: 533 PTQDMLIGLYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGA 592
PTQDMLIGLY+LTSG RRGICANRYN N KN +NE+I + Y KEPFF NSYDAIGA
Sbjct: 539 PTQDMLIGLYVLTSGTRRGICANRYNPCNRKNYQNERIYETNYKYMKEPFFCNSYDAIGA 598
Query: 593 FRQKKINFDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCI 652
+RQK+IN DSP WLRW+LD+ +++S+E PIEVHYES G YH+IY HYL++RS+KK+ I
Sbjct: 599 YRQKRINLDSPLWLRWQLDQRVIASKEVPIEVHYESFGNYHEIYAHYLIVRSVKKETLYI 658
Query: 653 YIRTTIGHISFYREIEEAIQGFCRGYSY 680
YIRTT+GHIS YREIEEAIQGF + SY
Sbjct: 659 YIRTTVGHISLYREIEEAIQGFSQACSY 686
>emb|CAB67152.1| (AJ271079) RNA polymerase beta' subunit [Oenothera elata subsp.
hookeri]
Length = 679
Score = 1204 bits (3080), Expect = 0.0
Identities = 578/680 (85%), Positives = 624/680 (91%), Gaps = 3/680 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIGSVSPQQIS WA KILPNGEIVGEVTKPYTFHYKTNKPE+DGLFCERI
Sbjct: 1 MIDRYKHQQLRIGSVSPQQISTWANKILPNGEIVGEVTKPYTFHYKTNKPERDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CG YRVIGDKK++P FCEQCGVEFVDSRIRRYQMGYIKLACP THVWYLK
Sbjct: 61 FGPIKSGICACGTYRVIGDKKEDPNFCEQCGVEFVDSRIRRYQMGYIKLACPATHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLLDKPLKELEG VYCDFSFARPV KKPTFLRLRGLFEYEIQSWKYSIPLFF
Sbjct: 121 RLPSYIANLLDKPLKELEGKVYCDFSFARPVAKKPTFLRLRGLFEYEIQSWKYSIPLFFT 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GFDTFRNREIS+GAGAIREQL LDLR++ID SLVEWKELGEERST NE WEDRK+G
Sbjct: 181 TQGFDTFRNREISTGAGAIREQLAGLDLRVIIDYSLVEWKELGEERSTGNE--WEDRKIG 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK FLVRR+ELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQ+DGGKLMSSDINELYRR
Sbjct: 239 RRKQFLVRRVELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQMDGGKLMSSDINELYRR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNN L DLLTTSRSTPG+LVM QEKLVQEAVDTLLDNGIR +P++DG NKVYKSFSD
Sbjct: 299 VIYRNNILADLLTTSRSTPGDLVMGQEKLVQEAVDTLLDNGIRSRPVRDGQNKVYKSFSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGP+L LHRCGLPREIAIELFQTFLIR LIR+H
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPTLPLHRCGLPREIAIELFQTFLIRGLIRQH 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
AS+I AKS+IREKEPIVWEILQ+VM+GHP+LLNRAPTLHRLGIQAFQP LV+G AICL
Sbjct: 419 HASDIVGAKSQIREKEPIVWEILQQVMQGHPVLLNRAPTLHRLGIQAFQPFLVKGDAICL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+HVPLSLEAQ EARLLMFSH NLLSPA+GDPI+VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAMGDPISVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINF 600
LYILTSGN RGIC NRYN N N +NE+I D + KKKEPFF NSYDAIGA+RQK+I+
Sbjct: 539 LYILTSGNPRGICTNRYNPWNRSNYQNERISDNNW-KKKEPFFCNSYDAIGAYRQKRIHL 597
Query: 601 DSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGH 660
DSP WLRWRLD+ +++SRE PIEV YESLGTYH+IY HY+++RS+K +I +YIRTT+GH
Sbjct: 598 DSPLWLRWRLDQRVIASREVPIEVQYESLGTYHEIYGHYIIVRSVKTEILWMYIRTTVGH 657
Query: 661 ISFYREIEEAIQGFCRGYSY 680
IS +RE+EEAIQGFCR Y
Sbjct: 658 ISLFREMEEAIQGFCRARWY 677
>gi|11467183 RNA polymerase beta' subunit 1 [Zea mays]
sp|P16024|RPOC_MAIZE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||RNZMB1 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - maize
chloroplast
emb|CAA35196.1| (X17318) RNA polymerase beta-1 subunit (AA 1-683) [Zea mays]
emb|CAA60277.1| (X86563) RNA polymerase beta' subunit 1 [Zea mays]
Length = 683
Score = 1074 bits (2747), Expect = 0.0
Identities = 527/687 (76%), Positives = 587/687 (84%), Gaps = 9/687 (1%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQYKH+QL+IG VSPQQI AWA KILPNGE+VGEVT+P TFHYKT+KPEKDGLFCERI
Sbjct: 1 MIDQYKHKQLQIGLVSPQQIKAWAKKILPNGEVVGEVTRPSTFHYKTDKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGN R + ++ +FC++CGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 61 FGPIKSGICACGNSRASVRENEDERFCQKCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
LPSYIANLLDKPLK+LEGLVY DFSFARP KKPTFLRLRGLFE EI S +SI FF+
Sbjct: 121 GLPSYIANLLDKPLKKLEGLVYGDFSFARPSAKKPTFLRLRGLFEDEISSCNHSISPFFS 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GF TFRNREI++GAGAIREQL DLDLRI+I++SLVEWKEL +E ++ +EWEDRK
Sbjct: 181 TPGFATFRNREIATGAGAIREQLADLDLRIIIENSLVEWKELEDEG--YSGDEWEDRKRR 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RK FL+RRM+LAKHFI+TN+EPEWMVLCLLPVLPPELRPI+ G K+++SDINELY+R
Sbjct: 239 IRKVFLIRRMQLAKHFIQTNVEPEWMVLCLLPVLPPELRPIVYRSGDKVVTSDINELYKR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VI RNN L LL S P +LVMCQEKLVQEAVDTLLD+G RGQP +DGHNKVYKS SD
Sbjct: 299 VIRRNNNLAYLLKRSELAPADLVMCQEKLVQEAVDTLLDSGSRGQPTRDGHNKVYKSLSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLH+CGLP EIAI+LFQ F+IR LI K
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHQCGLPLEIAIKLFQLFVIRDLITKR 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
SN+ +AK KI EKEPIVWEILQEVMRGHP+LLNRAPTLHRLGIQAFQP LVEGR ICL
Sbjct: 419 ATSNVRIAKRKIWEKEPIVWEILQEVMRGHPVLLNRAPTLHRLGIQAFQPTLVEGRTICL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+H+PLSLEAQAEARLLMFSH NLLSPAIGDPI VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHLPLSLEAQAEARLLMFSHMNLLSPAIGDPICVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDK-----KYMKKKEPFFSNSYDAIGAFRQ 595
LY+LT GNR GICANRYN NS N+K+ KY K KEP FS+SYDA+GA+RQ
Sbjct: 539 LYVLTIGNRLGICANRYNSCG--NSPNKKVNYNNNNYYKYTKDKEPHFSSSYDALGAYRQ 596
Query: 596 KKINFDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIR 655
K+I +SP WLRW+LD+ I+ SRE PIEV YES GTYH+IY HYLV+ + KK+I IYIR
Sbjct: 597 KRIGLNSPLWLRWKLDQRIVGSREVPIEVQYESFGTYHEIYAHYLVVGNRKKEIRSIYIR 656
Query: 656 TTIGHISFYREIEEAIQGFCRGYSYGI 682
TT+GHISFYREIEEAIQGF R YSY I
Sbjct: 657 TTLGHISFYREIEEAIQGFSRAYSYTI 683
>dbj|BAA78041.1| (AB027572) RNA polymerase subunit beta [Triticum aestivum]
Length = 683
Score = 1070 bits (2736), Expect = 0.0
Identities = 524/685 (76%), Positives = 586/685 (85%), Gaps = 9/685 (1%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQYKHQQL+IG VSPQQI AWA K LPNGE+VGEVT+P TFHYKT+KPEKDGLFCERI
Sbjct: 1 MIDQYKHQQLQIGLVSPQQIKAWANKNLPNGEVVGEVTRPSTFHYKTDKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGN R G + ++ +FC++CGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 61 FGPIKSGICACGNSRASGAENEDERFCQKCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
LPSYIANLLDKPLK+LEGLVY DFSFARP KKPTFLRLRGLFE EI S +SI FF+
Sbjct: 121 GLPSYIANLLDKPLKKLEGLVYGDFSFARPSTKKPTFLRLRGLFEEEIASCNHSISPFFS 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GF TFRNREI++GAGAIREQL DLDLRI+I++SLVEWKEL +E ++ +EWEDRK
Sbjct: 181 TPGFATFRNREIATGAGAIREQLADLDLRIIIENSLVEWKELEDEG--YSGDEWEDRKRR 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RK FL+RRM+LAKHFI+TN+EPEWMVLCLLPVLPPELRPI+ G K+++SDINELY+R
Sbjct: 239 IRKVFLIRRMQLAKHFIQTNVEPEWMVLCLLPVLPPELRPIVYRSGDKVVTSDINELYKR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VI RNN L LL S P +LVMCQEKLVQEAVDTLLD+G RGQP +DGHNKVYKS SD
Sbjct: 299 VIRRNNNLAYLLKRSELAPADLVMCQEKLVQEAVDTLLDSGSRGQPTRDGHNKVYKSLSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLH+CGLP EIAI+LFQ F+IR LI K
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHQCGLPLEIAIKLFQLFVIRDLITKR 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
SN+ +AK KI EKEPIVWEILQEVMRGHP+LLNRAPTLHRLGIQAFQP LVEGR I L
Sbjct: 419 ATSNVRIAKRKIWEKEPIVWEILQEVMRGHPVLLNRAPTLHRLGIQAFQPTLVEGRTISL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+H+PLSLEAQAEARLLMFSH NLLSPAIGDPI VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHLPLSLEAQAEARLLMFSHMNLLSPAIGDPICVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKI-----RDKKYMKKKEPFFSNSYDAIGAFRQ 595
LY+LT G RRGICANRYN + +N N K+ + KY K KEP FS+SYDA+GA+RQ
Sbjct: 539 LYVLTIGKRRGICANRYN--SCRNYPNLKVNYNNNNNSKYRKDKEPHFSSSYDALGAYRQ 596
Query: 596 KKINFDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIR 655
K I+ DSP WLRW LD+ ++ SRE PIEV YESLGTYH+IY HYL++ + KK+I IYIR
Sbjct: 597 KLISLDSPLWLRWNLDQRVIGSREVPIEVQYESLGTYHEIYAHYLIMGNRKKEIRSIYIR 656
Query: 656 TTIGHISFYREIEEAIQGFCRGYSY 680
TT+GHISFYREIEEAIQGF + YSY
Sbjct: 657 TTLGHISFYREIEEAIQGFSQAYSY 681
>gi|11466778 RNA polymerase beta' subunit-1 [Oryza sativa]
sp|P12092|RPOC_ORYSA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||RNRZC1 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - rice
chloroplast
emb|CAA33987.1| (X15901) RNA polymerase beta' subunit-1 [Oryza sativa]
prf||1603356Q RNA polymerase beta'-1 [Oryza sativa]
Length = 682
Score = 1068 bits (2731), Expect = 0.0
Identities = 523/684 (76%), Positives = 584/684 (84%), Gaps = 4/684 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQYKHQQL+IG VSPQQI AWA K LPNGE+VGEVT+P TFHYKT+KPEKDGLFCERI
Sbjct: 1 MIDQYKHQQLQIGLVSPQQIKAWANKTLPNGEVVGEVTRPSTFHYKTDKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKS IC CGN R G + ++ +FC++CGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 61 FGPIKSRICACGNSRASGAENEDERFCQKCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
LPSYIANLLDKPLK+LEGLVY DFSFARP KKPTFLRLRGLFE EI S +SI FF+
Sbjct: 121 GLPSYIANLLDKPLKKLEGLVYGDFSFARPSAKKPTFLRLRGLFEDEISSCNHSISPFFS 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GF TFRNREI++GAGAIREQL DLDLRI++++S VEWKEL +E ++ +EWEDRK
Sbjct: 181 TPGFTTFRNREIATGAGAIREQLADLDLRIILENSSVEWKELEDEG--YSGDEWEDRKRR 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RK FL+RRM+LAKHFI+TN+EPEWMVLCLLPVLPPELRPI+ G K+++SDINELY+R
Sbjct: 239 IRKVFLIRRMQLAKHFIQTNVEPEWMVLCLLPVLPPELRPIVYRSGDKVVTSDINELYKR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VI RNN L LL S P +LVMCQEKLVQEAVDTLLD+G RGQP +DGHNKVYKS SD
Sbjct: 299 VIRRNNNLAYLLKRSELAPADLVMCQEKLVQEAVDTLLDSGSRGQPTRDGHNKVYKSLSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLH+CGLP EIAI+LFQ F+IR LI K
Sbjct: 359 VIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHQCGLPLEIAIKLFQLFVIRDLITKR 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
SN+ +AK KI EKEPIVWEILQEVMRGHP+LLNRAPTLHRLGIQAFQP LVEGR ICL
Sbjct: 419 ATSNVRIAKRKIWEKEPIVWEILQEVMRGHPVLLNRAPTLHRLGIQAFQPTLVEGRTICL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVCKGFNADFDGDQMA+H+PLSLEAQAEARLLMFSH NLLSPAIGDPI VPTQDMLIG
Sbjct: 479 HPLVCKGFNADFDGDQMAVHLPLSLEAQAEARLLMFSHMNLLSPAIGDPICVPTQDMLIG 538
Query: 541 LYILTSGNRRGICANRYNR-SNWKNSK-NEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKI 598
LY+LT GNRRGICANRYN N+ N K N + KY K KE FS+SYDA+GA+RQK+I
Sbjct: 539 LYVLTIGNRRGICANRYNSCGNYPNQKVNYNNNNPKYTKDKESLFSSSYDALGAYRQKQI 598
Query: 599 NFDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTI 658
DSP WLRW+LD+ ++ RE PIEV YESLGTY +IY HYLV+ + KK+I IYIRTT+
Sbjct: 599 CLDSPLWLRWKLDQRVIGLREVPIEVQYESLGTYREIYAHYLVVGNRKKEIRSIYIRTTL 658
Query: 659 GHISFYREIEEAIQGFCRGYSYGI 682
GHISFYREIEEAIQGF + YSY I
Sbjct: 659 GHISFYREIEEAIQGFSQAYSYTI 682
>prf||1211235Q rpoC-like ORF 548 [Nicotiana tabacum]
Length = 548
Score = 961 bits (2456), Expect = 0.0
Identities = 465/541 (85%), Positives = 502/541 (91%), Gaps = 3/541 (0%)
Query: 142 YCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIRE 201
Y +FSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLFF T GFDTFRNREIS+GAGAIRE
Sbjct: 9 YPNFSFARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFTTQGFDTFRNREISTGAGAIRE 68
Query: 202 QLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNI 261
QL DLDLRI+I++SLVEW+ELGEE H NEWEDRKVGRRK+FLVRR+ELAKHFIRTNI
Sbjct: 69 QLADLDLRIIIENSLVEWEELGEEG--HTGNEWEDRKVGRRKDFLVRRVELAKHFIRTNI 126
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGE 321
EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL DLLTTSRSTPGE
Sbjct: 127 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGE 186
Query: 322 LVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
LVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD+IEGKEGRFRETLLGKRVDYS
Sbjct: 187 LVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYS 246
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWE 441
GRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H ASNIGVAKSKIREKEPIVWE
Sbjct: 247 GRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQHLASNIGVAKSKIREKEPIVWE 306
Query: 442 ILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHV 501
ILQEVM+GHP+LLNRAPTLHRLGIQAFQP+LVEGRAICLHPLVCKGFNADFDGDQMA+HV
Sbjct: 307 ILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICLHPLVCKGFNADFDGDQMAVHV 366
Query: 502 PLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRYNRSN 561
PLSLEAQ EARLLMFSH NLLSPAIGDPI+VPTQDMLIGLY+LTSGN RGIC NRYN N
Sbjct: 367 PLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGNHRGICVNRYNPCN 426
Query: 562 WKNSKNEKIRDKKYMK-KKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSSREA 620
+N +N+K D + K KEPFFSNSYDAIGA+RQK+IN DSP WLRWRLD+ +++SRE
Sbjct: 427 RRNYQNQKRSDNSHYKYTKEPFFSNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASRET 486
Query: 621 PIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFYREIEEAIQGFCRGYSY 680
PIEVHYESLGT+++IY HYL++RS+KKQI IYIRTT+GHI+ YREIEEAIQGF R YS
Sbjct: 487 PIEVHYESLGTFYEIYGHYLIVRSLKKQILFIYIRTTVGHIALYREIEEAIQGFSRAYSS 546
Query: 681 G 681
G
Sbjct: 547 G 547
>pir||A05032 rpoC protein homolog rpoC - common tobacco chloroplast
Length = 548
Score = 961 bits (2456), Expect = 0.0
Identities = 465/541 (85%), Positives = 502/541 (91%), Gaps = 3/541 (0%)
Query: 142 YCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIRE 201
Y +FSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLFF T GFDTFRNREIS+GAGAIRE
Sbjct: 9 YPNFSFARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFTTQGFDTFRNREISTGAGAIRE 68
Query: 202 QLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNI 261
QL DLDLRI+I++SLVEW+ELGEE H NEWEDRKVGRRK+FLVRR+ELAKHFIRTNI
Sbjct: 69 QLADLDLRIIIENSLVEWEELGEEG--HTGNEWEDRKVGRRKDFLVRRVELAKHFIRTNI 126
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGE 321
EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL DLLTTSRSTPGE
Sbjct: 127 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGE 186
Query: 322 LVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
LVMCQEKLVQEAVDTLLDNGIRGQPM+DGHNKVYKSFSD+IEGKEGRFRETLLGKRVDYS
Sbjct: 187 LVMCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYS 246
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWE 441
GRSVIVVGPSLSLHRCGLPREIAIELFQTF+IR LIR+H ASNIGVAKSKIREKEPIVWE
Sbjct: 247 GRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQHLASNIGVAKSKIREKEPIVWE 306
Query: 442 ILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHV 501
ILQEVM+GHP+LLNRAPTLHRLGIQAFQP+LVEGRAICLHPLVCKGFNADFDGDQMA+HV
Sbjct: 307 ILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICLHPLVCKGFNADFDGDQMAVHV 366
Query: 502 PLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRYNRSN 561
PLSLEAQ EARLLMFSH NLLSPAIGDPI+VPTQDMLIGLY+LTSGN RGIC NRYN N
Sbjct: 367 PLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGNHRGICVNRYNPCN 426
Query: 562 WKNSKNEKIRDKKYMK-KKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSSREA 620
+N +N+K D + K KEPFFSNSYDAIGA+RQK+IN DSP WLRWRLD+ +++SRE
Sbjct: 427 RRNYQNQKRSDNSHYKYTKEPFFSNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASRET 486
Query: 621 PIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFYREIEEAIQGFCRGYSY 680
PIEVHYESLGT+++IY HYL++RS+KKQI IYIRTT+GHI+ YREIEEAIQGF R YS
Sbjct: 487 PIEVHYESLGTFYEIYGHYLIVRSLKKQILFIYIRTTVGHIALYREIEEAIQGFSRAYSS 546
Query: 681 G 681
G
Sbjct: 547 G 547
>gi|11466680 rpoC1 [Marchantia polymorpha]
sp|P06273|RPOC_MARPO DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||RNLVC1 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - liverwort
(Marchantia polymorpha) chloroplast
emb|CAA28062.1| (X04465) rpoC1 [Marchantia polymorpha]
Length = 684
Score = 927 bits (2370), Expect = 0.0
Identities = 454/679 (66%), Positives = 546/679 (79%), Gaps = 20/679 (2%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M Q KHQ LRI SP+QI WA ++LPNGEIVG+VTKPYT HYKT+KPEKDGLFCE+I
Sbjct: 1 MTYQKKHQHLRIELASPEQIRNWAERVLPNGEIVGQVTKPYTLHYKTHKPEKDGLFCEKI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CG Y+ I KK+ KFCEQCGVEF++SRIRRY+MGYIKLAC VTHVWYLK
Sbjct: 61 FGPIKSGICACGKYQGIEKKKENIKFCEQCGVEFIESRIRRYRMGYIKLACSVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLL KPLKELE LVYCD ARP+ KKPT L+L+GLF+YE QSWK P FF+
Sbjct: 121 RLPSYIANLLAKPLKELESLVYCDLFLARPITKKPTLLKLQGLFKYEDQSWKDIFPRFFS 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
GF+ F+NREI++G AI++QL +L+L+ VI+ + +EWKE E++ST NE WEDRK+
Sbjct: 181 PRGFEVFQNREIATGGDAIQKQLTNLNLQNVINLAHLEWKEFAEQKSTGNE--WEDRKIQ 238
Query: 241 RRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRR 300
RRK+ LVRR++LAKHFI+TNI+PEWMVL LLPVLPPELRP+I++ G+L++SD+NELYRR
Sbjct: 239 RRKDLLVRRIKLAKHFIQTNIKPEWMVLSLLPVLPPELRPMIELGEGELITSDLNELYRR 298
Query: 301 VIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSD 360
VIYRNNTL+D L S STPG LV+CQ++LVQEAVD L+DNGIRGQPMKD HN+ YKSFSD
Sbjct: 299 VIYRNNTLLDFLARSGSTPGGLVVCQKRLVQEAVDALIDNGIRGQPMKDSHNRPYKSFSD 358
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
+IEGKEGRFRE LLGKRVDYSGRSVIVVGP L LH+CGLPRE+AIELFQ F+IR LI ++
Sbjct: 359 LIEGKEGRFRENLLGKRVDYSGRSVIVVGPFLPLHQCGLPREMAIELFQAFVIRGLIGRN 418
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
FA N+ AK+ I+ KEPI+W++LQEVM+GHPILLNRAPTLHRLGIQAFQPILV GRAI L
Sbjct: 419 FAPNLRAAKTMIQNKEPIIWKVLQEVMQGHPILLNRAPTLHRLGIQAFQPILVNGRAIHL 478
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVC GFNADFDGDQMA+H+PLSLEAQAEARLLM SH NLLSPA G+PI+VP+QDML+G
Sbjct: 479 HPLVCGGFNADFDGDQMAVHIPLSLEAQAEARLLMLSHKNLLSPATGEPISVPSQDMLLG 538
Query: 541 LYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKE----PFFSNSYDAIGAFRQK 596
LYILT N +GI N+YN S KKY KK+ P+FS+ + A +QK
Sbjct: 539 LYILTIENNQGIYGNKYNPS------------KKYDSKKKFSQIPYFSSYDNVFRALQQK 586
Query: 597 KINFDSPFWLRWRLDKCIMS--SREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYI 654
+I S WLRW+++ I++ ++E PIE+ Y+S G IYEHY + ++ ++I YI
Sbjct: 587 QIYLHSSLWLRWQINLRIITLLNQEGPIEIQYKSFGNSFQIYEHYQLRKNKNQEIISTYI 646
Query: 655 RTTIGHISFYREIEEAIQG 673
TT G I F ++IEEAIQG
Sbjct: 647 CTTAGRILFNQQIEEAIQG 665
>gi|7524614 RNA polymerase beta' subunit [Pinus thunbergii]
sp|P52733|RPOC_PINTH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||T07447 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - Japanese
black pine chloroplast (fragment)
dbj|BAA23472.1| (D17510) RNA polymerase beta' subunit [Pinus thunbergii]
Length = 696
Score = 910 bits (2325), Expect = 0.0
Identities = 463/692 (66%), Positives = 541/692 (77%), Gaps = 29/692 (4%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQ KHQQLRIG SP+QI AW+ KILPNGEIVG+VTKP+T HY+TNKPE+DG FCERI
Sbjct: 1 MIDQNKHQQLRIGLASPEQICAWSEKILPNGEIVGQVTKPHTLHYETNKPERDGSFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSG+C+CGN IG++K + KFC QCGVEFVDSRIRRYQMGYIKLACPV HVWYLK
Sbjct: 61 FGPIKSGVCSCGNSPGIGNEKIDAKFCTQCGVEFVDSRIRRYQMGYIKLACPVVHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
RLPSYIANLL K KELEG VYCD ARP+ KPT LR RG F+YEIQSW+ IP + +
Sbjct: 121 RLPSYIANLLAKTRKELEGPVYCDLFLARPIANKPTLLRSRGTFDYEIQSWREIIPHYLS 180
Query: 181 TH-------GFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGE-------ER 226
G TF+ REI++G AI +QL+ LDL+++ID S +EWK L E E
Sbjct: 181 ARPYYLFPRGSGTFKEREIATGGDAIGKQLMGLDLQMIIDRSHMEWKNLVELKWNRLEEN 240
Query: 227 STHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQI-D 285
+ WED K+ RRK+FLV RM+LAKHF+RTNIEP+WMVLCLLPVLPPE RPI+Q+ +
Sbjct: 241 QESTVDRWEDEKIRRRKDFLVGRMKLAKHFLRTNIEPKWMVLCLLPVLPPEPRPIVQLGE 300
Query: 286 GGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQ 345
GG + SSD+NELYRRVI RNNTL +LL +RS V+ Q KL+QEAVD LLDNGI Q
Sbjct: 301 GGLITSSDLNELYRRVINRNNTLTNLL--ARSGSESFVIYQTKLIQEAVDALLDNGICRQ 358
Query: 346 PMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAI 405
PM+D HN+ YKSFSD+IEGKEGRFRE LLGKRVDYSGRSVIVVGP LSL++CGLP EIAI
Sbjct: 359 PMRDSHNRPYKSFSDVIEGKEGRFRENLLGKRVDYSGRSVIVVGPFLSLYQCGLPSEIAI 418
Query: 406 ELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGI 465
ELFQ FLIRSLI +H A N+ AKS IR+K PIVWE+LQEVM+GHPILLNRAPTLH+LGI
Sbjct: 419 ELFQAFLIRSLIGRHIAPNLRTAKSMIRDKGPIVWEVLQEVMQGHPILLNRAPTLHKLGI 478
Query: 466 QAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPA 525
QAFQPILVEGRAI LHP VC GFNADFDGDQMA+HVPLSLEA+AEARLLMFS TNLLSPA
Sbjct: 479 QAFQPILVEGRAIRLHPSVCGGFNADFDGDQMAVHVPLSLEARAEARLLMFSETNLLSPA 538
Query: 526 IGDPIAVPTQDMLIGLYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSN 585
IGDPI++PTQDML+GLYI T N +GI NRY+ + +N K + KK F+S
Sbjct: 539 IGDPISIPTQDMLLGLYISTVQNSQGIYGNRYHPYHSEN--------KSFSCKKPSFYSY 590
Query: 586 SYDAIGAFRQKKINFDSPFWLRW-RLDKCIMSS--REAPIEVHYESLGTYHDIYEHYLVI 642
D + A+RQK+I+ SP WLRW +D I++S +EAPIEV YESLGT+H+I+EHY +
Sbjct: 591 D-DVLRAYRQKRIDLYSPLWLRWGEVDLRIITSVNQEAPIEVQYESLGTFHEIHEHYRIR 649
Query: 643 RSIKKQICCIYIRTTIGHISFYREIEEAIQGF 674
+ +I IYIRTT+G F RE+EEAIQGF
Sbjct: 650 KGRMGEILNIYIRTTVGRTRFNREMEEAIQGF 681
>gi|11466381 beta' subunit of RNA polymerase [Mesostigma viride]
gb|AAF43825.1|AF166114_37 (AF166114) beta' subunit of RNA polymerase [Mesostigma viride]
Length = 668
Score = 580 bits (1478), Expect = e-164
Identities = 318/688 (46%), Positives = 438/688 (63%), Gaps = 60/688 (8%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
+ ++I SP++I W + L NGEIVGEVT+ T +Y+T KPE DGLFCERIFGP+K
Sbjct: 10 EYIQINLASPERILQWGQRTLSNGEIVGEVTRSETINYRTLKPEMDGLFCERIFGPVKDW 69
Query: 68 ICTCGNY-RVIGDKKDEPKF-CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSY 125
C CG Y RV +K E CE+CGVE ++S +RR++MG+IKLA PVTHVWYLK +PSY
Sbjct: 70 ECHCGRYKRVRYNKNSEISIVCERCGVEVIESGVRRHRMGHIKLASPVTHVWYLKGIPSY 129
Query: 126 IANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFD 185
I+ +L P K++E +VY + + + + + + ++ ++ +S +
Sbjct: 130 ISVILGMPRKDVENIVYYNNNDS---------ISFKNISQFLTENRFFSNSTDILDDLLN 180
Query: 186 TFRNREISSGAGAIREQLVDLDLRIV---IDSSLVEWKELGEERSTHN---------ENE 233
E SG AI + L + DL+ I L E + + S N EN+
Sbjct: 181 IKEKEEEISGGEAIYKMLKNFDLKATAQKIREDLAENEAAWTQSSFFNGEDSDWVLDENQ 240
Query: 234 W---------EDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQI 284
W E+ + +++N L++R+ + HFI T +PEWMVL +LPVLPPELRP++Q+
Sbjct: 241 WNKKNQDWQIEEERRNKKRNKLIKRLRIINHFIATGAKPEWMVLSILPVLPPELRPMVQL 300
Query: 285 DGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRG 344
DGG+ +SD+N+LYRRVI RNN L L + P +V +++++QE+VD L+DNG RG
Sbjct: 301 DGGRFATSDLNDLYRRVINRNNRLAKL--NNMLAPEIVVRSEKRMLQESVDALIDNGKRG 358
Query: 345 QPMKDGHNKV-YKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREI 403
+ + G+NK+ KS SDII+GK+GRFR+ LLGKRVDYSGRSVIVVGP+L LH+CGLP+E+
Sbjct: 359 KALV-GNNKIPLKSLSDIIKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKLHQCGLPKEM 417
Query: 404 AIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRL 463
AIELFQ F+I +LI + A+NI AK I+ +PI+WEIL +V++GHP+LLNRAPTLHRL
Sbjct: 418 AIELFQPFVIHTLINEGLANNIKGAKKIIQNSDPILWEILNQVIQGHPVLLNRAPTLHRL 477
Query: 464 GIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLS 523
GIQAF+PILVEGRAI LHPLVC FNADFDGDQMA+H+PLSLEAQ EARLLM + +NLLS
Sbjct: 478 GIQAFEPILVEGRAIQLHPLVCPAFNADFDGDQMAVHIPLSLEAQTEARLLMLASSNLLS 537
Query: 524 PAIGDPIAVPTQDMLIGLYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFF 583
PA G PI P+QDM++G Y LT+ D + K +F
Sbjct: 538 PATGLPIISPSQDMVLGCYYLTT------------------------EDIRLRGTKSHYF 573
Query: 584 SNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIR 643
S+ I A+ QKKIN + W+R+ ++ PIE+ +SLG IY++Y + +
Sbjct: 574 SSLEQVIMAYDQKKINLHTIVWVRFSGIIDSKYIKQNPIEIRVDSLGFVSYIYKNYQMRK 633
Query: 644 SIKKQICCIYIRTTIGHISFYREIEEAI 671
K + YIRTT G I F + I+ ++
Sbjct: 634 DFKNNLISQYIRTTPGRILFNQVIQNSL 661
>sp|P22704|RPOC_ANASP DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||B42361 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Anabaena sp.
(strain PCC 7120)
gb|AAA22033.1| (M60831) RNA polymerase gamma-subunit [Anabaena variabilis]
Length = 625
Score = 561 bits (1430), Expect = e-158
Identities = 306/669 (45%), Positives = 422/669 (62%), Gaps = 64/669 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP++I W + LPNG++VGEVTKP T +Y+T KPE DGLFCERIFGP K C
Sbjct: 12 VKIGLASPERIRQWGERTLPNGQVVGEVTKPETINYRTLKPEMDGLFCERIFGPAKDWEC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + + CE+CGVE +SR+RR++MGYIKLA PV HVWYLK +PSYI+ L
Sbjct: 72 HCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGYIKLAAPVAHVWYLKGIPSYISIL 128
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP------TFLRLRGLFEY-EIQSWKYSIPLFFATH 182
LD PL+++E +VY F VV P T+ +L ++ EI+ YS
Sbjct: 129 LDMPLRDVEQIVY----FNSYVVLSPGNAETLTYKQLLSEDQWLEIEDQIYSED------ 178
Query: 183 GFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRR 242
+ E+ GA A+ L D++L +S +E+G + G++
Sbjct: 179 --SQLQGVEVGIGAEALLRLLADINLEQEAESLR---EEIGSAK-------------GQK 220
Query: 243 KNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVI 302
+ L++R+ + +FI T +PEWMV+ ++PV+PP+LRP++Q+DGG+ +SD+N+LYRRVI
Sbjct: 221 RAKLIKRLRVIDNFIATGSKPEWMVMTVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVI 280
Query: 303 YRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDII 362
RNN L L P +V +++++QEAVD L+DNG RG+ + +N+ KS SDII
Sbjct: 281 NRNNRLARLQEIL--APEIIVRNEKRMLQEAVDALIDNGRRGRTVVGANNRPLKSLSDII 338
Query: 363 EGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFA 422
EGK+GRFR+ LLGKRVDYSGRSVIVVGP L +H+CGLPRE+AIELFQ F+I LIR
Sbjct: 339 EGKQGRFRQNLLGKRVDYSGRSVIVVGPKLKIHQCGLPREMAIELFQPFVINRLIRSGMV 398
Query: 423 SNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHP 482
+NI AK I +P VW++L+EV+ GHP++LNRAPTLHRLGIQAF+PILVEGRAI LHP
Sbjct: 399 NNIKAAKKLISRNDPSVWDVLEEVIEGHPVMLNRAPTLHRLGIQAFEPILVEGRAIQLHP 458
Query: 483 LVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLY 542
LVC FNADFDGDQMA+HVPLSLE+QAEARLLM + N+LSPA G PI P+QDM++G Y
Sbjct: 459 LVCPAFNADFDGDQMAVHVPLSLESQAEARLLMLASNNILSPATGRPIITPSQDMVLGAY 518
Query: 543 ILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDS 602
LT+ N K +F++ D I AF+Q++I+ +
Sbjct: 519 YLTAENPGA------------------------TKGAGKYFASLDDVIMAFQQEQIDLHA 554
Query: 603 PFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHIS 662
++R+ D P++V G+ +Y++ V + + YI TT G +
Sbjct: 555 YVYVRFDGDVESDQPDTEPVKVTTNEDGSRTVLYKYRRVREDAQGNVISQYIYTTPGRVI 614
Query: 663 FYREIEEAI 671
+ + I+EA+
Sbjct: 615 YNKAIQEAL 623
>gi|11465717 DNA-directed RNA polymerase beta' chain [Porphyra purpurea]
sp|P51251|RPOC_PORPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||S73172 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - red alga
(Porphyra purpurea) chloroplast
gb|AAC08137.1| (U38804) DNA-directed RNA polymerase beta' chain [Porphyra
purpurea]
Length = 629
Score = 555 bits (1415), Expect = e-157
Identities = 302/664 (45%), Positives = 422/664 (63%), Gaps = 49/664 (7%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP++I W + LPNG+IVGE+TKP T +Y+T KPE DGLFCE+IFGP+K C
Sbjct: 11 VKISLASPEKIRQWGERSLPNGQIVGEITKPETINYRTLKPEMDGLFCEKIFGPVKDWEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ K CE+CGVE +SR+RR++M YI+LA PVTHVWYLK SYIA
Sbjct: 71 HCGKYKRFRYKGI---VCERCGVEVTESRVRRHRMAYIELASPVTHVWYLKGSTSYIALA 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFE-YEIQSWKYSIPLFFATHGFDTFR 188
LD +KE+E +VY S+ + T L+ + L E YE +S + I D
Sbjct: 128 LDLKVKEVEKIVYFH-SYVVTQSSEETNLKYKQLLEGYEWKSLEEEI-----YQNQDENN 181
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
E+ GA AI++ L DLDL + ++ +E +T+ ++ + K ++
Sbjct: 182 QIEVGIGAEAIQKLLKDLDLEYIAETLRLE--------ATNPPKSFKTPSLKFNKK--MK 231
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R+ L ++FI T +P WMV ++PV+PP+LRP++Q+DGG+ ++D+NE YRR+I RNN L
Sbjct: 232 RLRLIENFIATGADPSWMVFTVIPVIPPDLRPMVQLDGGRFATADLNEFYRRIINRNNRL 291
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
L S P ++ +++++QEAVD+L+DNG RG+ + +N+ KS SDIIEGK+GR
Sbjct: 292 SRL--KSILAPEIIIRNEKRMLQEAVDSLMDNGRRGRTVVGANNRPLKSLSDIIEGKQGR 349
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVIVVGP L LH+CGLPRE+A+ELFQ F+I LI + +NI A
Sbjct: 350 FRQNLLGKRVDYSGRSVIVVGPHLKLHQCGLPREMALELFQPFVIHRLILQGLVNNIKAA 409
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K I++ E +W +L EV++GHP+LLNRAPTLHRLGIQAF+PILVEGRAI LHPLVC F
Sbjct: 410 KKMIQKNESSIWNVLNEVIQGHPVLLNRAPTLHRLGIQAFEPILVEGRAIKLHPLVCPAF 469
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGN 548
NADFDGDQMA+HVPLSLEAQAEARLLM + N LSPA G PI +P+QDM++G Y LT+ N
Sbjct: 470 NADFDGDQMAVHVPLSLEAQAEARLLMLAPHNFLSPATGQPIIMPSQDMVLGCYYLTANN 529
Query: 549 RRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRW 608
+ +F++ D + A+ +KK++ + W R+
Sbjct: 530 ------------------------PSQQRGASQYFASLEDVVIAYEKKKVDLHAYIWARF 565
Query: 609 RLDKCIMSSR-EAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFYREI 667
D I S + + PI++ + ++++++ + Q YIRTT G I F + I
Sbjct: 566 --DGVIDSDQVKFPIKIETHHDNSVTKFFDNHIIKEDAEHQRIVQYIRTTPGRIIFNKII 623
Query: 668 EEAI 671
+E++
Sbjct: 624 QESL 627
>gi|11467689 RNA polymerase b'-chain [Guillardia theta]
sp|O78484|RPOC_GUITH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
gb|AAC35675.1| (AF041468) RNA polymerase b'-chain [Guillardia theta]
Length = 623
Score = 554 bits (1413), Expect = e-156
Identities = 305/611 (49%), Positives = 405/611 (65%), Gaps = 59/611 (9%)
Query: 2 IDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIF 61
++QY ++I SPQ+I W + LPNG++VGEVTKP T +Y+T KPE DGLFCERIF
Sbjct: 4 LEQY-FDYVKINLASPQRIKKWGERRLPNGQVVGEVTKPETINYRTLKPEMDGLFCERIF 62
Query: 62 GPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKR 121
GP+K C CG Y+ + K CE+CGVE +S++RR++MGYI+LA PVTHVWYLK
Sbjct: 63 GPVKDWECHCGKYKRVRYKGI---VCERCGVEVAESKVRRHRMGYIELAAPVTHVWYLKS 119
Query: 122 LPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLF 178
LPSYI+ LLD PLK++E +VY F VV KP T LR + L + W I +
Sbjct: 120 LPSYISILLDIPLKDVEQVVY----FNSYVVTKPGNCTNLRYKQLLSED--EW---IAIE 170
Query: 179 FATHGFDT-FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDR 237
+ D+ E+ GA AI++ L D+DL VE + L EE
Sbjct: 171 DQLYQEDSELTGVEVGIGAEAIQKLLRDIDLE-------VEAESLREEILVVK------- 216
Query: 238 KVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINEL 297
G +K+ ++R+ + +FI T +P WM+L +LPV+PP+LRP++Q+DGG+ +SD+N+L
Sbjct: 217 --GIKKDKSIKRLRVIDNFIATRSDPTWMILTVLPVIPPDLRPMVQLDGGRFATSDLNDL 274
Query: 298 YRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKS 357
YRRV+ RNN LI L P ++ +++++QE+VD L+DNG RG+ + +N+ KS
Sbjct: 275 YRRVLNRNNRLIRLQEIL--APEIIIRNEKRMLQESVDALIDNGRRGRTVMGANNRPLKS 332
Query: 358 FSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLI 417
SDIIEGK+GRFR+ LLGKRVDYSGRSVIVVGP L L++CGLPRE+A+ELFQ F+I LI
Sbjct: 333 LSDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGPQLELNQCGLPREMALELFQPFVIHKLI 392
Query: 418 RKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
++ +NI AK I++ E IVW +L+EV++GHPILLNRAPTLHRLGIQAF+PILVEGRA
Sbjct: 393 QQGLVNNIKAAKRLIQKNELIVWNVLEEVIQGHPILLNRAPTLHRLGIQAFEPILVEGRA 452
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
I LHPLVC FNADFDGDQMA+H+PLSLEAQAEAR+LM + N LSPA GDPI +P+QDM
Sbjct: 453 IKLHPLVCPAFNADFDGDQMAVHIPLSLEAQAEARMLMLAPYNFLSPATGDPIIMPSQDM 512
Query: 538 LIGLYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKK 597
++G Y LT+ N + + NRS +FSN D + A+ K
Sbjct: 513 VLGCYYLTAENP----SQQVNRS--------------------LYFSNFDDVLLAYETKL 548
Query: 598 INFDSPFWLRW 608
I S W+R+
Sbjct: 549 IKLHSYVWVRF 559
>gi|11467372 gamma subunit of RNA polymerase [Cyanophora paradoxa]
sp|P42080|RPOC_CYAPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||T06917 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Cyanophora
paradoxa cyanelle
gb|AAA81260.1| (U30821) gamma subunit of RNA polymerase [Cyanophora paradoxa]
Length = 636
Score = 552 bits (1408), Expect = e-156
Identities = 309/679 (45%), Positives = 425/679 (62%), Gaps = 62/679 (9%)
Query: 6 KHQQ----LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIF 61
KH+Q ++I SP++I W +IL NGEIVG++TKP T +Y+T KPE DGLFCE+IF
Sbjct: 3 KHEQYFDYVKINLASPERIRQWGERILKNGEIVGKITKPETINYRTLKPEMDGLFCEKIF 62
Query: 62 GPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKR 121
GP+K C CG Y+ I + CE+CGVE +S++RR++MGYI+LA PVTH+WYLK
Sbjct: 63 GPVKDWECHCGKYKSIFYRG---VICERCGVEITESQVRRHRMGYIELAAPVTHIWYLKG 119
Query: 122 LPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLF 178
+PSYI+ LL+K +KE+E +VY F VV P L + + + W Y
Sbjct: 120 IPSYISILLNKKVKEIEQVVY----FNAYVVLNPGKSDLLNYGVILTEDDEKWPYIEEKL 175
Query: 179 FATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRK 238
+ D E+ GA AI+ L DLDL+ E K + E ++++ + +K
Sbjct: 176 YTKELMDV----ELGIGAEAIQRLLSDLDLQ-------AEAKTIREILISNSDKKKNTQK 224
Query: 239 VGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELY 298
+ L++++ + +FI T +PEWM+L L+PV+PP+LRP++Q+DGG+ +SD+N+LY
Sbjct: 225 RAK----LIKKLRIINNFIATKAKPEWMILSLIPVIPPDLRPMVQLDGGRFATSDLNDLY 280
Query: 299 RRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSF 358
RRVI RNN L+ L P +V +++++QEAVD L+DNG RG+ + N+ KS
Sbjct: 281 RRVINRNNRLLRLQEVF--APEIVVRNEKRILQEAVDALIDNGRRGRIVVGAKNRPLKSL 338
Query: 359 SDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIR 418
SDIIEGK+GRFR+ LLGKRVDYSGRSVIVVG L L++CGLP E+AIELFQ F+I LI
Sbjct: 339 SDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGLQLKLYQCGLPWEMAIELFQPFVIHRLIH 398
Query: 419 KHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAI 478
+ +NI AK I+ +PI+ +IL+EV++ HP+LLNRAPTLHRL IQAF+PILVEGRAI
Sbjct: 399 QGLVNNIKAAKKLIQSNDPIIRDILEEVIQNHPVLLNRAPTLHRLSIQAFEPILVEGRAI 458
Query: 479 CLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDML 538
LHPLVC FNADFDGDQMA+HVPLSLEAQ EARLLM + NLLSPA G PI P+QDM+
Sbjct: 459 QLHPLVCPAFNADFDGDQMAVHVPLSLEAQTEARLLMLASNNLLSPATGQPIVTPSQDMV 518
Query: 539 IGLYILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKI 598
+G Y LT N K K K +F NS D + A+ Q++I
Sbjct: 519 LGCYYLTVDN------------------------LKNQKGKGSYFINSEDVLIAYEQQRI 554
Query: 599 NFDSPFWLR---WRLDKCI--MSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCI- 652
+ S W+R + D + + ++ + + GT +Y + IR K C
Sbjct: 555 DLHSYIWVRFDTFSFDDILEEKNIQQVLYKREIDEFGTVIKVY-NTRRIREDKDGFCLTQ 613
Query: 653 YIRTTIGHISFYREIEEAI 671
YI TT G + F + +++A+
Sbjct: 614 YIITTAGRVLFNKVVQKAL 632
>sp|P74177|RPOC_SYNY3 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S75807 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain -
Synechocystis sp. (strain PCC 6803)
dbj|BAA18266.1| (D90913) RNA polymerase gamma-subunit [Synechocystis sp.]
Length = 626
Score = 545 bits (1388), Expect = e-154
Identities = 300/667 (44%), Positives = 414/667 (61%), Gaps = 59/667 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP++I W + LPNG +VGEVTKP T +Y+T KPE DGLFCE+IFGP K C
Sbjct: 12 VKIAIASPERIRQWGERTLPNGTVVGEVTKPETINYRTLKPEMDGLFCEKIFGPSKDWEC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + + CE+CGVE +SR+RR++MGYIKLA PVTHVWYLK +PSY++ L
Sbjct: 72 WCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGYIKLAAPVTHVWYLKGIPSYLSIL 128
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDT 186
LD L+++E +VY F VV P + L+ + L + W +A
Sbjct: 129 LDMALRDVEQIVY----FNAYVVLNPGNASNLQYKQLLTED--QWVEIEDQIYAEDS--E 180
Query: 187 FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
E+ GA A++ L +L L V + +L EE G+++ L
Sbjct: 181 LEGIEVGIGAEAVQRLLAELQLEEVAE-------KLREEILASK---------GQKRAKL 224
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
++R+ + +FI T+ + EWM L ++PV+PP+LRP++Q+DGG+ +SD+N+LYRRVI RNN
Sbjct: 225 IKRLRVIDNFIATHSQAEWMTLDVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRNN 284
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L P +V +++++QEAVD L+DNG RG+ + +N+ KS SDIIEGK+
Sbjct: 285 RLARLQEIL--APEIIVRNEKRMLQEAVDALIDNGRRGRTVVGANNRALKSLSDIIEGKQ 342
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLPRE+AIELFQ F+I LI+ +NI
Sbjct: 343 GRFRQNLLGKRVDYSGRSVIVVGPNLKIYQCGLPREMAIELFQPFVIHRLIKLGIVNNIK 402
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK I + +P +W +L+EV+ GHP++LNRAPTLHRLGIQAF+PILVEGRAI LHPLVC
Sbjct: 403 AAKKLILKGDPQIWSVLEEVITGHPVMLNRAPTLHRLGIQAFEPILVEGRAIQLHPLVCP 462
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
FNADFDGDQMA+HVPLSLEAQ EARLLM + N+LSPA G PI P+QDM++G Y LT+
Sbjct: 463 AFNADFDGDQMAVHVPLSLEAQCEARLLMLACHNVLSPATGKPIVAPSQDMVLGCYYLTA 522
Query: 547 GNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWL 606
N K +F+ DA+ A+ +++ S W+
Sbjct: 523 ENPNA------------------------QKGAGRYFAGIEDALRAYDHGQVDLHSQIWI 558
Query: 607 RWRLDKCIMSSREAPIEVHYESL--GTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFY 664
R LD+ +++ + + E L GT Y + + +I YI+TT G I +
Sbjct: 559 R-HLDEDVVTEKPDTEVIKTEDLGDGTVMKYYRERKIREGVDGEIITQYIQTTPGRIIYN 617
Query: 665 REIEEAI 671
+ I EA+
Sbjct: 618 KTIAEAL 624
>gi|11465576 unknown; DNA-directed RNA polymerase beta' chain [Cyanidium
caldarium]
gb|AAB82692.2| (AF022186) unknown; DNA-directed RNA polymerase beta' chain
[Cyanidium caldarium]
Length = 633
Score = 533 bits (1359), Expect = e-150
Identities = 291/657 (44%), Positives = 412/657 (62%), Gaps = 56/657 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP++I WA +ILPNG+IVGEVTKP T +Y+T KPE DGLFCERIFGPIK+ C
Sbjct: 13 IKICLASPERIRVWAQRILPNGQIVGEVTKPETINYRTLKPEMDGLFCERIFGPIKNWEC 72
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ I KD+ CE+CGVE +S++RR++MGYI+L+ PV H+WYLK +PSYI+
Sbjct: 73 HCGKYKRI---KDKGIICERCGVEVTESKVRRHRMGYIELSAPVVHIWYLKGMPSYISVF 129
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRN 189
LD KE+E +VY + + ++ + L + W + +
Sbjct: 130 LDMAAKEIEQVVYFNTYIITHSTAENKQIKYKQLLTED--EWVLIEDQIYRN---EIQGE 184
Query: 190 REISSGAGAIREQLVDLDLRIVID---SSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
EI GA AI + L DLDL + D + LV K + +K+ +
Sbjct: 185 IEIGIGASAILKMLKDLDLSLESDLLRTKLVNLKAV-------------------KKDKI 225
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
++R+ + +F+ T P WMVL ++PV+ P+LRP++Q+DGG+ +SD+N+LYRRVI RNN
Sbjct: 226 MKRLRIIDNFMVTGASPSWMVLNVIPVISPDLRPMVQLDGGRFATSDLNDLYRRVINRNN 285
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L P ++ +++++QEAVD L+DNG RG+ + +N+ KS S+IIEGK+
Sbjct: 286 RLKRL--EEILAPEIIIRNEKRMLQEAVDALIDNGRRGRVVVGANNRALKSLSNIIEGKQ 343
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVIVVGP L L+ CG+P+E+AIELFQ FLI +I++ A+N+
Sbjct: 344 GRFRQNLLGKRVDYSGRSVIVVGPDLKLNECGIPKEMAIELFQPFLIHQIIKEGLANNMK 403
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK +++ + E+LQ++++ HP+LLNRAPTLHRLGIQAF P+LV+GRAI LHPLVC
Sbjct: 404 SAKKLMQKHTSVTIELLQKIIKWHPVLLNRAPTLHRLGIQAFDPVLVDGRAIRLHPLVCP 463
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
FNADFDGDQMA+H+PLS+EAQ EARLLM + N LSPA G PI P+QDM++G Y LT+
Sbjct: 464 AFNADFDGDQMAVHIPLSIEAQTEARLLMLAPNNFLSPATGQPIITPSQDMVLGCYYLTN 523
Query: 547 GNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWL 606
N +N K S + +FS+ DAI A++QK I+ + W+
Sbjct: 524 N----------NLANQKGSGH--------------YFSSFEDAIIAYKQKLISLHAFIWV 559
Query: 607 RWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISF 663
++ + ++ T D YE+ V + I+ I C +I+T++G I F
Sbjct: 560 KFYGTINNLDIGRFIKSTLCKNKLTTTDYYENLQVKKDIEGTITCQFIKTSVGRIFF 616
>gi|11467789 beta' subunit of RNA polymerase [Nephroselmis olivacea]
gb|AAD54811.1|AF137379_34 (AF137379) beta' subunit of RNA polymerase [Nephroselmis olivacea]
Length = 863
Score = 523 bits (1333), Expect = e-147
Identities = 298/711 (41%), Positives = 416/711 (57%), Gaps = 77/711 (10%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
L++ SP +I +W T LPNG+ VG +TK T +Y+T KPE DGLFCER FGP+K C
Sbjct: 100 LKLRIASPTRIRSWGTHKLPNGKQVGRITKAETINYRTYKPEMDGLFCERAFGPVKDWEC 159
Query: 70 TCGNYRVIGDKKDE---PKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYI 126
CG + KD P+ C CGVE DS+IRR++MGYI+L PV H+WYLK +PSY+
Sbjct: 160 HCGRTKGQERNKDGIPIPRVCTHCGVELRDSKIRRHRMGYIELVYPVVHIWYLKSIPSYL 219
Query: 127 ANLLDKPLKELEGLVYCD----------FSFARPVVKKPTFLRLRGLFEYEIQSWKYS-- 174
LLDKP +ELE + YC FS + +F + + ++E +W +
Sbjct: 220 GVLLDKPRRELEAITYCTNYASSQDSMAFSASLLFPTTGSFRQSKDSMKWEYLNWFHIET 279
Query: 175 -IPLFFATH-----------------GFDTFRN-REISSGAGAIREQLVDLDLRIVIDSS 215
+ L AT+ G + R+ S GA AI QL L+LR V
Sbjct: 280 YLGLKEATNSALVHYGKRIQDSPIEVGLPLSEDPRQFSIGAQAIACQLRALNLRSVSRLL 339
Query: 216 LVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLP 275
+ + + E E+ K R++ L+RR++L +F++T +PEWMV+ LPVLP
Sbjct: 340 SRDLYIIDARETRFGALEEEEMK---RRSKLIRRLQLIHYFMQTKAQPEWMVIKALPVLP 396
Query: 276 PELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVD 335
P+LRPI+Q++GG+ ++D+N+LYRRV+ RNN + L P L+ +++L+QEAVD
Sbjct: 397 PDLRPIVQLEGGRFATTDLNDLYRRVLNRNNRFMKL--HKMVAPETLIRSEKRLLQEAVD 454
Query: 336 TLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLH 395
L DNG RG+P+ + N+ KS +D ++GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH
Sbjct: 455 GLFDNGKRGKPVLNSSNRPLKSLADALKGKQGRFRQNLLGKRVDYSGRSVIVVGPKLRLH 514
Query: 396 RCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREK-----------EPIVWEILQ 444
+CGLP+E+A+ELFQ +IR L+++ A NI AK + + +VW+ L
Sbjct: 515 QCGLPKEMALELFQPLVIRLLLKRKVAPNIRYAKKLMHHAVARGPENPTIIDAVVWDTLA 574
Query: 445 EVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLS 504
V+ G+PILLNRAPTLHRLGIQAF+P+L+ GRAI LHPLVC GFNADFDGDQM +H+PLS
Sbjct: 575 AVVEGYPILLNRAPTLHRLGIQAFEPVLINGRAIQLHPLVCTGFNADFDGDQMGVHIPLS 634
Query: 505 LEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRYNRSNWKN 564
EA+AEA+LLM + NLLSPA G PI VP+QDM++G Y LT+ N W
Sbjct: 635 AEARAEAKLLMLASHNLLSPATGQPIVVPSQDMVLGWYYLTTEN------------PWIE 682
Query: 565 SKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLD---KCIMSSREAP 621
S + +FS D A+ Q +I+ S W+RW + + P
Sbjct: 683 S------------TEGLYFSGLSDVEHAYHQGQIHLHSIIWVRWGGESEGSLGDEFEDNP 730
Query: 622 IEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFYREIEEAIQ 672
+E+ ++ G IY Y + + + +IRTT G + F + + I+
Sbjct: 731 LEIRIDANGHSWHIYSQYQLRYDDEGDLISQFIRTTTGRVVFNQLVHRHIE 781
>sp|P14563|RPOC_NOSCO DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||A32838 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Nostoc
commune
gb|AAA25517.1| (M29747) DNA-dependent RNA polymerase gamma subunit (EC 2.7.7.6)
[Nostoc commune]
Length = 621
Score = 502 bits (1279), Expect = e-141
Identities = 292/669 (43%), Positives = 405/669 (59%), Gaps = 68/669 (10%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP++I W + LPNG++VGEVTKP T +Y+T KPE DGLFCERIFGP K C
Sbjct: 12 VKIGLASPERIRQWGERTLPNGQVVGEVTKPETINYRTLKPEMDGLFCERIFGP-KDWEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + E +E +SR+RR++MGYIKLA PV HV Y K + I +
Sbjct: 71 HCGKYK---ESVIEVLSVSAVVLEVTESRVRRHRMGYIKLAAPVAHVGYSKAFLA-IFHS 126
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP------TFLRLRGLFEY-EIQSWKYSIPLFFATH 182
+ L+++E +VY F VV P T+ +L ++ EI+ YS
Sbjct: 127 VGYALRDVEQIVY----FNSYVVLSPGNAETLTYKQLLSEDQWLEIEDQIYSED------ 176
Query: 183 GFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRR 242
+ E+ GA A+ L D++L +S +E+G + G++
Sbjct: 177 --SLLQGVEVGIGAEALLRLLADINLEQEAESLR---EEIGNAK-------------GQK 218
Query: 243 KNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVI 302
+ L++R+ + +FI T +PEWMV+ ++PV+PP+LRP++Q+DGG+ +SD+N+LYRRVI
Sbjct: 219 RAKLIKRLRVIDNFIATGSKPEWMVMAVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVI 278
Query: 303 YRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDII 362
RNN L L P +V +++++QEAVD L+DNG RG+ + +N+ KS SDII
Sbjct: 279 NRNNRLARLQEIL--APEIIVRNEKRMLQEAVDALIDNGRRGRTVVGANNRPLKSLSDII 336
Query: 363 EGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFA 422
EGK+GRFR+ LLGKRVDYSGRSVIVVGP L +H+CGLPRE+AIELFQ F+I LIR
Sbjct: 337 EGKQGRFRQNLLGKRVDYSGRSVIVVGPKLKIHQCGLPREMAIELFQPFVINRLIRSGMV 396
Query: 423 SNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHP 482
I A I +P VW++L+EV+ GHP++LNRAPTLHRLGIQ+F+PILVEGRAI LHP
Sbjct: 397 --IHQAAPMISRNDPSVWDVLEEVIEGHPVMLNRAPTLHRLGIQSFEPILVEGRAIQLHP 454
Query: 483 LVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLY 542
LVC FNADFDGDQMA+HVPLSLE+QAEARLLM + N+LSPA G PI P+QDM++G Y
Sbjct: 455 LVCPAFNADFDGDQMAVHVPLSLESQAEARLLMLASNNILSPATGKPIITPSQDMVLGAY 514
Query: 543 ILTSGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDS 602
LT+ N K +FS+ D I AF+Q++I+ +
Sbjct: 515 YLTAENPGA------------------------TKGAGKYFSSLEDVIMAFQQEQIDLHA 550
Query: 603 PFWLRWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHIS 662
++R+ + P++V GT +Y+ V + K + YI TT G +
Sbjct: 551 YIYVRFDGEIESDQPDTEPVKVTENEDGTRTLLYKFRRVRQDAKGNVLSQYIYTTPGRVI 610
Query: 663 FYREIEEAI 671
+ I+EA+
Sbjct: 611 YNNAIQEAL 619
>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 = 495 bits (1260), Expect = e-139
Identities = 261/540 (48%), Positives = 364/540 (67%), Gaps = 46/540 (8%)
Query: 9 QLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGI 68
Q+RI SP Q+ +W+ GEVTKP T +Y+T KPEKDGLFC RIFGP+K
Sbjct: 18 QIRINIASPDQVRSWS---------FGEVTKPETINYRTFKPEKDGLFCARIFGPVKDYE 68
Query: 69 CTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIAN 128
C CG Y+ + K+ CE+CGVE SR+RR +MG+I+LA PV H+W+LK LPS I+
Sbjct: 69 CLCGKYKRM---KNRGITCEKCGVEVTVSRVRRERMGHIELAAPVAHIWFLKSLPSRIST 125
Query: 129 LLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPLFFATHGFD 185
LLD ++++E ++Y F VV P L+ L E E+Q K +G D
Sbjct: 126 LLDMTMRDVEKILY----FENYVVVDPGLSILQKGELLTEEELQKAKDK-------YGED 174
Query: 186 TFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNF 245
F S GA I++ L +LD + +L +E ++E +V ++K
Sbjct: 175 AFT---ASIGAEVIQQMLKELD-----------FSKLKQE--LYDELHITSSEVKKKK-- 216
Query: 246 LVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRN 305
LV+R++L + F+ + +PEWM++ +LPV+PPE+RP++ +DGG+ +SD+NELYRRVI RN
Sbjct: 217 LVKRLKLVEDFLESENKPEWMIMDVLPVIPPEIRPLVMLDGGRFATSDLNELYRRVINRN 276
Query: 306 NTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGK 365
N L L+ + P +V +++++QEAVD L DNG RG+ K+ + + +KS SD+++GK
Sbjct: 277 NRLKKLIESK--APDIIVRNEKRMLQEAVDALFDNGRRGRAAKNANKRPFKSLSDMLKGK 334
Query: 366 EGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNI 425
+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+++A+ELF+ F+ L A+ I
Sbjct: 335 QGRFRQNLLGKRVDYSGRSVIVVGPELKLHQCGLPKKMALELFKPFIYSKLELYGIATTI 394
Query: 426 GVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVC 485
AK + ++P VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 395 KAAKRMVEAEKPEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPLLIEGKAIQLHPLVC 454
Query: 486 KGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+H+PLS+EAQ EAR+ M S N+LSPA G PI VP +D+++GLY LT
Sbjct: 455 AAFNADFDGDQMAVHIPLSIEAQLEARVFMMSTNNILSPANGRPIIVPDKDIVLGLYYLT 514
>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 = 492 bits (1254), Expect = e-138
Identities = 263/550 (47%), Positives = 361/550 (64%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID + ++IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MIDVNNFEYMKIGLASPNKIRSWSR---------GEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPQKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSW--KYSI 175
+PS + +LD + LE ++Y FA VV P L L E E +++ KY
Sbjct: 109 GIPSRMGLVLDMSPRSLEEVIY----FASYVVTDPGDTPLEKKQLLSEKEFRAYLDKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
R+ GA AIR+ L+D+DL +D L EE T
Sbjct: 164 ------------RSFTAQMGAEAIRKLLMDIDLDKEVDG-------LKEELQTAQ----- 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ ++R+E+ + F + EP WM+L +LPV+PPELRP++Q+DGG+ +SD+N
Sbjct: 200 ----GQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRPMVQLDGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFVMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ K A NI AK K+ +P VW++L+EV++ HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVSKGLAHNIKSAKRKVERVQPEVWDVLEEVIKEHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+Q
Sbjct: 434 RAIKLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 492 bits (1254), Expect = e-138
Identities = 261/550 (47%), Positives = 361/550 (65%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 MLDVNNFEYMKIGLASPDKIRSWSH---------GEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP+K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPMKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + ++D + LE ++Y FA VV +P T L + L EY + KY
Sbjct: 109 GIPSRMGLVMDMSPRALEEIIY----FASYVVTEPGDTPLEKKQLLSEKEYRVYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
+N GA AI++ L D+DL E +EL E T
Sbjct: 164 ------------KNFHAGMGAEAIKKILSDIDLE-------KETQELKAELQTAQ----- 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + EP WM+L +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 200 ----GQRRTRAIRRLEVMEAFRNSGNEPSWMILDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APNIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFIMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ + A NI AK KI VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVSRGLAHNIKSAKRKIERMAAEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEARLLM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARLLMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 492 bits (1253), Expect = e-138
Identities = 259/550 (47%), Positives = 361/550 (65%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 MLDVNNFEYMKIGLASPDKIRSWSH---------GEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP+K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPMKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + ++D + LE ++Y FA VV +P T L + L EY + KY
Sbjct: 109 GIPSRMGLVMDMSPRALEEIIY----FASYVVTEPGDTPLEKKQLLSEREYRVYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
GF GA AI++ L D+DL E+ T++ E
Sbjct: 164 ------KGFSA------GMGAEAIKKILADIDL----------------EKETNDLKEEL 195
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + P WMVL +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 196 KSAQGQRRTRAIRRLEVMEAFRNSGNNPSWMVLDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APNIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFVMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ + A NI AK KI P +W++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVGRGLAHNIKSAKRKIERMAPEIWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>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 = 491 bits (1251), Expect = e-137
Identities = 260/550 (47%), Positives = 361/550 (65%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
++D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 LLDVNNFEYMKIGLASPDKIRSWSH---------GEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP+K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPMKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + ++D + LE ++Y FA VV +P T L + L EY + KY
Sbjct: 109 GIPSRMGLVMDMSPRALEEIIY----FASYVVTEPGDTPLEKKQLLSEKEYRVYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
+N GA AI++ L D+DL E +EL E T
Sbjct: 164 ------------KNFHAGMGAEAIKKILSDIDLE-------KETQELKAELQTAQ----- 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + EP WM+L +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 200 ----GQRRTRAIRRLEVMEAFRNSGNEPSWMILDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APNIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFIMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ + A NI AK KI VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVSRGLAHNIKSAKRKIERMAAEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEARLLM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARLLMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>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 = 491 bits (1250), Expect = e-137
Identities = 258/550 (46%), Positives = 361/550 (64%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
++D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 LLDVNNFEYMKIGLASPDKIRSWSH---------GEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP+K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPMKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + ++D + LE ++Y FA VV +P T L + L EY + KY
Sbjct: 109 GIPSRMGLVMDMSPRALEEIIY----FASYVVTEPGDTPLEKKQLLSEREYRVYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
GF GA AI++ L D+DL E+ T++ E
Sbjct: 164 ------KGFSA------GMGAEAIKKILADIDL----------------EKETNDLKEEL 195
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + P WMVL +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 196 KSAQGQRRTRAIRRLEVMEAFRNSGNNPSWMVLDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APNIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFVMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ + A NI AK KI P +W++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVGRGLAHNIKSAKRKIERMAPEIWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>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 = 489 bits (1245), Expect = e-137
Identities = 264/538 (49%), Positives = 361/538 (67%), Gaps = 45/538 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 21 IKIGLASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA PV H+W+LK LPS I L
Sbjct: 72 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPVAHIWFLKSLPSRIGLL 128
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRL-RGLFEYEIQSWKYSIPLFFATHGFDTFR 188
LD PL+++E ++Y F +V +P L RG E Q L D F
Sbjct: 129 LDMPLRDIERVLY----FEMYIVTEPGMTDLERGQLLTEEQY------LDAEDRWQDEF- 177
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEE-RSTHNENEWEDRKVGRRKNFLV 247
E GA AI++ L +DL E ++L EE + T++E + R+K +
Sbjct: 178 --EAKMGAEAIQDLLKGMDLE-------AECEKLREELQETNSETK-------RKK--IT 219
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+R++L + F+++ +PEWMV+ +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 220 KRLKLLEAFVQSGNKPEWMVMTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNR 279
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L LL P +V +++++QE+VD LLDNG RG+ + + + KS +D+I+GK+G
Sbjct: 280 LKRLLDLI--APDIIVRNEKRMLQESVDALLDNGRRGRAITGSNRRPLKSLADMIKGKQG 337
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
RFR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + +A+ I
Sbjct: 338 RFRQNLLGKRVDYSGRSVITVGPYLHLHQCGLPKKMALELFRPFIYAKLESRGYATTIKA 397
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
AK + ++ IVW+IL EV+R HPILLNRAPTLHRLGIQAF+PIL+EG+AI LHPLVC
Sbjct: 398 AKKMVEREDAIVWDILAEVIREHPILLNRAPTLHRLGIQAFEPILIEGKAIQLHPLVCAA 457
Query: 488 FNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA GDPI VP+QD+++GLY +T
Sbjct: 458 FNADFDGDQMAVHVPLTLEAQLEARALMMSTNNVLSPANGDPIIVPSQDVVLGLYYMT 515
>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 = 488 bits (1244), Expect = e-137
Identities = 258/543 (47%), Positives = 357/543 (65%), Gaps = 55/543 (10%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIGLASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA PV H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRDRMGHIELASPVAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRL-RGLF----EY--EIQSWKYSIPLFFATH 182
+D PL+++E ++Y F VV +P L RG EY ++ W
Sbjct: 128 MDMPLRDIERVLY----FEMYVVTEPGMTDLERGQMLTEEEYLDRLEEWG---------- 173
Query: 183 GFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRR 242
D F + GA AI++ L +DL E +++ EE T N +
Sbjct: 174 --DEFTAK---MGAEAIKDLLASMDLP-------AEAEQMREELDTTNSET--------K 213
Query: 243 KNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVI 302
+ L +R++L + F+ + +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI
Sbjct: 214 RKKLTKRLKLVEAFVASGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVI 273
Query: 303 YRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDII 362
RNN L LL + P +V +++++QE+VD LLDNG RG+ + + + KS +D+I
Sbjct: 274 NRNNRLKRLLELA--APDIIVRNEKRMLQESVDALLDNGRRGRAITGSNKRPLKSLADMI 331
Query: 363 EGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFA 422
+GK+GRFR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A
Sbjct: 332 KGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYSKLETRGLA 391
Query: 423 SNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHP 482
+ I AK + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHP
Sbjct: 392 TTIKAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHP 451
Query: 483 LVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLY 542
LVC +NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA GDPI VP+QD+++GLY
Sbjct: 452 LVCAAYNADFDGDQMAVHVPLTLEAQLEARTLMMSTNNILSPASGDPIIVPSQDVVLGLY 511
Query: 543 ILT 545
+T
Sbjct: 512 YMT 514
>pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subtilis
emb|CAB11884.1| (Z99104) RNA polymerase (beta' subunit) [Bacillus subtilis]
Length = 1199
Score = 488 bits (1242), Expect = e-136
Identities = 260/549 (47%), Positives = 358/549 (64%), Gaps = 50/549 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + + IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MLDVNNFEYMNIGLASPDKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPL 177
+PS + +LD + LE ++Y FA VV P L L E E +++
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTDPANTPLEKKQLLSEKEYRAY------ 158
Query: 178 FFATHGFDTFRNR-EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWED 236
D + N+ + S GA AI + L D+DL +D L EE T
Sbjct: 159 ------LDKYGNKFQASMGAEAIHKLLQDIDLVKEVDM-------LKEELKTSQ------ 199
Query: 237 RKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINE 296
G+R+ ++R+E+ + F + +P WM+L +LPV+PPELRP++Q+DGG+ +SD+N+
Sbjct: 200 ---GQRRTRAIKRLEVLEAFRNSGNKPSWMILDVLPVIPPELRPMVQLDGGRFATSDLND 256
Query: 297 LYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYK 356
LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+ K
Sbjct: 257 LYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLK 314
Query: 357 SFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSL 416
S S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP L +++CGLP+E+A+ELF+ F+++ L
Sbjct: 315 SLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKMYQCGLPKEMALELFKPFVMKEL 374
Query: 417 IRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEGR
Sbjct: 375 VEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGR 434
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
AI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QD
Sbjct: 435 AIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQD 494
Query: 537 MLIGLYILT 545
M++G Y LT
Sbjct: 495 MVLGNYYLT 503
>sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1199
Score = 488 bits (1242), Expect = e-136
Identities = 260/549 (47%), Positives = 358/549 (64%), Gaps = 50/549 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + + IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MLDVNNFEYMNIGLASPDKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPL 177
+PS + +LD + LE ++Y FA VV P L L E E +++
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTDPANTPLEKKQLLSEKEYRAY------ 158
Query: 178 FFATHGFDTFRNR-EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWED 236
D + N+ + S GA AI + L D+DL +D L EE T
Sbjct: 159 ------LDKYGNKFQASMGAEAIHKLLQDIDLVKEVDM-------LKEELKTSQ------ 199
Query: 237 RKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINE 296
G+R+ ++R+E+ + F + +P WM+L +LPV+PPELRP++Q+DGG+ +SD+N+
Sbjct: 200 ---GQRRTRAIKRLEVLEAFRNSGNKPSWMILDVLPVIPPELRPMVQLDGGRFATSDLND 256
Query: 297 LYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYK 356
LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+ K
Sbjct: 257 LYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLK 314
Query: 357 SFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSL 416
S S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP L +++CGLP+E+A+ELF+ F+++ L
Sbjct: 315 SLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKMYQCGLPKEMALELFKPFVMKEL 374
Query: 417 IRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEGR
Sbjct: 375 VEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGR 434
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
AI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QD
Sbjct: 435 AIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQD 494
Query: 537 MLIGLYILT 545
M++G Y LT
Sbjct: 495 MVLGNYYLT 503
>gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus subtilis]
Length = 933
Score = 488 bits (1242), Expect = e-136
Identities = 260/549 (47%), Positives = 358/549 (64%), Gaps = 50/549 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + + IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MLDVNNFEYMNIGLASPDKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPL 177
+PS + +LD + LE ++Y FA VV P L L E E +++
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTDPANTPLEKKQLLSEKEYRAY------ 158
Query: 178 FFATHGFDTFRNR-EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWED 236
D + N+ + S GA AI + L D+DL +D L EE T
Sbjct: 159 ------LDKYGNKFQASMGAEAIHKLLQDIDLVKEVDM-------LKEELKTSQ------ 199
Query: 237 RKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINE 296
G+R+ ++R+E+ + F + +P WM+L +LPV+PPELRP++Q+DGG+ +SD+N+
Sbjct: 200 ---GQRRTRAIKRLEVLEAFRNSGNKPSWMILDVLPVIPPELRPMVQLDGGRFATSDLND 256
Query: 297 LYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYK 356
LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+ K
Sbjct: 257 LYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLK 314
Query: 357 SFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSL 416
S S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP L +++CGLP+E+A+ELF+ F+++ L
Sbjct: 315 SLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKMYQCGLPKEMALELFKPFVMKEL 374
Query: 417 IRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEGR
Sbjct: 375 VEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGR 434
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
AI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QD
Sbjct: 435 AIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQD 494
Query: 537 MLIGLYILT 545
M++G Y LT
Sbjct: 495 MVLGNYYLT 503
>sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1052
Score = 486 bits (1237), Expect = e-136
Identities = 263/550 (47%), Positives = 360/550 (64%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID + ++IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MIDVNNFEYMKIGLASPDKIRSWS---------YGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPQKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + +LD + LE ++Y FA VV + T L + L EY +Y
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTESGDTPLDKKQLLSEKEYRAYRDRYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
TF + + GA AI++ L D+DL +D L EE T
Sbjct: 164 ---------STF---QAAMGAEAIKKLLQDIDLDKEVDF-------LKEELKTAQ----- 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ ++R+E+ + F + EP WM+L +LPV+PPELRP++Q+DGG+ +SD+N
Sbjct: 200 ----GQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRPMVQLDGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFVMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEARLLM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus anthracis]
Length = 1052
Score = 485 bits (1234), Expect = e-135
Identities = 262/550 (47%), Positives = 360/550 (64%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
+ID + ++IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 LIDVNNFEYMKIGLASPDKIRSWS---------YGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPQKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + +LD + LE ++Y FA VV + T L + L EY +Y
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTESGDTPLDKKQLLSEKEYRAYRDRYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
TF + + GA AI++ L D+DL +D L EE T
Sbjct: 164 ---------STF---QAAMGAEAIKKLLQDIDLDKEVDF-------LKEELKTAQ----- 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ ++R+E+ + F + EP WM+L +LPV+PPELRP++Q+DGG+ +SD+N
Sbjct: 200 ----GQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRPMVQLDGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP+L +++CGLP+E+A+ELF+ F+++
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPFVMKE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEG
Sbjct: 374 LVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEARLLM + N+L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>gb|AAK03820.1| (AE006210) RpoC [Pasteurella multocida]
Length = 1417
Score = 484 bits (1233), Expect = e-135
Identities = 263/544 (48%), Positives = 361/544 (66%), Gaps = 45/544 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 21 IKIGLASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA PV H+W+LK LPS I L
Sbjct: 72 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPVAHIWFLKSLPSRIGLL 128
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRL-RGLFEYEIQSWKYSIPLFFATHGFDTFR 188
LD PL+++E ++Y F +V +P L +G E Q + D F
Sbjct: 129 LDMPLRDIERVLY----FESYIVIEPGMTDLDKGQLLTEEQY------IDAEDRWGDEF- 177
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEE-RSTHNENEWEDRKVGRRKNFLV 247
+ GA AI+ L D+DL E + L EE + T++E + R+K +
Sbjct: 178 --DAKMGAEAIQALLRDMDLP-------QECENLREELQETNSETK-------RKK--IT 219
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+R++L + FI++ +PEWMV+ +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 220 KRLKLLEAFIQSGNKPEWMVMTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNR 279
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L LL P +V +++++QE+VD LLDNG RG+ + + + KS +D+I+GK+G
Sbjct: 280 LKRLLDLI--APDIIVRNEKRMLQESVDALLDNGRRGRAITGSNRRPLKSLADMIKGKQG 337
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
RFR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + FAS I
Sbjct: 338 RFRQNLLGKRVDYSGRSVITVGPYLHLHQCGLPKKMALELFRPFIYAKLESRGFASTIKA 397
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
AK + ++ IVW+IL +V+R HPILLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 398 AKKMVEREDAIVWDILADVIREHPILLNRAPTLHRLGIQAFEPLLIEGKAIQLHPLVCAA 457
Query: 488 FNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSG 547
FNADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 FNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRD 517
Query: 548 NRRG 551
G
Sbjct: 518 KVNG 521
>sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1057
Score = 484 bits (1232), Expect = e-135
Identities = 259/548 (47%), Positives = 358/548 (65%), Gaps = 48/548 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID ++IG SP++I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MIDVNNFHYMKIGLASPEKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECSCGKYKRVRYKG---MVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF-EYEIQSWKYSIPL 177
+PS + LLD + LE ++Y FA VV P T L + L E E + + P
Sbjct: 109 GIPSRMGLLLDMSPRALEEVIY----FASYVVVDPGPTGLEKKTLLSEAEFRDYYDKYPG 164
Query: 178 FFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDR 237
F GA I++ L ++DL E K L +E +
Sbjct: 165 QFVA-----------KMGAEGIKDLLEEIDLD-------EELKLLRDELES--------- 197
Query: 238 KVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINEL 297
G+R ++R+E+ + F + +P WM+L +LP++PPE+RP+ Q+DGG+ +SD+N+L
Sbjct: 198 ATGQRLTRAIKRLEVVESFRNSGNKPSWMILDVLPIIPPEIRPMAQLDGGRFATSDLNDL 257
Query: 298 YRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKS 357
YRRVI RNN L LL PG +V +++++QEAVD L+DNG RG+P+ N+ KS
Sbjct: 258 YRRVINRNNRLKRLLDLG--APGIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLKS 315
Query: 358 FSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLI 417
S +++GK+GRFR+ LLGKRVDYSGRSVI VGPSL +++CGLP+E+A+ELF+ F+++ L+
Sbjct: 316 LSHMLKGKQGRFRQNLLGKRVDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELV 375
Query: 418 RKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
++ A+NI AKSKI + VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEGRA
Sbjct: 376 QREIATNIKNAKSKIERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRA 435
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
I LHPLV +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QDM
Sbjct: 436 IRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTPSQDM 495
Query: 538 LIGLYILT 545
++G Y LT
Sbjct: 496 VLGNYYLT 503
>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 = 483 bits (1229), Expect = e-135
Identities = 258/548 (47%), Positives = 358/548 (65%), Gaps = 48/548 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
+ID ++IG SP++I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 LIDVNNFHYMKIGLASPEKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECSCGKYKRVRYKG---MVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF-EYEIQSWKYSIPL 177
+PS + LLD + LE ++Y FA VV P T L + L E E + + P
Sbjct: 109 GIPSRMGLLLDMSPRALEEVIY----FASYVVVDPGPTGLEKKTLLSEAEFRDYYDKYPG 164
Query: 178 FFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDR 237
F GA I++ L ++DL E K L +E +
Sbjct: 165 QFVA-----------KMGAEGIKDLLEEIDLD-------EELKLLRDELES--------- 197
Query: 238 KVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINEL 297
G+R ++R+E+ + F + +P WM+L +LP++PPE+RP+ Q+DGG+ +SD+N+L
Sbjct: 198 ATGQRLTRAIKRLEVVESFRNSGNKPSWMILDVLPIIPPEIRPMAQLDGGRFATSDLNDL 257
Query: 298 YRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKS 357
YRRVI RNN L LL PG +V +++++QEAVD L+DNG RG+P+ N+ KS
Sbjct: 258 YRRVINRNNRLKRLLDLG--APGIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLKS 315
Query: 358 FSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLI 417
S +++GK+GRFR+ LLGKRVDYSGRSVI VGPSL +++CGLP+E+A+ELF+ F+++ L+
Sbjct: 316 LSHMLKGKQGRFRQNLLGKRVDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELV 375
Query: 418 RKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
++ A+NI AKSKI + VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEGRA
Sbjct: 376 QREIATNIKNAKSKIERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRA 435
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
I LHPLV +NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QDM
Sbjct: 436 IRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTPSQDM 495
Query: 538 LIGLYILT 545
++G Y LT
Sbjct: 496 VLGNYYLT 503
>sp|P77839|RPOC_BROTH DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 482 bits (1227), Expect = e-135
Identities = 260/550 (47%), Positives = 360/550 (65%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 MLDVNNFEYMKIGLASPDKIRSWS---------FGEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + +LD + LE ++Y FA VV + T L + L EY KY
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTEAGDTALDKKQLLSEREYRAYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
++ + GA AI+ L +DL + + E KE E +S
Sbjct: 164 ------------QSFQAGMGAEAIKRLLDAVDL----EGEVTELKE--ELKSAQ------ 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + +P WMVL +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 200 ----GQRRTRAIRRLEVLEAFRHSGNKPSWMVLDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDGLIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIV GPSL +++CGLPRE+AIELF+ F++R
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVCGPSLKMYQCGLPREMAIELFKPFVMRE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L ++ A NI AK KI P +W++L++V+R HP+LLNRAPTLHRLGIQAF+PILVEG
Sbjct: 374 LTQRGLAHNIKSAKRKIERHSPEIWDVLEDVIREHPVLLNRAPTLHRLGIQAFEPILVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + ++L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSPEAQAEARILMLAANHILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>emb|CAA70579.1| (Y09428) DNA directed RNA polymerase beta' chain [Staphylococcus
aureus]
Length = 541
Score = 481 bits (1225), Expect = e-134
Identities = 256/539 (47%), Positives = 356/539 (65%), Gaps = 48/539 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP++I +W+ GEV KP T +Y+T KPEKDGLFCERIFGP K C
Sbjct: 1 MKIGLASPEKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWEC 51
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K +PS + L
Sbjct: 52 SCGKYKRVRYKG---MVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIPSRMGLL 108
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF-EYEIQSWKYSIPLFFATHGFDT 186
LD + LE ++Y FA VV P T L + L E E + + P F
Sbjct: 109 LDMSPRALEEVIY----FASYVVVDPGPTGLEKKTLLSEAEFRDYYDKYPGQFVA----- 159
Query: 187 FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
GA I++ L ++DL E K L +E + G+R
Sbjct: 160 ------KMGAEGIKDLLEEIDLD-------EELKLLRDELES---------ATGQRLARA 197
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
++R+E+ + F + +P WM+L +LP++PPE+RP++Q+DGG+ +SD+N+LYRRVI RNN
Sbjct: 198 IKRLEVVESFRNSGNKPSWMILDVLPIIPPEIRPMVQLDGGRFATSDLNDLYRRVINRNN 257
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L LL PG +V +++++QEAVD L+DNG RG+P+ N+ KS S +++GK+
Sbjct: 258 RLKRLLDLG--APGIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLKSLSHMLKGKQ 315
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVI VGPSL +++CGLP+E+A+ELF+ F+++ L+++ A+NI
Sbjct: 316 GRFRQNLLGKRVDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELVQREIATNIK 375
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AKSKI + VW++L+EV+R HP+LLNRAPTLHRLGIQAF+P LVEGRAI LHPLV
Sbjct: 376 NAKSKIERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVTT 435
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
+NADFDGDQMA+HVPLS EAQAEAR+LM + N+L+P G P+ P+QDM++G Y LT
Sbjct: 436 AYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLT 494
>emb|CAA61515.1| (X89231) DNA-directed RNA polymerase [Brochothrix thermosphacta]
Length = 1053
Score = 481 bits (1224), Expect = e-134
Identities = 259/550 (47%), Positives = 360/550 (65%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
++D + ++IG SP +I +W+ GEV KP T +Y+T KPE+DGLFCERI
Sbjct: 1 LLDVNNFEYMKIGLASPDKIRSWS---------FGEVKKPETINYRTLKPERDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C+CG Y+ + K C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECSCGKYKRVRYKG---VVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + +LD + LE ++Y FA VV + T L + L EY KY
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTEAGDTALDKKQLLSEREYRAYREKYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
++ + GA AI+ L +DL + + E KE E +S
Sbjct: 164 ------------QSFQAGMGAEAIKRLLDAVDL----EGEVTELKE--ELKSAQ------ 199
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
G+R+ +RR+E+ + F + +P WMVL +LPV+PPE+RP++Q++GG+ +SD+N
Sbjct: 200 ----GQRRTRAIRRLEVLEAFRHSGNKPSWMVLDVLPVIPPEIRPMVQLEGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+
Sbjct: 256 DLYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDGLIDNGRRGRPVTGPGNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS S +++GK+GRFR+ LLGKRVDYSGRSVIV GPSL +++CGLPRE+AIELF+ F++R
Sbjct: 314 KSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVCGPSLKMYQCGLPREMAIELFKPFVMRE 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L ++ A NI AK KI P +W++L++V+R HP+LLNRAPTLHRLGIQAF+PILVEG
Sbjct: 374 LTQRGLAHNIKSAKRKIERHSPEIWDVLEDVIREHPVLLNRAPTLHRLGIQAFEPILVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
RAI LHPLVC +NADFDGDQMA+HVPLS EAQAEAR+LM + ++L+P G P+ P+Q
Sbjct: 434 RAIRLHPLVCTAYNADFDGDQMAVHVPLSPEAQAEARILMLAANHILNPKDGKPVVTPSQ 493
Query: 536 DMLIGLYILT 545
DM++G Y LT
Sbjct: 494 DMVLGNYYLT 503
>gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subunit [Escherichia
coli]
Length = 1407
Score = 480 bits (1221), Expect = e-134
Identities = 257/537 (47%), Positives = 353/537 (64%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD PL+++E ++Y F VV + G+ E Q A F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIEG------GMTNLERQQILTEEQYLDALEEFGDEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
+ GA AI+ L +DL +E + R NE E + R+K L +
Sbjct: 177 --DAKMGAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 514
>prf||0808241A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 480 bits (1221), Expect = e-134
Identities = 257/537 (47%), Positives = 353/537 (64%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD PL+++E ++Y F VV + G+ E Q A F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIEG------GMTNLERQQILTEEQYLDALEEFGDEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
+ GA AI+ L +DL +E + R NE E + R+K L +
Sbjct: 177 --DAKMGAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 514
>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 = 480 bits (1221), Expect = e-134
Identities = 257/537 (47%), Positives = 353/537 (64%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD PL+++E ++Y F VV + G+ E Q A F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIEG------GMTNLERQQILTEEQYLDALEEFGDEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
+ GA AI+ L +DL +E + R NE E + R+K L +
Sbjct: 177 --DAKMGAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 514
>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 = 479 bits (1219), Expect = e-134
Identities = 256/537 (47%), Positives = 350/537 (64%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD PL+++E ++Y F VV + G+ E Q A F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIE------GGMTNLERQQILTEEQYLDALEEFGDEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
+ GA AI+ L +DL +E T E E +RK L +
Sbjct: 177 --DAKMGAEAIQALLKSMDLE--------------QECETLREELNETNSETKRKK-LTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLL--DLAAPDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 514
>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 = 477 bits (1215), Expect = e-133
Identities = 256/555 (46%), Positives = 358/555 (64%), Gaps = 45/555 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKISLASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE S++RR +MG+I+L+ P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQSKVRRERMGHIELSSPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRN 189
LD PL+++E ++Y F VV + L + + S+ F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIETGMTNLEKRQILTEEQYLDSLEEF-----GDEF-- 176
Query: 190 REISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRR 249
+ GA AI+ L D++L + +E E E ++ L +R
Sbjct: 177 -HATMGAEAIQFLLKDINLVQECNVLRIELNETNSE---------------TKRKKLTKR 220
Query: 250 MELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLI 309
++L + FI+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 221 IKLLESFIQSHNKPEWMILNVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLK 280
Query: 310 DLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRF 369
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GRF
Sbjct: 281 RLL--DLAAPDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRF 338
Query: 370 RETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAK 429
R+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I AK
Sbjct: 339 RQNLLGKRVDYSGRSVITVGPYLHLHQCGLPKKMALELFKPFIYGKLEVRGLATTIKAAK 398
Query: 430 SKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFN 489
+ +E IVW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +N
Sbjct: 399 KMVEREEAIVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYN 458
Query: 490 ADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT---- 545
ADFDGDQMA+HVPL+LE+Q EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 459 ADFDGDQMAVHVPLTLESQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTREKI 518
Query: 546 SGNRRGICANRYNRS 560
+G G+ N N +
Sbjct: 519 NGKGEGMLLNGSNEA 533
>prf||1008145A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 474 bits (1207), Expect = e-132
Identities = 256/537 (47%), Positives = 350/537 (64%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD PL+++E ++Y F VV + G+ E Q A F D F
Sbjct: 128 LDMPLRDIERVLY----FESYVVIEG------GMTNLERQQILTEEQYLDALEEFGDEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
+ GA AI+ L +DL +E + R NE E + R+K L +
Sbjct: 177 --DAKMGAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F+ + +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RIKLLEAFVESGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V ++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNGKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP L L +CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPYLRLKQCGLPKKMALELFKPFIYGKLELRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + +E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 514
>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 = 473 bits (1204), Expect = e-132
Identities = 258/537 (48%), Positives = 351/537 (65%), Gaps = 43/537 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 20 IRIGLASPEMIRSWS---------FGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA PV H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVALAKVRRERMGHIELASPVAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
LD L+++E ++Y F VV P G+ E F A F D F
Sbjct: 128 LDMTLRDIERVLY----FESYVVIDP------GMTTLEKGQLLNDEQYFEALEEFGDDFD 177
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
R GA A+ E L +DL E+G R + E K+ + L +
Sbjct: 178 AR---MGAEAVHELLNAIDLE----------HEIGRLREEIPQTNSET-KIKK----LSK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F + +PEWMVL +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RLKLMEAFQGSGNKPEWMVLTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPTLRLHQCGLPKKMALELFKPFIFGKLEGRGMATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + + P VW++L EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVMGLYYMT 514
>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 = 473 bits (1203), Expect = e-132
Identities = 256/538 (47%), Positives = 355/538 (65%), Gaps = 45/538 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 22 IKIGIASPETIRSWS---------YGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 72
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K + CE+CGVE S++RR +MG+I+LA PV H+W+LK LPS + +
Sbjct: 73 LCGKYKRL---KFKGVTCEKCGVEVTLSKVRRERMGHIELAAPVAHIWFLKSLPSRLGMV 129
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTF 187
LD L+++E ++Y F VV P T L+ R L + Y L FD
Sbjct: 130 LDMTLRDIERVLY----FEAFVVTDPGMTPLQRRQLLTED----DYYNKLDEYGDDFDA- 180
Query: 188 RNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLV 247
GA IRE L L++ I+ E + G D K+ + +
Sbjct: 181 -----KMGAEGIRELLRTLNVAGEIEILRQELESTGS-----------DTKIKK----IA 220
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+R+++ + F R+ ++ EWM++ +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 221 KRLKVLEAFHRSGMKLEWMIMDVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNR 280
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L LL P +V +++++QEAVD+LLDNG RG+ M + + KS +D+I+GK G
Sbjct: 281 LKRLLELH--APDIIVRNEKRMLQEAVDSLLDNGRRGKAMTGANKRPLKSLADMIKGKGG 338
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
RFR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L ++ AS +
Sbjct: 339 RFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIFHKLEKQGLASTVKA 398
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
AK + ++ P VW+IL+EV+R HPI+LNRAPTLHRLGIQAF+PIL+EG+AI LHPLVC
Sbjct: 399 AKKLVEQEVPEVWDILEEVIREHPIMLNRAPTLHRLGIQAFEPILIEGKAIQLHPLVCAA 458
Query: 488 FNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+HVPLSLEAQ EAR LM + N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 459 FNADFDGDQMAVHVPLSLEAQMEARTLMLASNNVLSPANGEPIIVPSQDIVLGLYYMT 516
>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 = 473 bits (1203), Expect = e-132
Identities = 256/538 (47%), Positives = 355/538 (65%), Gaps = 45/538 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 22 IKIGIASPETIRSWS---------YGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 72
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K + CE+CGVE S++RR +MG+I+LA PV H+W+LK LPS + +
Sbjct: 73 LCGKYKRL---KFKGVTCEKCGVEVTLSKVRRERMGHIELAAPVAHIWFLKSLPSRLGMV 129
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTF 187
LD L+++E ++Y F VV P T L+ R L + Y L FD
Sbjct: 130 LDMTLRDIERVLY----FEAFVVTDPGMTPLQRRQLLTED----DYYNKLDEYGDDFDA- 180
Query: 188 RNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLV 247
GA IRE L L++ I+ E + G D K+ + +
Sbjct: 181 -----KMGAEGIRELLRTLNVAGEIEILRQELESTGS-----------DTKIKK----IA 220
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+R+++ + F R+ ++ EWM++ +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 221 KRLKVLEAFHRSGMKLEWMIMDVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNR 280
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L LL P +V +++++QEAVD+LLDNG RG+ M + + KS +D+I+GK G
Sbjct: 281 LKRLLELH--APDIIVRNEKRMLQEAVDSLLDNGRRGKAMTGANKRPLKSLADMIKGKGG 338
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
RFR+ LLGKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L ++ AS +
Sbjct: 339 RFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIFHKLEKQGLASTVKA 398
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
AK + ++ P VW+IL+EV+R HPI+LNRAPTLHRLGIQAF+PIL+EG+AI LHPLVC
Sbjct: 399 AKKLVEQEVPEVWDILEEVIREHPIMLNRAPTLHRLGIQAFEPILIEGKAIQLHPLVCAA 458
Query: 488 FNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+HVPLSLEAQ EAR LM + N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 459 FNADFDGDQMAVHVPLSLEAQMEARTLMLASNNVLSPANGEPIIVPSQDIVLGLYYMT 516
>dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanella violacea]
Length = 1409
Score = 467 bits (1189), Expect = e-130
Identities = 247/534 (46%), Positives = 350/534 (65%), Gaps = 43/534 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP I +W+ GEV KP T +Y+T KPE++GLFC RIFGP+K C
Sbjct: 20 IKIGLASPDLIRSWS---------FGEVKKPETINYRTFKPEREGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I LA PV H+W+LK LPS I +
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIDLASPVAHIWFLKSLPSRIGLM 127
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRL-RGLFEYEIQSWKYSIPLFFATHGFDTFR 188
LD L+++E ++Y F VV +P L RG E +S+ ++ + D F
Sbjct: 128 LDMTLRDIERVLY----FESFVVIEPGMTSLERGQMLTE-ESYLDALEEYG-----DEF- 176
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
E GA A+ E L ++L I+S E + E R+ + +
Sbjct: 177 --EAKMGAEAVLELLRAIELEKEIESLREELPSINSET---------------RRKKMTK 219
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
R++L + F + +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L
Sbjct: 220 RLKLIEAFFHSGNKPEWMILKVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRL 279
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGR 368
LL + P +V +++++QE+VD LLDNG RG+ + + + KS +D+I+GK+GR
Sbjct: 280 KRLLDLA--APDIIVRNEKRMLQESVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGR 337
Query: 369 FRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVA 428
FR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I A
Sbjct: 338 FRQNLLGKRVDYSGRSVITVGPTLRLHQCGLPKKMALELFKPFIYGKLEGRGLATTIKAA 397
Query: 429 KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
K + + P VW++L +V+R HP++LNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +
Sbjct: 398 KKMVEREVPEVWDVLDDVIREHPVMLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLY 542
NADFDGDQMA+HVPL+LEAQ EAR LM S N+LSPA G+P+ P+QD+++GLY
Sbjct: 458 NADFDGDQMAVHVPLTLEAQLEARSLMMSTNNILSPANGEPVITPSQDVVLGLY 511
>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 = 467 bits (1188), Expect = e-130
Identities = 255/552 (46%), Positives = 354/552 (63%), Gaps = 59/552 (10%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++IG SP I +W+ GEV KP T +Y+T KPE+DGLFC IFGPIK C
Sbjct: 43 IKIGLASPALIRSWS---------FGEVKKPETINYRTFKPERDGLFCAAIFGPIKDYEC 93
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CG E +++RR +MG I+LA PV H+W+LK LPS I +
Sbjct: 94 LCGKYKRM---KHRGVVCEKCGTEVTLAKVRRERMGSIELASPVAHIWFLKSLPSRIGLM 150
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYE--IQSWKYSIPLFFATHG-- 183
LD L+++E ++Y F VV +P T L R L E +Q+ + F AT G
Sbjct: 151 LDMTLRDIERVLY----FEAYVVTEPGLTPLERRQLLTEEQYLQARQEHADDFDATMGAE 206
Query: 184 --FDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGR 241
++ R ++ S +RE+ IV+ S + K L
Sbjct: 207 AVYELLRMIDLQSEMARLREE-------IVVTGSETKLKRL------------------- 240
Query: 242 RKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRV 301
+R++L + FI + PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRV
Sbjct: 241 -----TKRIKLIEAFIESGNRPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRV 295
Query: 302 IYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDI 361
I RNN L LL S P +V +++++QE+VD LLDNG RG+ + + + KS +D+
Sbjct: 296 INRNNRLCRLLELS--APDIIVRNEKRMLQESVDALLDNGRRGRAITGTNKRPLKSLADM 353
Query: 362 IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHF 421
I+GK+GRFR+ LLGKRVDYS RSVI+VGP+L LH+CGLP+++A+ELF+ F+ L R+
Sbjct: 354 IKGKQGRFRQNLLGKRVDYSARSVIIVGPNLRLHQCGLPKKMALELFKPFVFAKLQRRGL 413
Query: 422 ASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLH 481
A+ I AK + +E VW+IL+EV+ HP++LNRAPTLHR GIQAF+P+L+EG+AI LH
Sbjct: 414 ATTIKAAKKLVEREEAEVWDILEEVISEHPVVLNRAPTLHRQGIQAFEPVLIEGKAIQLH 473
Query: 482 PLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGL 541
PLVC FNADFDGDQMA+HVPLSLEAQ EAR LM S N+LSPA G+PI VP+QD+++GL
Sbjct: 474 PLVCTAFNADFDGDQMAVHVPLSLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGL 533
Query: 542 YILTSG--NRRG 551
Y ++ N++G
Sbjct: 534 YYMSRALENKKG 545
>gb|AAK05897.1|AE006409_7 (AE006409) DNA-directed RNA polymerase beta' chain (EC 2.7.7.6)
[Lactococcus lactis subsp. lactis]
Length = 1198
Score = 466 bits (1187), Expect = e-130
Identities = 253/541 (46%), Positives = 357/541 (65%), Gaps = 51/541 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SPQ+I W+ GEV KP T +Y+T KPE++GLF ERIFGP K C
Sbjct: 1 MRIGIASPQKIRYWS---------FGEVKKPETINYRTQKPEREGLFDERIFGPQKDWEC 51
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG + + K + CE CGV+ ++ RR +MG+I+LA P++H+WY K +PS +
Sbjct: 52 ACGKLKGVFYKN---QVCELCGVQVTTAKSRRERMGHIELAAPISHIWYFKGIPSRMGLA 108
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSIPLFFATHGF 184
LD + LE ++Y FA VV P T L + L EY Q K +GF
Sbjct: 109 LDMSPRALEEVIY----FASYVVIDPKETDLEKKQLLTEREYREQLLK---------NGF 155
Query: 185 DTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKN 244
+F + GA AI++ L D+D ID E EL EE T G+R+
Sbjct: 156 GSFVAK---MGAEAIQDLLNDVD----IDK---EVSELKEELKT---------VTGQRRV 196
Query: 245 FLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYR 304
++RR+++ F ++ WMVL +LPV+PP+LRP++Q+DGG+ +SD+N+LYRRVI R
Sbjct: 197 KIIRRLDVLSAFRKSGNALSWMVLNVLPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINR 256
Query: 305 NNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEG 364
NN L L+ + P +V +++++QEAVDTL+DNG RG+P+ N+ KS S +++G
Sbjct: 257 NNRLKRLMELN--APNIIVQNEKRMLQEAVDTLIDNGRRGRPITGAGNRPLKSLSHMLKG 314
Query: 365 KEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASN 424
K+GRFR+ LLGKRVDYSGRSVI VGP+L +++CG+PRE+AIELF+ F++ L++K A+N
Sbjct: 315 KQGRFRQNLLGKRVDYSGRSVIAVGPTLKMYQCGVPREMAIELFKPFVMAQLVKKELAAN 374
Query: 425 IGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLV 484
I AK K+ ++ VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P+L++G+AI LHPL
Sbjct: 375 IRAAKRKVERQDSDVWDVLETVVKEHPVLLNRAPTLHRLGIQAFEPVLIDGKAIRLHPLA 434
Query: 485 CKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
C+ +NADFDGDQMAIH+PLS EAQAEARLLM + ++L+P G P+ P+QDM++G Y L
Sbjct: 435 CEAYNADFDGDQMAIHLPLSEEAQAEARLLMLAAEHILNPKDGKPVVTPSQDMVLGNYYL 494
Query: 545 T 545
T
Sbjct: 495 T 495
>sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1055
Score = 458 bits (1167), Expect = e-128
Identities = 253/548 (46%), Positives = 354/548 (64%), Gaps = 48/548 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID K + ++IG SP +I W+ GEV KP T +Y+T KPEKDGLF ERI
Sbjct: 1 MIDVNKFESMQIGLASPDKIRMWS---------YGEVKKPETINYRTLKPEKDGLFDERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ I K C++CGVE S++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTKDYECACGKYKRIRYKGI---VCDRCGVEVTKSKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYEIQSWKYSIPLF 178
+PS + +LD + LE ++Y FA VV P T L + L + +Y L
Sbjct: 109 GIPSRMGLVLDMSPRSLEEIIY----FASYVVVDPGDTPLEKKQL----LTEREYRAKL- 159
Query: 179 FATHGFDTFRNREISS-GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDR 237
D + NR ++ G AI+ L +DL + E KE
Sbjct: 160 ------DEYGNRFVAKIGGEAIQALLQSVDLEKEANLLKEELKEAS-------------- 199
Query: 238 KVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINEL 297
G+++ VRR+++ + FI++ P+WMV+ +PV+PP+LRP++Q+DGG+ +SD+ L
Sbjct: 200 --GQKRTRAVRRLDIIEAFIKSGNHPDWMVMDAIPVMPPDLRPMVQLDGGRFATSDLKHL 257
Query: 298 YRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKS 357
YRRVI RNN L LL + PG +V +++++QEAVD L+DNG RG+P+ N+ KS
Sbjct: 258 YRRVINRNNRLKRLLDLN--APGIIVQNEKRMLQEAVDALIDNGRRGRPVAGPGNRPLKS 315
Query: 358 FSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLI 417
S +++GK+ FR+ LLGKRVDYSGRSVI VGPSL +++ GLP +A+ELF+ F+++ L+
Sbjct: 316 LSHMLKGKQEGFRQNLLGKRVDYSGRSVIDVGPSLKMNQMGLPVPMAMELFKPFIMKELV 375
Query: 418 RKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
++ ASNI AK KI K+ V+++L++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A
Sbjct: 376 SRNLASNIKNAKRKIDRKDEEVYDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKA 435
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
+ LHPL C+ +NADFDGDQMAIHVPLS EAQAEARLLM + ++L+P G P+ P+QDM
Sbjct: 436 MRLHPLACEAYNADFDGDQMAIHVPLSNEAQAEARLLMLAAHHILAPKDGKPVVTPSQDM 495
Query: 538 LIGLYILT 545
+IG Y LT
Sbjct: 496 VIGNYWLT 503
>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 = 457 bits (1164), Expect = e-127
Identities = 252/548 (45%), Positives = 354/548 (63%), Gaps = 48/548 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
+ID K + ++IG SP +I W+ GEV KP T +Y+T KPEKDGLF ERI
Sbjct: 1 LIDVNKFESMQIGLASPDKIRMWS---------YGEVKKPETINYRTLKPEKDGLFDERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ I K C++CGVE S++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTKDYECACGKYKRIRYKGI---VCDRCGVEVTKSKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYEIQSWKYSIPLF 178
+PS + +LD + LE ++Y FA VV P T L + L + +Y L
Sbjct: 109 GIPSRMGLVLDMSPRSLEEIIY----FASYVVVDPGDTPLEKKQL----LTEREYRAKL- 159
Query: 179 FATHGFDTFRNREISS-GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDR 237
D + NR ++ G AI+ L +DL + E KE
Sbjct: 160 ------DEYGNRFVAKIGGEAIQALLQSVDLEKEANLLKEELKEAS-------------- 199
Query: 238 KVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINEL 297
G+++ VRR+++ + FI++ P+WMV+ +PV+PP+LRP++Q+DGG+ +SD+ L
Sbjct: 200 --GQKRTRAVRRLDIIEAFIKSGNHPDWMVMDAIPVMPPDLRPMVQLDGGRFATSDLKHL 257
Query: 298 YRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKS 357
YRRVI RNN L LL + PG +V +++++QEAVD L+DNG RG+P+ N+ KS
Sbjct: 258 YRRVINRNNRLKRLLDLN--APGIIVQNEKRMLQEAVDALIDNGRRGRPVAGPGNRPLKS 315
Query: 358 FSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLI 417
S +++GK+ FR+ LLGKRVDYSGRSVI VGPSL +++ GLP +A+ELF+ F+++ L+
Sbjct: 316 LSHMLKGKQEGFRQNLLGKRVDYSGRSVIDVGPSLKMNQMGLPVPMAMELFKPFIMKELV 375
Query: 418 RKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
++ ASNI AK KI K+ V+++L++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A
Sbjct: 376 SRNLASNIKNAKRKIDRKDEEVYDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKA 435
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
+ LHPL C+ +NADFDGDQMAIHVPLS EAQAEARLLM + ++L+P G P+ P+QDM
Sbjct: 436 MRLHPLACEAYNADFDGDQMAIHVPLSNEAQAEARLLMLAAHHILAPKDGKPVVTPSQDM 495
Query: 538 LIGLYILT 545
+IG Y LT
Sbjct: 496 VIGNYWLT 503
>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 = 456 bits (1160), Expect = e-127
Identities = 250/562 (44%), Positives = 348/562 (61%), Gaps = 58/562 (10%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
+++RI SP++I +W+ GEV KP T +Y+T KPE+DGLF ERIFGPIK
Sbjct: 6 RKVRIALASPEKIRSWS---------YGEVEKPETINYRTLKPERDGLFDERIFGPIKDY 56
Query: 68 ICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIA 127
C CG Y+ ++ E K CE+CGVE S +RRY+MG+I+LA P H+W++K +PS I
Sbjct: 57 ECACGKYK---RQRFEGKVCERCGVEVTRSIVRRYRMGHIELATPAAHIWFVKDVPSKIG 113
Query: 128 NLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQ------------------ 169
LLD ELE ++Y F + +V P L G+ + Q
Sbjct: 114 TLLDLFATELEQVLY----FNKYIVLDPKGAVLDGVPVEKRQLLTDXXXXXXXXXXXXXX 169
Query: 170 --SWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERS 227
+ GA AI+E L +LDL + L E K R
Sbjct: 170 XXXXXXXXXXXXXXXXXXXXXXIDARMGAEAIQELLKELDLEKLERELLEEMKHPSRARR 229
Query: 228 THNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGG 287
+R+E+ + F+ + PEWM+L +PVLPP+LRP++Q+DGG
Sbjct: 230 AKAR----------------KRLEVVRAFLDSGNRPEWMILEAVPVLPPDLRPMVQVDGG 273
Query: 288 KLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM 347
+ +SD+N+LYRR+I RNN L LL ++ P ++ +++++QEAVD ++DNG RG P+
Sbjct: 274 RFATSDLNDLYRRLINRNNRLKKLL--AQGAPEIIIRNEKRMLQEAVDAVIDNGRRGSPV 331
Query: 348 KD-GHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIE 406
+ G + +S +DI+ GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+ +A+E
Sbjct: 332 TNPGSERPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALE 391
Query: 407 LFQTFLIRSLIRKHFASNIGVAKSKIREKEPI---VWEILQEVMRGHPILLNRAPTLHRL 463
LF+ FL++ + K FA N+ A+ + + I VW+ L+EV+ G +LLNRAPTLHRL
Sbjct: 392 LFKPFLLKKMEEKAFAPNVKAARRMLERQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRL 451
Query: 464 GIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLS 523
GIQAFQP+LVEG++I LHPLVC+ FNADFDGDQMA+HVPLS AQAEAR+ M S NLLS
Sbjct: 452 GIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLS 511
Query: 524 PAIGDPIAVPTQDMLIGLYILT 545
PA G+P+A P++D+++GLY +T
Sbjct: 512 PASGEPLAKPSRDIILGLYYIT 533
>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 = 448 bits (1139), Expect = e-124
Identities = 245/550 (44%), Positives = 347/550 (62%), Gaps = 52/550 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M D L+I SP I AW+ GEV KP T +Y+T +PE++GLFCERI
Sbjct: 1 MKDIRDFDSLQIKLASPDTIRAWS---------YGEVKKPETINYRTLRPEREGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FG K C CG ++ I + C++CGVE ++RR +MG+I+LA PV+H+WY +
Sbjct: 52 FGTTKEWECFCGKFKSI---RYRGVICDRCGVEVTHFKVRRERMGHIELATPVSHIWYYR 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSI 175
+PS + LLD + L ++Y + + +V +P T L+ L EY +Y
Sbjct: 109 CVPSRMGLLLDLQVIALRSVLY----YEKYIVIEPGDTDLKKNQLLTETEYNDAQERYG- 163
Query: 176 PLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWE 235
GF GA AIR L +LDL D+ + + +E E+ ++
Sbjct: 164 ------GGFTA------GMGAEAIRTLLQNLDL----DALVAQLREKMMEKGAKSDKR-- 205
Query: 236 DRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDIN 295
L+RR+E+ ++F + +PEWM+L ++PV+PP+LRP++Q+DGG+ +SD+N
Sbjct: 206 ----------LLRRIEIVENFRVSGNKPEWMILSVIPVIPPDLRPMVQLDGGRFATSDLN 255
Query: 296 ELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY 355
+LYRRVI+RN+ LI L+ P ++ +++++QEAVD L DN R +K N+
Sbjct: 256 DLYRRVIHRNSRLIRLMELK--APDIIIRNEKRMLQEAVDALFDNSKRKPAIKGASNRPL 313
Query: 356 KSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS 415
KS SD+++GK+GRFR+ LLGKRVDYSGRSVIVVGP L L +CGLP ++A+ELF+ F+++
Sbjct: 314 KSISDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKLWQCGLPTKMALELFKPFIMKK 373
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
L+ K SNI AK + ++ P V+ +L EV++ HP++LNRAPTLHRLGIQAF+P+LVEG
Sbjct: 374 LVEKEIVSNIKKAKMLVEQESPKVFSVLDEVVKEHPVMLNRAPTLHRLGIQAFEPVLVEG 433
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
+AI LHPLVCK FNADFDGDQMA+HVPL+ AQ E LM S+ NLL PA G I P+Q
Sbjct: 434 KAIRLHPLVCKPFNADFDGDQMAVHVPLTQAAQMECWTLMLSNRNLLDPANGRTIVYPSQ 493
Query: 536 DMLIGLYILT 545
DM++GLY LT
Sbjct: 494 DMVLGLYYLT 503
>gb|AAB00973.1| (L24376) RNA polymerase beta'-subunit [Bacillus subtilis]
Length = 466
Score = 448 bits (1139), Expect = e-124
Identities = 241/512 (47%), Positives = 331/512 (64%), Gaps = 50/512 (9%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D + + IG SP +I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MLDVNNFEYMNIGLASPDKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C CG Y+ + K C++CGVE +++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECHCGKYKRVRYKG---VVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPL 177
+PS + +LD + LE ++Y FA VV P L L E E +++
Sbjct: 109 GIPSRMGLVLDMSPRALEEVIY----FASYVVTDPANTPLEKKQLLSEKEYRAY------ 158
Query: 178 FFATHGFDTFRNR-EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWED 236
D + N+ + S GA AI + L D+DL +D L EE T
Sbjct: 159 ------LDKYGNKFQASMGAEAIHKLLQDIDLVKEVDM-------LKEELKTSQ------ 199
Query: 237 RKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINE 296
G+R+ ++R+E+ + F + +P WM+L +LPV+PPELRP++Q+DGG+ +SD+N+
Sbjct: 200 ---GQRRTRAIKRLEVLEAFRNSGNKPSWMILDVLPVIPPELRPMVQLDGGRFATSDLND 256
Query: 297 LYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYK 356
LYRRVI RNN L LL P +V +++++QEAVD L+DNG RG+P+ N+ K
Sbjct: 257 LYRRVINRNNRLKRLLDLG--APSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLK 314
Query: 357 SFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSL 416
S S +++GK+GRFR+ LLGKRVDYSGRSVIVVGP L +++CGLP+E+A+ELF+ F+++ L
Sbjct: 315 SLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKMYQCGLPKEMALELFKPFVMKEL 374
Query: 417 IRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ K A NI AK KI +P VW++L+ V++ HP+LLNRAPTLHRLGIQAF+P LVEGR
Sbjct: 375 VEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGR 434
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQ 508
AI LHPLVC +NADFDGDQMA+HVPLS EAQ
Sbjct: 435 AIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQ 466
>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 = 446 bits (1136), Expect = e-124
Identities = 240/558 (43%), Positives = 345/558 (61%), Gaps = 64/558 (11%)
Query: 9 QLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGI 68
QLR+ S P++I +W+ GEV KP T +Y+T KPE+DGLFC +IFGPI+
Sbjct: 22 QLRLAS--PEKIKSWS---------YGEVKKPETINYRTLKPERDGLFCAKIFGPIRDYE 70
Query: 69 CTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIAN 128
C CG Y+ + K + CE+CGVE +S++RR +MG+I+L PV H+WY+ LPS I
Sbjct: 71 CLCGKYKKMRFKGVK---CEKCGVEVANSKVRRSRMGHIELVTPVAHIWYVNSLPSRIGT 127
Query: 129 LLDKPLKELEGLVYC---------DFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFF 179
LL +K+LE ++Y D + KK + + +Y+ +Y
Sbjct: 128 LLGVKMKDLERVLYYEAYIVENPGDAFYDNESTKKVEYCDVLNEEQYQNLMQRYE----- 182
Query: 180 ATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKV 239
GF + G +R+ L +LDL +++ +L EE N
Sbjct: 183 -NSGF------KARMGGEVVRDLLANLDLVALLN-------QLKEEMGATNSEA------ 222
Query: 240 GRRKNFLVRRMELAKHFIRTNIE------------PEWMVLCLLPVLPPELRPIIQIDGG 287
+K +++R+++ ++F+ +N+ PEWM++ LPVLPP+LRP++ +DGG
Sbjct: 223 --KKKTIIKRLKVVENFLNSNLNANTDSDEAVPNRPEWMMITNLPVLPPDLRPLVALDGG 280
Query: 288 KLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPM 347
K SD+N+LYRRVI RN L L+ P ++ +++++QEAVD L DNG R +
Sbjct: 281 KFAVSDVNDLYRRVINRNTRLKKLMELD--APEIIIRNEKRMLQEAVDALFDNGRRANAV 338
Query: 348 KDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIEL 407
K + + KS S+II+GK+GRFR+ LLGKRVD+SGRSVIVVGP L + +CGLP+++A+EL
Sbjct: 339 KGANKRPLKSLSEIIKGKQGRFRQNLLGKRVDFSGRSVIVVGPKLRMDQCGLPKKMALEL 398
Query: 408 FQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQA 467
F+ L+ L K +A+ + AK I K VWE L+EV++GHP++LNRAPTLH+L IQA
Sbjct: 399 FKPHLLAKLEEKGYATTVKQAKKMIENKTNEVWECLEEVVKGHPVMLNRAPTLHKLSIQA 458
Query: 468 FQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIG 527
F P+LVEG+AI LHPLVC FNADFDGDQMA+HVPLS EA AE ++LM S N+L PA G
Sbjct: 459 FHPVLVEGKAIQLHPLVCAAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASG 518
Query: 528 DPIAVPTQDMLIGLYILT 545
+ VP+QDM++G+Y L+
Sbjct: 519 KSVTVPSQDMVLGIYYLS 536
>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 = 443 bits (1128), Expect = e-123
Identities = 233/514 (45%), Positives = 334/514 (64%), Gaps = 39/514 (7%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GE+ KP T +Y+T KPEK GLFCE+IFGP K C CG Y+ I K + C++CGVE
Sbjct: 38 GEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECCCGKYKKI---KHKGIVCDRCGVEV 94
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCD-FSFARPVVK 153
S++RR +M +I+LA P+ H+W+ K PS I N+L +LE ++Y + + P
Sbjct: 95 TLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERVIYYEEYVVIDPGKT 154
Query: 154 KPTFLRLRGLFEYE--IQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIV 211
T +L +Y ++ W G D F + G AI + L DL+ +
Sbjct: 155 DLTKKQLLNDAQYREVVEKW-----------GKDAFVAK---MGGEAIYDLLKSEDLQSL 200
Query: 212 IDSSLVEWKELGEE-RSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCL 270
+ K+L E R T ++ R K L +R+++ + F+ ++ PEWMVL
Sbjct: 201 L-------KDLKERLRKTKSQQ-------ARMK--LAKRLKIIEGFVSSSNHPEWMVLKN 244
Query: 271 LPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLV 330
+PV+PP+LRP++ +DGG+ +SD+N+LYRRVI RNN L +L TP +V +++++
Sbjct: 245 IPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLK--TPEVIVRNEKRML 302
Query: 331 QEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGP 390
QEAVD L DNG G P+ N+ KS S++++GK GRFR+ LLGKRVDYSGRSVI+VGP
Sbjct: 303 QEAVDALFDNGRHGHPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVGP 362
Query: 391 SLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGH 450
L ++CGLP+E+A+ELF+ F+I+ L + I AK I+ P VW++L+E+++GH
Sbjct: 363 ELKFNQCGLPKEMALELFEPFIIKRLKDQGSVYTIRSAKKMIQRGAPEVWDVLEEIIKGH 422
Query: 451 PILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAE 510
P+LLNRAPTLHRLGIQAF+P+L+EG+AI +HPLVC FNADFDGDQMA+HVPLS+EAQ E
Sbjct: 423 PVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVCAAFNADFDGDQMAVHVPLSVEAQLE 482
Query: 511 ARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
A++LM + N+ P+ G P+A+P++DM +GLY L
Sbjct: 483 AKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYL 516
>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 = 443 bits (1128), Expect = e-123
Identities = 233/514 (45%), Positives = 334/514 (64%), Gaps = 39/514 (7%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GE+ KP T +Y+T KPEK GLFCE+IFGP K C CG Y+ I K + C++CGVE
Sbjct: 42 GEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECCCGKYKKI---KHKGIVCDRCGVEV 98
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCD-FSFARPVVK 153
S++RR +M +I+LA P+ H+W+ K PS I N+L +LE ++Y + + P
Sbjct: 99 TLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERVIYYEEYVVIDPGKT 158
Query: 154 KPTFLRLRGLFEYE--IQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIV 211
T +L +Y ++ W G D F + G AI + L DL+ +
Sbjct: 159 DLTKKQLLNDAQYREVVEKW-----------GKDAFVAK---MGGEAIYDLLKSEDLQSL 204
Query: 212 IDSSLVEWKELGEE-RSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCL 270
+ K+L E R T ++ R K L +R+++ + F+ ++ PEWMVL
Sbjct: 205 L-------KDLKERLRKTKSQQ-------ARMK--LAKRLKIIEGFVSSSNHPEWMVLKN 248
Query: 271 LPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLV 330
+PV+PP+LRP++ +DGG+ +SD+N+LYRRVI RNN L +L TP +V +++++
Sbjct: 249 IPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLK--TPEVIVRNEKRML 306
Query: 331 QEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGP 390
QEAVD L DNG G P+ N+ KS S++++GK GRFR+ LLGKRVDYSGRSVI+VGP
Sbjct: 307 QEAVDALFDNGRHGHPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVGP 366
Query: 391 SLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGH 450
L ++CGLP+E+A+ELF+ F+I+ L + I AK I+ P VW++L+E+++GH
Sbjct: 367 ELKFNQCGLPKEMALELFEPFIIKRLKDQGSVYTIRSAKKMIQRGAPEVWDVLEEIIKGH 426
Query: 451 PILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAE 510
P+LLNRAPTLHRLGIQAF+P+L+EG+AI +HPLVC FNADFDGDQMA+HVPLS+EAQ E
Sbjct: 427 PVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVCAAFNADFDGDQMAVHVPLSVEAQLE 486
Query: 511 ARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
A++LM + N+ P+ G P+A+P++DM +GLY L
Sbjct: 487 AKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYL 520
>pir||E72122 RNA polymerase beta' - Chlamydophila pneumoniae (strain CWL029)
gb|AAD18235.1| (AE001593) RNA Polymerase Beta' [Chlamydophila pneumoniae CWL029]
Length = 1393
Score = 443 bits (1128), Expect = e-123
Identities = 233/514 (45%), Positives = 334/514 (64%), Gaps = 39/514 (7%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GE+ KP T +Y+T KPEK GLFCE+IFGP K C CG Y+ I K + C++CGVE
Sbjct: 38 GEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECCCGKYKKI---KHKGIVCDRCGVEV 94
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCD-FSFARPVVK 153
S++RR +M +I+LA P+ H+W+ K PS I N+L +LE ++Y + + P
Sbjct: 95 TLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERVIYYEEYVVIDPGKT 154
Query: 154 KPTFLRLRGLFEYE--IQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIV 211
T +L +Y ++ W G D F + G AI + L DL+ +
Sbjct: 155 DLTKKQLLNDAQYREVVEKW-----------GKDAFVAK---MGGEAIYDLLKSEDLQSL 200
Query: 212 IDSSLVEWKELGEE-RSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCL 270
+ K+L E R T ++ R K L +R+++ + F+ ++ PEWMVL
Sbjct: 201 L-------KDLKERLRKTKSQQ-------ARMK--LAKRLKIIEGFVSSSNHPEWMVLKN 244
Query: 271 LPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLV 330
+PV+PP+LRP++ +DGG+ +SD+N+LYRRVI RNN L +L TP +V +++++
Sbjct: 245 IPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLK--TPEVIVRNEKRML 302
Query: 331 QEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGP 390
QEAVD L DNG G P+ N+ KS S++++GK GRFR+ LLGKRVDYSGRSVI+VGP
Sbjct: 303 QEAVDALFDNGRHGHPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVGP 362
Query: 391 SLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGH 450
L ++CGLP+E+A+ELF+ F+I+ L + I AK I+ P VW++L+E+++GH
Sbjct: 363 ELKFNQCGLPKEMALELFEPFIIKRLKDQGSVYTIRSAKKMIQRGAPEVWDVLEEIIKGH 422
Query: 451 PILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAE 510
P+LLNRAPTLHRLGIQAF+P+L+EG+AI +HPLVC FNADFDGDQMA+HVPLS+EAQ E
Sbjct: 423 PVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVCAAFNADFDGDQMAVHVPLSVEAQLE 482
Query: 511 ARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
A++LM + N+ P+ G P+A+P++DM +GLY L
Sbjct: 483 AKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYL 516
>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 = 443 bits (1128), Expect = e-123
Identities = 237/542 (43%), Positives = 338/542 (61%), Gaps = 55/542 (10%)
Query: 16 SPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYR 75
SP++I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP K C CG Y+
Sbjct: 1405 SPEKIHSWS---------YGEVKKPETINYRTLKPERDGLFCMKIFGPTKDYECLCGKYK 1455
Query: 76 VIGDKKDEPKF-----CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLL 130
+P+F CE+CGV S++RR++MG+I+LA PV H+WY+ LPS I LL
Sbjct: 1456 -------KPRFKDIGTCEKCGVAITHSKVRRFRMGHIELATPVAHIWYVNSLPSRIGTLL 1508
Query: 131 DKPLKELEGLVYCDFSFARPVVKKPTFLRLRG-----LFEYEI--QSWKYSIPLFFATHG 183
+K+LE ++Y + +VK+P + +Y+I + +I + G
Sbjct: 1509 GVKMKDLERVLY----YEAYIVKEPGEAAYDNEGTKLVMKYDILNEEQYQNISRRYEDRG 1564
Query: 184 FDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRK 243
F G AI++ L ++DL ++ S E K+ + +K
Sbjct: 1565 FVA------QMGGEAIKDLLEEIDLITLLQSLKEEVKDTNSDA---------------KK 1603
Query: 244 NFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIY 303
L++R+++ + F+ + PEWM+L +LPVLPP+LRP++ +DGGK SD+NELYRRVI
Sbjct: 1604 KKLIKRLKVVESFLNSGNRPEWMMLTVLPVLPPDLRPLVALDGGKFAVSDVNELYRRVIN 1663
Query: 304 RNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIE 363
RN L L+ P +V +++++QEAVD L DNG +K + + KS S+II+
Sbjct: 1664 RNQRLKRLMELG--APEIIVRNEKRMLQEAVDVLFDNGRSTNAVKGANKRPLKSLSEIIK 1721
Query: 364 GKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFAS 423
GK+GRFR+ LLGKRVD+SGRSVIVVGP+L + CGLP+ +A+ELF+ L+ L + +A+
Sbjct: 1722 GKQGRFRQNLLGKRVDFSGRSVIVVGPNLKMDECGLPKNMALELFKPHLLSKLEERGYAT 1781
Query: 424 NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPL 483
+ AK I +K VWE LQE+ G+P+LLNRAPTLH+ IQAF P L++G+AI LHPL
Sbjct: 1782 TLKQAKRMIEQKSNEVWECLQEITEGYPVLLNRAPTLHKQSIQAFHPKLIDGKAIQLHPL 1841
Query: 484 VCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYI 543
VC FNADFDGDQMA+HVPLS EA AE ++LM S N+L PA G +A+P+QDM++GLY
Sbjct: 1842 VCSAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASGKAVAIPSQDMVLGLYY 1901
Query: 544 LT 545
L+
Sbjct: 1902 LS 1903
>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 = 443 bits (1128), Expect = e-123
Identities = 237/542 (43%), Positives = 338/542 (61%), Gaps = 55/542 (10%)
Query: 16 SPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYR 75
SP++I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP K C CG Y+
Sbjct: 1405 SPEKIHSWS---------YGEVKKPETINYRTLKPERDGLFCMKIFGPTKDYECLCGKYK 1455
Query: 76 VIGDKKDEPKF-----CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLL 130
+P+F CE+CGV S++RR++MG+I+LA PV H+WY+ LPS I LL
Sbjct: 1456 -------KPRFKDIGTCEKCGVAITHSKVRRFRMGHIELATPVAHIWYVNSLPSRIGTLL 1508
Query: 131 DKPLKELEGLVYCDFSFARPVVKKPTFLRLRG-----LFEYEI--QSWKYSIPLFFATHG 183
+K+LE ++Y + +VK+P + +Y+I + +I + G
Sbjct: 1509 GVKMKDLERVLY----YEAYIVKEPGEAAYDNEGTKLVMKYDILNEEQYQNISRRYEDRG 1564
Query: 184 FDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRK 243
F G AI++ L ++DL ++ S E K+ + +K
Sbjct: 1565 FVA------QMGGEAIKDLLEEIDLITLLQSLKEEVKDTNSDA---------------KK 1603
Query: 244 NFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIY 303
L++R+++ + F+ + PEWM+L +LPVLPP+LRP++ +DGGK SD+NELYRRVI
Sbjct: 1604 KKLIKRLKVVESFLNSGNRPEWMMLTVLPVLPPDLRPLVALDGGKFAVSDVNELYRRVIN 1663
Query: 304 RNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIE 363
RN L L+ P +V +++++QEAVD L DNG +K + + KS S+II+
Sbjct: 1664 RNQRLKRLMELG--APEIIVRNEKRMLQEAVDVLFDNGRSTNAVKGANKRPLKSLSEIIK 1721
Query: 364 GKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFAS 423
GK+GRFR+ LLGKRVD+SGRSVIVVGP+L + CGLP+ +A+ELF+ L+ L + +A+
Sbjct: 1722 GKQGRFRQNLLGKRVDFSGRSVIVVGPNLKMDECGLPKNMALELFKPHLLSKLEERGYAT 1781
Query: 424 NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPL 483
+ AK I +K VWE LQE+ G+P+LLNRAPTLH+ IQAF P L++G+AI LHPL
Sbjct: 1782 TLKQAKRMIEQKSNEVWECLQEITEGYPVLLNRAPTLHKQSIQAFHPKLIDGKAIQLHPL 1841
Query: 484 VCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYI 543
VC FNADFDGDQMA+HVPLS EA AE ++LM S N+L PA G +A+P+QDM++GLY
Sbjct: 1842 VCSAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASGKAVAIPSQDMVLGLYY 1901
Query: 544 LT 545
L+
Sbjct: 1902 LS 1903
>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 = 441 bits (1123), Expect = e-122
Identities = 230/519 (44%), Positives = 333/519 (63%), Gaps = 49/519 (9%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GE+ KP T +Y+T KPEK GLFCE+IFGP K C CG Y+ I K + C++CGVE
Sbjct: 38 GEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECYCGKYKKI---KHKGIVCDRCGVEV 94
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCD-FSFARP--- 150
S++RR +M +I+LA P+ H+W+ K PS I N+L +LE ++Y + + P
Sbjct: 95 TLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERVIYYEEYVVIDPGNT 154
Query: 151 -VVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHG----FDTFRNREISSGAGAIREQLVD 205
+VKK +L +Y K+ F A G +D ++ ++ S G ++E+L
Sbjct: 155 DLVKK----QLLNDAKYREVVEKWGKDAFVAKMGGEAVYDLLKSEDLESLLGELKERL-- 208
Query: 206 LDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEW 265
R T ++ R K L +R+++ + F+ ++ PEW
Sbjct: 209 --------------------RKTKSQQ-------ARMK--LAKRLKIVEGFVSSSNRPEW 239
Query: 266 MVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMC 325
MVL +PV+PP+LRP++ +DGG+ +SD+N+LYRRVI RNN L +L TP +V
Sbjct: 240 MVLKNIPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLK--TPEVIVRN 297
Query: 326 QEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSV 385
+++++QEAVD L DNG G P+ N+ KS S++++GK GRFR+ LLGKRVDYSGRSV
Sbjct: 298 EKRMLQEAVDALFDNGRHGHPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSV 357
Query: 386 IVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQE 445
I+VGP L ++CGLP+E+A+ELF+ F+I+ L + I AK I+ P VW++L+E
Sbjct: 358 IIVGPELKFNQCGLPKEMALELFEPFIIKRLKDQGSVYTIRSAKKMIQRGAPEVWDVLEE 417
Query: 446 VMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSL 505
+++GHP+LLNRAPTLHRLGIQAF+P+L+EG+AI +HPLVC FNADFDGDQMA+HVPLS+
Sbjct: 418 IIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRVHPLVCAAFNADFDGDQMAVHVPLSI 477
Query: 506 EAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
EAQ EA++LM + N+ P+ G P+A P++DM +G+Y L
Sbjct: 478 EAQLEAKVLMMAPDNIFLPSSGKPVATPSKDMTLGIYYL 516
>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 = 441 bits (1122), Expect = e-122
Identities = 248/543 (45%), Positives = 346/543 (63%), Gaps = 52/543 (9%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
++++I SP QI W+ GEV K T +Y+T +PEKDGLFCERIFG K
Sbjct: 8 ERIKIKIASPDQIRNWS---------YGEVKKSETINYRTLRPEKDGLFCERIFGTTKEW 58
Query: 68 ICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIA 127
C CG ++ + K C++C VE ++RR +MG+I+LA PV H+WY K +PS I
Sbjct: 59 ECYCGKFKSVRYKGI---ICDRCNVEVTHFKVRRERMGHIELAAPVAHIWYYKYIPSRIG 115
Query: 128 NLLDKPLKELEGLVYCDFSFARPVVKKP--TFLRLRGLF---EYEIQSWKYSIPLFFATH 182
LLD L ++Y + + VV +P T L+ L EY +Y +
Sbjct: 116 LLLDITASSLNSILY----YEKYVVIEPGDTDLKKMQLLNEDEYIEARERYGMSF----- 166
Query: 183 GFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRR 242
S GA AI+ L +LDL + SS + + + ++ T D+K
Sbjct: 167 --------NASMGAEAIKTLLENLDLDEL--SSKLRIQMIDKDDKT-------DKK---- 205
Query: 243 KNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVI 302
L+RR+E+ ++F + +PEWM++ +LPV+PPE+RP++Q+DGG+ +SD+N+LYRRVI
Sbjct: 206 ---LLRRLEIIENFKISGNKPEWMIMEVLPVIPPEIRPMVQLDGGRFATSDLNDLYRRVI 262
Query: 303 YRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDII 362
RNN L LL + P +V +++++QE+VD+L DN + + +K ++ KS SD +
Sbjct: 263 NRNNRLRKLLLLN--APEIIVRNEKRMLQESVDSLFDNSHKRKVVKGSSSRPLKSLSDAL 320
Query: 363 EGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFA 422
+GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP ++A+ELF+ F+IR LI
Sbjct: 321 KGKQGRFRQNLLGKRVDYSGRSVIVVGPELKLHQCGLPAKMALELFKPFVIRRLIESEAV 380
Query: 423 SNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHP 482
NI AK+ I ++ VW+IL V++ HPILLNRAPTLHRLGIQAF+P+LVEG+AI LHP
Sbjct: 381 FNIKRAKNLIEQEVDEVWQILDLVIKEHPILLNRAPTLHRLGIQAFEPVLVEGKAIKLHP 440
Query: 483 LVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLY 542
LVC +NADFDGDQMA+HVPL+ AQAE+ LM S NLL+PA G PI P+QD+++GLY
Sbjct: 441 LVCHAYNADFDGDQMAVHVPLTPAAQAESWALMLSTNNLLNPANGHPIVFPSQDIVLGLY 500
Query: 543 ILT 545
LT
Sbjct: 501 YLT 503
>prf||1605164A RNA polymerase beta' [Pseudomonas putida]
Length = 1409
Score = 441 bits (1122), Expect = e-122
Identities = 246/539 (45%), Positives = 338/539 (62%), Gaps = 47/539 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 31 IRIGLASPEMIRSWS---------FGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 81
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE ++ +MG+I+LAC + H+W+LK LPS I L
Sbjct: 82 LCGKYKRL---KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLL 138
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
+D L+++E ++Y F VV P G+ E F A F D F
Sbjct: 139 MDMTLRDIERVLY----FESYVVIDP------GMTTLEKGQLLNDEQYFEALEEFGDDF- 187
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELG--EERSTHNENEWEDRKVGRRKNFL 246
+ + GA A+RE L +DL E+G E +E + +K L
Sbjct: 188 --DAAMGAEAVRELLHAIDLE----------HEIGPLREEIPQTNSETKIKK-------L 228
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R++L + F PEWMVL +LPV+P L P++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 229 SKRLKLMEAFQGIGNLPEWMVLTVLPVVPAPLGPLVPLDGGRFATSDLNDLYRRVINRNN 288
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L S P +V ++ ++QEAV+ LLDNG G + + + KS +D+I+GK+
Sbjct: 289 RLKRQLDLS--APDIIVRNEKPMLQEAVEPLLDNGACGVAITGSNKRPLKSLADMIKGKQ 346
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I
Sbjct: 347 GRFRQNLLGKRVDYSGRSVISVGPTLRLHQCGLPKKMALELFKPFIFGKLEMRGLATTIK 406
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + + P VW++L EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 407 AAKKMVERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCA 466
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
+NADFDGDQMA+ VPL+LEAQ E LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 467 RYNADFDGDQMAVDVPLTLEAQLENGALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 525
>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 = 440 bits (1120), Expect = e-122
Identities = 229/519 (44%), Positives = 333/519 (64%), Gaps = 49/519 (9%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GE+ KP T +Y+T KPEK GLFCE+IFGP K C CG Y+ I K + C++CGVE
Sbjct: 38 GEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECYCGKYKKI---KHKGIVCDRCGVEV 94
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCD-FSFARP--- 150
S++RR +M +I+LA P+ H+W+ K PS I N+L +LE ++Y + + P
Sbjct: 95 TLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERVIYYEEYVVIDPGNT 154
Query: 151 -VVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHG----FDTFRNREISSGAGAIREQLVD 205
+VKK +L +Y K+ F A G +D ++ ++ S G ++++L
Sbjct: 155 DLVKK----QLLNDAKYREVVEKWGKDAFVAKMGGEAVYDLLKSEDLESLLGELKDRL-- 208
Query: 206 LDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEW 265
R T ++ R K L +R+++ + F+ ++ PEW
Sbjct: 209 --------------------RKTKSQQ-------ARMK--LAKRLKIVEGFVSSSNRPEW 239
Query: 266 MVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMC 325
MVL +PV+PP+LRP++ +DGG+ +SD+N+LYRRVI RNN L +L TP +V
Sbjct: 240 MVLKNIPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLK--TPEVIVRN 297
Query: 326 QEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSV 385
+++++QEAVD L DNG G P+ N+ KS S++++GK GRFR+ LLGKRVDYSGRSV
Sbjct: 298 EKRMLQEAVDALFDNGRHGHPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSV 357
Query: 386 IVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEILQE 445
I+VGP L ++CGLP+E+A+ELF+ F+I+ L + I AK I+ P VW++L+E
Sbjct: 358 IIVGPELKFNQCGLPKEMALELFEPFIIKRLKDQGSVYTIRSAKKMIQRGAPEVWDVLEE 417
Query: 446 VMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSL 505
+++GHP+LLNRAPTLHRLGIQAF+P+L+EG+AI +HPLVC FNADFDGDQMA+HVPLS+
Sbjct: 418 IIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRVHPLVCAAFNADFDGDQMAVHVPLSI 477
Query: 506 EAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
EAQ EA++LM + N+ P+ G P+A P++DM +G+Y L
Sbjct: 478 EAQLEAKVLMMAPDNIFLPSSGKPVATPSKDMTLGIYYL 516
>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 = 437 bits (1113), Expect = e-121
Identities = 245/539 (45%), Positives = 337/539 (62%), Gaps = 47/539 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 31 IRIGLASPEMIRSWS---------FGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 81
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE ++ +MG+I+LAC + H+W+LK LPS I L
Sbjct: 82 LCGKYKRL---KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLL 138
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
+D L+++E ++Y F VV P G+ E F A F D F
Sbjct: 139 MDMTLRDIERVLY----FESYVVIDP------GMTTLEKGQLLNDEQYFEALEEFGDDF- 187
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELG--EERSTHNENEWEDRKVGRRKNFL 246
+ + GA A+RE L +DL E+G E +E + +K L
Sbjct: 188 --DAAMGAEAVRELLHAIDLE----------HEIGPLREEIPQTNSETKIKK-------L 228
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R++L + F PEWMVL +LPV+P L P++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 229 SKRLKLMEAFQGIGNLPEWMVLTVLPVVPAPLGPLVPLDGGRFATSDLNDLYRRVINRNN 288
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L S P +V ++ ++QEAV+ LLDNG G + + + KS +D+I+GK+
Sbjct: 289 RLKRQLDLS--APDIIVRNEKPMLQEAVEPLLDNGACGVAIIGSNKRPLKSLADMIKGKQ 346
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
G FR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I
Sbjct: 347 GLFRQNLLGKRVDYSGRSVISVGPTLRLHQCGLPKKMALELFKPFIFGKLEMRGLATTIK 406
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + + P VW++L EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 407 AAKKMVERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCA 466
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
+NADFDGDQMA+ VPL+LEAQ E LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 467 RYNADFDGDQMAVDVPLTLEAQLENGALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 525
>emb|CAC10564.1| (Y16470) DNA-dependent RNA polymerase subunit beta' [Porphyromonas
cangingivalis]
Length = 1240
Score = 427 bits (1085), Expect = e-118
Identities = 232/542 (42%), Positives = 340/542 (61%), Gaps = 38/542 (7%)
Query: 9 QLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGI 68
+++IG SP+++ L N GEV KP T +Y+T KPE+DGLFCERIFGPIK
Sbjct: 15 RIKIGIASPEEV-------LENSS--GEVLKPETINYRTYKPERDGLFCERIFGPIKD-F 64
Query: 69 CTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIAN 128
C+CG+ V+ + C++CGVE + ++RR +MG+I L PV H+W+ + +P+ IA
Sbjct: 65 CSCGSTSVL---RYRGIVCDRCGVEVTEKKVRRERMGHIALEVPVAHIWFFRSIPNKIAY 121
Query: 129 LLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRG---LFEYEIQSWKYSIPLFFATHGFD 185
LL P K+L+ ++Y + V++ T L L E E S+P +
Sbjct: 122 LLGIPSKKLDAIIYYE---RYAVIQPGTVEGLAAGDLLTEEEYLDILDSLPE--GNQDLE 176
Query: 186 TFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNF 245
+ + GA E + DL R+ +D E + + S+ +RK
Sbjct: 177 DDAPEKFIAKIGA--EAIYDLLCRVDLDKLSYELRAKASKDSSQ-----------QRKKE 223
Query: 246 LVRRMELAKHFIRTN--IEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIY 303
++R+++ + F + PEWMV+ ++PV+PPEL ++ +DGG+ +SD+NEL RRVI
Sbjct: 224 ALKRLQVVESFRASEGYSRPEWMVMKVIPVIPPELHTLVPLDGGRFATSDLNELCRRVII 283
Query: 304 RNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIE 363
RNN L L+ + P ++ +++++QEAVD+ DN + +K N+ KS +D ++
Sbjct: 284 RNNRLRRLI--EQRAPQVILRNEKRMLQEAVDSFFDNSSKAGAVKSDSNRPLKSLTDSLK 341
Query: 364 GKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFAS 423
GK+GRFR+ LLGKRVDYSGRSVIVVGP +H CGLP+ +A EL++ F+IR L+ +
Sbjct: 342 GKQGRFRQNLLGKRVDYSGRSVIVVGPEPKMHECGLPKYMAAELYKPFVIRKLLERGIVK 401
Query: 424 NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPL 483
+ A+ + +K P VW+IL+ V++GHP+LLNRAPTLHRLGIQAFQP L+EG+AI LHPL
Sbjct: 402 TVKSARRIVDKKGPEVWDILEHVIKGHPVLLNRAPTLHRLGIQAFQPKLIEGKAIQLHPL 461
Query: 484 VCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYI 543
C FNADFDGDQMA+H+PLS EA EA++LM + N+L+PA G PI VP+QDM++GLY
Sbjct: 462 ACTAFNADFDGDQMAVHLPLSNEAILEAQMLMLASHNILNPANGAPITVPSQDMVLGLYY 521
Query: 544 LT 545
+T
Sbjct: 522 IT 523
>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 = 406 bits (1032), Expect = e-112
Identities = 219/467 (46%), Positives = 316/467 (66%), Gaps = 39/467 (8%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE S++RR +MG+I+LA PVTH+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLILDMSPRSLEEIIY---- 64
Query: 147 FARPVVKKP--TFLRLRGLF-EYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV P T L + L E E + ++ +G DTF + GA AI+E L
Sbjct: 65 FASYVVINPGNTPLEKKQLITEAEYRQYQDQ-------YGTDTF---DAKMGAEAIKELL 114
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL E+ + +NE +D G+++ VRR+++ + FI++ +P
Sbjct: 115 AEVDL---------------EKHAKELKNELKDA-TGQKRTRAVRRLDIVEAFIQSGNKP 158
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
EWMV+ ++PV+PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 159 EWMVMDVVPVIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLN--APGIIV 216
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEAVD L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 217 QNEKRMLQEAVDALIDNGRRGRPVSGPGNRPLKSLSHLLKGKQGRFRQNLLGKRVDYSGR 276
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIR----KHFASNIGVAKSKIREKEPIV 439
SVI VGP L +++ GLPR++A+ELF+ F+ LI A+N+ A+ + E +V
Sbjct: 277 SVIDVGPFLKMNQMGLPRQMAVELFKPFIYNRLIELGTENGGANNLRSARRLVERHEDVV 336
Query: 440 WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAI 499
++L+EV++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV +NADFDGDQMAI
Sbjct: 337 QDVLEEVVKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTTAYNADFDGDQMAI 396
Query: 500 HVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
HVPLS EAQAEARLLM + +++L+P G PI P+QDM IG Y LT+
Sbjct: 397 HVPLSDEAQAEARLLMLAASHILAPKDGKPIVAPSQDMTIGNYYLTT 443
>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 = 400 bits (1016), Expect = e-110
Identities = 214/464 (46%), Positives = 309/464 (66%), Gaps = 40/464 (8%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE +++RR +MG+I+L PV+H+WY K +PS + LD + LE ++Y
Sbjct: 9 CDRCGVEVTRAKVRRERMGHIELKAPVSHIWYFKGIPSRMGLTLDMSPRALEEVIY---- 64
Query: 147 FARPVVKKP--TFLRLRGLF---EYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIRE 201
FA VV P T L + L EY + +Y F A GA AI++
Sbjct: 65 FAAYVVIDPKDTPLEPKSLLTEREYREKLQEYGHGSFVA------------KMGAEAIQD 112
Query: 202 QLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNI 261
L +DL E EL EE + + G+++ VRR+++ F ++
Sbjct: 113 LLKRVDLA-------AEIAELKEELKSAS---------GQKRIKAVRRLDVLDAFNKSGN 156
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGE 321
+PEWMVL +LPV+PP+LRP++Q+DGG+ +SD+N+LYRRVI RNN L LL + PG
Sbjct: 157 KPEWMVLNILPVIPPDLRPMVQLDGGRFAASDLNDLYRRVINRNNRLARLLELN--APGI 214
Query: 322 LVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+V +++++QEAVD L+DNG RG+P+ ++ KS S +++GK+GRFR+ LLGKRVD+S
Sbjct: 215 IVQNEKRMLQEAVDALIDNGRRGRPITGPGSRPLKSLSHMLKGKQGRFRQNLLGKRVDFS 274
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWE 441
GRSVI VGP+L +++CG+PRE+AIELF+ F++R ++ K +A N+ AK + + +W+
Sbjct: 275 GRSVIAVGPTLKMYQCGVPREMAIELFKPFVMREIVAKEYAGNVKAAKRMVERGDERIWD 334
Query: 442 ILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHV 501
IL+EV++ HP+LLNRAPTLHRLGIQAF+P+L++G + LHPLVC+ NADFDG QMAIHV
Sbjct: 335 ILEEVIKEHPVLLNRAPTLHRLGIQAFEPVLIDGNLLRLHPLVCEAGNADFDG-QMAIHV 393
Query: 502 PLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
PLS EAQAEARLLM + ++L+P G P+ P+QDM++G Y LT
Sbjct: 394 PLSEEAQAEARLLMLAAEHILNPKDGKPVVTPSQDMVLGNYYLT 437
>gb|AAA25987.1| (M38319) RNA polymerase (rpoC) (EC 2.7.7.6) [Pseudomonas putida]
Length = 498
Score = 400 bits (1016), Expect = e-110
Identities = 229/511 (44%), Positives = 312/511 (60%), Gaps = 47/511 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 31 IRIGLASPEMIRSWS---------FGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 81
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE ++ +MG+I+LAC + H+W+LK LPS I L
Sbjct: 82 LCGKYKRV---KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLL 138
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
+D L+++E ++Y F VV P G+ E F A F D F
Sbjct: 139 MDMTLRDIERVLY----FESYVVIDP------GMTTLEKGQLLNDEQYFEALEEFGDDF- 187
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELG--EERSTHNENEWEDRKVGRRKNFL 246
+ + GA A+RE L DL E+G E +E + +K L
Sbjct: 188 --DAAMGAEAVRELLHATDLE----------HEIGPLREEIPQTNSETKIKK-------L 228
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R++L + F PEWMVL +LPV+P L P++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 229 SKRLKLMEAFQGIGNLPEWMVLTVLPVVPAPLGPLVPLDGGRFATSDLNDLYRRVINRNN 288
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L S P +V ++ ++QEAV+ LLDNG G + + + KS +D+I+GK+
Sbjct: 289 RLKRQLDLS--APDIIVRNEKPMLQEAVEPLLDNGACGVAITGSNKRPSKSLADMIKGKQ 346
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I
Sbjct: 347 GRFRQNLLGKRVDYSGRSVISVGPTLRLHQCGLPKKMALELFKPFIFGKLEMRGLATTIK 406
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + + P VW++L EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 407 AAKKMVERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCA 466
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFS 517
+NADFDGDQMA+ V L LEAQ E LM S
Sbjct: 467 RYNADFDGDQMAVDVLLILEAQLENGALMMS 497
>pir||JN0420 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Pseudomonas
putida (fragment)
Length = 497
Score = 400 bits (1016), Expect = e-110
Identities = 229/511 (44%), Positives = 312/511 (60%), Gaps = 47/511 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RIG SP+ I +W+ GEV KP T +Y+T KPE+DGLFC +IFGP+K C
Sbjct: 31 IRIGLASPEMIRSWS---------FGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYEC 81
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE ++ +MG+I+LAC + H+W+LK LPS I L
Sbjct: 82 LCGKYKRV---KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLL 138
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGF-DTFR 188
+D L+++E ++Y F VV P G+ E F A F D F
Sbjct: 139 MDMTLRDIERVLY----FESYVVIDP------GMTTLEKGQLLNDEQYFEALEEFGDDF- 187
Query: 189 NREISSGAGAIREQLVDLDLRIVIDSSLVEWKELG--EERSTHNENEWEDRKVGRRKNFL 246
+ + GA A+RE L DL E+G E +E + +K L
Sbjct: 188 --DAAMGAEAVRELLHATDLE----------HEIGPLREEIPQTNSETKIKK-------L 228
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R++L + F PEWMVL +LPV+P L P++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 229 SKRLKLMEAFQGIGNLPEWMVLTVLPVVPAPLGPLVPLDGGRFATSDLNDLYRRVINRNN 288
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L S P +V ++ ++QEAV+ LLDNG G + + + KS +D+I+GK+
Sbjct: 289 RLKRQLDLS--APDIIVRNEKPMLQEAVEPLLDNGACGVAITGSNKRPSKSLADMIKGKQ 346
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVI VGP+L LH+CGLP+++A+ELF+ F+ L + A+ I
Sbjct: 347 GRFRQNLLGKRVDYSGRSVISVGPTLRLHQCGLPKKMALELFKPFIFGKLEMRGLATTIK 406
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + + P VW++L EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC
Sbjct: 407 AAKKMVERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCA 466
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFS 517
+NADFDGDQMA+ V L LEAQ E LM S
Sbjct: 467 RYNADFDGDQMAVDVLLILEAQLENGALMMS 497
>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 = 399 bits (1015), Expect = e-110
Identities = 208/463 (44%), Positives = 308/463 (65%), Gaps = 36/463 (7%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE +++RR +MG+I+LA PV+H+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRSLEEIIY---- 64
Query: 147 FARPVVKK---PTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV K + L E E + K F E GA A++ L
Sbjct: 65 FASYVVTKGGDTPLTEKQLLSEREYRELKAEYGNAF-----------EAGMGAEAVQTLL 113
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL + E +E G+++ VRR+++ + F+++ +P
Sbjct: 114 ANVDLEEEVTELKAELREA----------------TGQKRVRAVRRLDIIEAFVKSGNKP 157
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
EWMV+ ++P++PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 158 EWMVMDVIPIIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLELN--APGIIV 215
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEA D L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 216 QNEKRMLQEAADALVDNGRRGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGR 275
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEIL 443
SVI VGP L +++ GLPR++A+ELF+ F+++ L+++ A NI AK KI ++ V ++L
Sbjct: 276 SVIDVGPFLKMNQMGLPRQMAMELFRPFIMKELVKRDLAGNIRAAKRKIDRRDDDVMDVL 335
Query: 444 QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPL 503
++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV + +NADFDGDQMAIHVPL
Sbjct: 336 EDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMAIHVPL 395
Query: 504 SLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
S EAQAEARLLM + ++L+P G PI P+QDM+IG Y LT+
Sbjct: 396 SDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTT 438
>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 = 398 bits (1012), Expect = e-109
Identities = 208/463 (44%), Positives = 308/463 (65%), Gaps = 36/463 (7%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE +++RR +MG+I+LA PV+H+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRSLEEVIY---- 64
Query: 147 FARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV KP + + L E E + K F E GA A++ L
Sbjct: 65 FASYVVTKPGDTSLTEKQLLSEREYRQLKAEYGNAF-----------EAGMGAEAVQTLL 113
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL + + +E G+++ VRR+++ + F+++ +P
Sbjct: 114 SNVDLEEEVTELKAQLREA----------------TGQKRVRAVRRLDIIEAFVKSGNKP 157
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
EWMV+ ++P++PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 158 EWMVMDVIPIIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLELN--APGIIV 215
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEA D L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 216 QNEKRMLQEAADALVDNGRRGRPVTGPGNRPLKSLSHMLKGKQGRFRQDLLGKRVDYSGR 275
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEIL 443
SVI VGP L +++ GLPR +A+ELF+ F+++ L+++ A NI AK KI + V ++L
Sbjct: 276 SVIDVGPFLKMNQMGLPRPMAMELFRPFIMKELVKRDLAGNIRAAKRKIDRHDEDVMDVL 335
Query: 444 QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPL 503
++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV + +NADFDGDQMAIHVPL
Sbjct: 336 EDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMAIHVPL 395
Query: 504 SLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
S EAQAEARLLM + ++L+P G PI P+QDM+IG Y LT+
Sbjct: 396 SDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTT 438
>emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconostoc carnosum]
Length = 772
Score = 398 bits (1011), Expect = e-109
Identities = 212/463 (45%), Positives = 309/463 (65%), Gaps = 36/463 (7%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE S++RR +MG+I+LA PVTH+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEIIY---- 64
Query: 147 FARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV +P + + L E E + K F + GA AI++ L
Sbjct: 65 FASYVVIEPGDAPVEKKQLLTEREYRELKREFGASF-----------KAGMGAEAIKDLL 113
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL D E +E G+++ VRR ++ + F++++ +P
Sbjct: 114 ANVDLAGEADQLKRELQEA----------------TGQKRVRAVRRFDIIEAFLQSDNKP 157
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
+WMV+ ++PV+PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 158 QWMVMDVVPVIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLN--APGIIV 215
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEAVD L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 216 QNEKRMLQEAVDALIDNGRRGRPVAGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGR 275
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEIL 443
SVI VGP L +++ GLPR +AIELF+ F+++ L + A N+ AK KI + + V ++L
Sbjct: 276 SVIDVGPFLKMNQMGLPRPMAIELFRPFIMKELTTRSLAGNVKSAKRKIDKADEDVMDVL 335
Query: 444 QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPL 503
++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV + +NADFDGDQMAIHVPL
Sbjct: 336 EDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMAIHVPL 395
Query: 504 SLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
S EAQAEARLLM + ++L+P G PI P+QDM+IG Y LT+
Sbjct: 396 SDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTT 438
>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 = 397 bits (1010), Expect = e-109
Identities = 212/463 (45%), Positives = 309/463 (65%), Gaps = 36/463 (7%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE S++RR +MG+I+LA PVTH+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEIIY---- 64
Query: 147 FARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV +P + + + E E + K F + GA AI+E L
Sbjct: 65 FASYVVIEPGDAPVEKKQMMTEREYRQLKKEYGAGF-----------KAGMGAEAIKELL 113
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL D E +E G+++ VRR+++ + F++++ +P
Sbjct: 114 ANVDLATEADELKRELQEA----------------TGQKRVRAVRRLDIIEAFLQSDNKP 157
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
EWMV+ ++PV+PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 158 EWMVMEVIPVIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLN--APGIIV 215
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEAVD L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 216 QNEKRMLQEAVDALIDNGRRGRPVAGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGR 275
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEIL 443
SVI VGP L +++ GLP +AIELF+ F+++ L + A N+ AK KI + + V ++L
Sbjct: 276 SVIDVGPFLKMNQMGLPVPMAIELFRPFIMKELTTRKLAGNVKSAKRKIDKADGDVMDVL 335
Query: 444 QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPL 503
++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV + +NADFDGDQMAIHVPL
Sbjct: 336 EDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMAIHVPL 395
Query: 504 SLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
S EAQAEARLLM + ++L+P G PI P+QDM+IG Y LT+
Sbjct: 396 SDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTT 438
>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 = 396 bits (1006), Expect = e-109
Identities = 212/463 (45%), Positives = 309/463 (65%), Gaps = 36/463 (7%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE S++RR +MG+I+LA PVTH+WY K +PS + +LD + LE ++Y
Sbjct: 9 CDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEIIY---- 64
Query: 147 FARPVVKKP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
FA VV +P + + + E E + K F + GA AI+E L
Sbjct: 65 FASYVVIEPGDAPVEKKQMVTEREYRQLKKEYGAGF-----------KAGMGAEAIKELL 113
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
++DL GE E + G+++ VRR+++ + F++++ +P
Sbjct: 114 ANVDLA-------------GERDELKRELQ---EATGQKRVRAVRRLDIVEAFLQSDNKP 157
Query: 264 EWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELV 323
EWMV+ ++PV+PP+LRP++Q++GG+ +SD+N+LYRRVI RNN L LL + PG +V
Sbjct: 158 EWMVMDVVPVIPPDLRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLN--APGIIV 215
Query: 324 MCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 383
+++++QEAVD L+DNG RG+P+ N+ KS S +++GK+GRFR+ LLGKRVDYSGR
Sbjct: 216 QNEKRMLQEAVDALIDNGRRGRPVAGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGR 275
Query: 384 SVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWEIL 443
SVI VGP L +++ GLP +AIELF+ F+++ L + A N+ AK KI + + V ++L
Sbjct: 276 SVIDVGPFLKMNQMGLPVPMAIELFRPFIMKELTTRKLAGNVKSAKRKIDKADGDVMDVL 335
Query: 444 QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPL 503
++V++ HP+LLNRAPTLHRLGIQAF+P+LV G+A+ LHPLV + +NADFDGDQMAIHVPL
Sbjct: 336 EDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMAIHVPL 395
Query: 504 SLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
S EAQAEARLLM + ++L+P G PI P+QDM+IG Y LT+
Sbjct: 396 SDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTT 438
>gi|11467567 RNA polymerase beta'-chain [Odontella sinensis]
sp|P49467|RPOC_ODOSI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||S78372 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Odontella
sinensis chloroplast
emb|CAA91745.1| (Z67753) RNA polymerase beta'-chain [Odontella sinensis]
Length = 843
Score = 390 bits (992), Expect = e-107
Identities = 207/485 (42%), Positives = 306/485 (62%), Gaps = 37/485 (7%)
Query: 195 GAGAIREQLVDLDL--------RIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
GA I+++L DLD+ + ++ S + KE +WE ++ + ++
Sbjct: 384 GAVLIKKELEDLDIIKEIQRTRKFIVICSKILHKEKPIYHFLRWFRKWELQRAYKLRDQA 443
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
++R+ + ++ + T P WM+L +LPV+PP LRP+IQ++GG+ +SD+NELYRR+I RNN
Sbjct: 444 IKRIRILENLLATGSNPAWMILTILPVIPPALRPMIQLEGGRFATSDLNELYRRIITRNN 503
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L+ LL P ++ +++++QEAVDTL+DNG RG+ +N+ KS SDII+GK
Sbjct: 504 RLLRLLEID--APQLIIRNEKRMLQEAVDTLIDNGKRGKIALSANNRPLKSLSDIIKGKH 561
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVIVVGPSL L+ CGLP E+A+ELFQ FLIR +I + ASN+
Sbjct: 562 GRFRQNLLGKRVDYSGRSVIVVGPSLRLNECGLPYEMALELFQPFLIREMINQGLASNMK 621
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
+A++ I + E I+ +L++V+ HPI LNRAPTLHRLGIQAF+PILV+GRAI LHPLVC
Sbjct: 622 IARNLIEQNEAIIDPVLEKVLSNHPIFLNRAPTLHRLGIQAFEPILVQGRAIKLHPLVCS 681
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
FNADFDGDQMA+H+PLSLE+Q+E +LM + N LSPA G+PI +P+QDM++G Y LT
Sbjct: 682 AFNADFDGDQMAVHIPLSLESQSECYMLMLAPYNFLSPANGEPIILPSQDMVLGCYYLTV 741
Query: 547 GNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWL 606
N +G+ + +F++ D + A+ Q KI + W+
Sbjct: 742 SNIKGLLGS------------------------NQYFASLEDVLLAYNQDKIELHTAIWI 777
Query: 607 RWRLDKCIMSSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCIYIRTTIGHISFYRE 666
R+ + + + I+++ S Y +IYE+ + R Y++TT G + F
Sbjct: 778 RYTDNYIEPLNFKKQIQLNDAS---YIEIYENMQIRRDKDGNKIVQYLQTTTGRVIFNYT 834
Query: 667 IEEAI 671
++ +
Sbjct: 835 VQTTL 839
Score = 134 bits (333), Expect = 4e-30
Identities = 62/122 (50%), Positives = 83/122 (67%), Gaps = 3/122 (2%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+ I SP +I W+ + LPNG+ +GEV K T +Y+T KPE DGLFCERIFGP +S C
Sbjct: 11 INIKLASPLRILQWSYRRLPNGQFIGEVQKSETINYRTFKPEMDGLFCERIFGPSRSFEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y++I + E CE+CGVE +SR+RR++MG+I L PV HVWY P+Y+A L
Sbjct: 71 ACGKYKLI---RYEGLICERCGVELTESRVRRHRMGHINLIYPVAHVWYTNSRPNYMALL 127
Query: 130 LD 131
L+
Sbjct: 128 LE 129
>gi|11467043 RNA polymerase subunit [Euglena gracilis]
sp|P23580|RPOC_EUGGR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||RNEGB1 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - Euglena
gracilis chloroplast
emb|CAA35053.1| (X17191) RNA polymerase subunit [Euglena gracilis]
emb|CAA50137.1| (X70810) RNA polymerase subunit [Euglena gracilis]
Length = 586
Score = 377 bits (959), Expect = e-103
Identities = 214/542 (39%), Positives = 317/542 (58%), Gaps = 44/542 (8%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
+RI SPQQ+ +W + LP+G ++G +T H++T KP GL CERIFG K+ C
Sbjct: 5 VRIKIASPQQVLSWTERSLPDGRLIGRLTNFDMLHFETKKPVFGGLLCERIFGSTKTNQC 64
Query: 70 TCGNYRVIGDKKDEPKF---CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYI 126
CG Y+ + K F C C VE + RR++MGYI L P+ H WYLK P Y+
Sbjct: 65 FCGKYKKMFQKGYANNFVLVCANCFVEINNCNRRRFRMGYIDLVFPLIHTWYLKSRPCYL 124
Query: 127 ANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDT 186
A +L K +K ++ + + D +++++R +
Sbjct: 125 AIMLGKKVKNIKKMCFMD-----------SYIKIRN----------------------ND 151
Query: 187 FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
+ I +GA AI +L +DL +I+ + + +G E+ E + + RK F
Sbjct: 152 GQTVGILTGAEAIYSRLSKIDLESLIE--FLYKRLVGIEKLKEYNFE---KYLWLRKKF- 205
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+ R++L FI+TN +P W+++ LPVLPP++RP++++ G ++ +D+N LY +IY NN
Sbjct: 206 INRIKLVNAFIQTNTKPIWIMIHFLPVLPPDIRPVVKLQDGTVIMTDLNFLYIDIIYGNN 265
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
+I L P E ++ +++ +Q VD ++N + + ++K KS ++ ++GK+
Sbjct: 266 KIIKL--RKFLLPEEFMLNEKRSLQVKVDAFINNENISENPYEQNDKKLKSITEGLKGKK 323
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFRE LLGK VDYSGRSVIVV P L LH CG+P +IA+ELF LI+ LIR F+ I
Sbjct: 324 GRFRENLLGKTVDYSGRSVIVVEPKLLLHECGMPLDIALELFHPILIKMLIRFKFSVGIR 383
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK I V +L++V+ + ILLNRAPTLHRLGIQ+FQP + +AI LHPLVC
Sbjct: 384 EAKRHIYNASNFVIPVLEKVLNSYFILLNRAPTLHRLGIQSFQPKVTFEKAILLHPLVCS 443
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
FNADFDGDQM IH+PLSL++ AEAR ++ S N + PA G P +P+QDM++G Y +T
Sbjct: 444 AFNADFDGDQMGIHIPLSLKSLAEARSMLISINNCVLPANGLPSILPSQDMVLGCYYVTL 503
Query: 547 GN 548
N
Sbjct: 504 EN 505
>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 = 372 bits (946), Expect = e-102
Identities = 198/464 (42%), Positives = 293/464 (62%), Gaps = 25/464 (5%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C++CGVE + ++RR +MG+I L PV H+W+ + +P+ IA LL P K+L+ ++Y +
Sbjct: 9 CDRCGVEVTEKKVRRERMGHIALEVPVAHIWFFRSIPNKIAYLLGIPSKKLDAIIYYE-- 66
Query: 147 FARPVVKKPTFLRLRG---LFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQL 203
V++ T L L E E S+P + + + GA E +
Sbjct: 67 -RYAVIQPGTVEGLAAGDLLTEEEYLDILDSLPE--GNQDLEDDAPEKFIAKIGA--EAI 121
Query: 204 VDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN--I 261
DL R+ +D E + + S+ +RK ++R+++ + F +
Sbjct: 122 YDLLCRVDLDKLSYELRAKASKDSSQ-----------QRKKEALKRLQVVESFRASEGYS 170
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGE 321
PEWMV+ ++PV+PPEL ++ +DGG+ +SD+NEL RRVI RNN L L+ + P
Sbjct: 171 RPEWMVMKVIPVIPPELHTLVPLDGGRFATSDLNELCRRVIIRNNRLRRLI--EQRAPQV 228
Query: 322 LVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
++ +++++QEAVD+ DN + +K N+ KS +D ++GK+GRFR+ LLGKRVDYS
Sbjct: 229 ILRNEKRMLQEAVDSFFDNSSKAGAVKSDSNRPLKSLTDSLKGKQGRFRQNLLGKRVDYS 288
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWE 441
GRSVIVVGP +H CGLP+ +A EL++ F+IR L+ + + A+ + +K P VW+
Sbjct: 289 GRSVIVVGPEPKMHECGLPKYMAAELYKPFVIRKLLERGIVKTVKSARRIVDKKGPEVWD 348
Query: 442 ILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHV 501
IL+ V++GHP+LLNRAPTLHRLGIQAFQP L+EG+AI LHPL C FNADFDGDQMA+H+
Sbjct: 349 ILEHVIKGHPVLLNRAPTLHRLGIQAFQPKLIEGKAIQLHPLACTAFNADFDGDQMAVHL 408
Query: 502 PLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
PLS EA EA++LM + N+L+PA G PI VP+QDM++GLY +T
Sbjct: 409 PLSNEAILEAQMLMLASHNILNPANGAPITVPSQDMVLGLYYIT 452
>gb|AAK00446.1|AC060755_16 (AC060755) putative RNA polymerase subunit beta [Oryza sativa]
Length = 245
Score = 370 bits (940), Expect = e-101
Identities = 181/245 (73%), Positives = 206/245 (83%), Gaps = 2/245 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MIDQYKHQQL+IG VSPQQI AWA K LPNGE+VGEVT+ TFHYKT+KPEKDGLFCERI
Sbjct: 1 MIDQYKHQQLQIGLVSPQQIKAWANKTLPNGEVVGEVTRHSTFHYKTDKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKS IC CGN R G + ++ +F ++CGVEFVDSRI+RYQMGYIKLACPVTHVWYLK
Sbjct: 61 FGPIKSRICACGNSRASGAENEDERFYQKCGVEFVDSRIQRYQMGYIKLACPVTHVWYLK 120
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFA 180
LPSYIANLLDKPLK+LEGLVY DFSFARP KKPTFLRL+GLFE EI S +SI FF+
Sbjct: 121 GLPSYIANLLDKPLKKLEGLVYGDFSFARPSAKKPTFLRLQGLFEDEISSCNHSISPFFS 180
Query: 181 THGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVG 240
T GF TFR REI++GAGAIREQL DLDLRI++++S VEWKEL +E ++ +EWEDRK
Sbjct: 181 TPGFTTFRIREIATGAGAIREQLADLDLRIILENSSVEWKELEDE--GYSGDEWEDRKRR 238
Query: 241 RRKNF 245
RK F
Sbjct: 239 IRKVF 243
>prf||0805230A rpoC gene EcoRID fragment [Escherichia coli]
Length = 814
Score = 369 bits (936), Expect = e-101
Identities = 186/351 (52%), Positives = 255/351 (71%), Gaps = 17/351 (4%)
Query: 195 GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAK 254
GA AI+ L +DL +E + R NE E + R+K L +R++L +
Sbjct: 7 GAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTKRIKLLE 51
Query: 255 HFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTT 314
F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L LL
Sbjct: 52 AFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDL 111
Query: 315 SRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLL 374
+ P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GRFR+ LL
Sbjct: 112 A--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLL 169
Query: 375 GKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIRE 434
GKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I AK +
Sbjct: 170 GKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVER 229
Query: 435 KEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDG 494
+E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +NADFDG
Sbjct: 230 EEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDG 289
Query: 495 DQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
DQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 290 DQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 340
>gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli]
Length = 814
Score = 369 bits (936), Expect = e-101
Identities = 186/351 (52%), Positives = 255/351 (71%), Gaps = 17/351 (4%)
Query: 195 GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAK 254
GA AI+ L +DL +E + R NE E + R+K L +R++L +
Sbjct: 7 GAEAIQALLKSMDLE----------QECEQLREELNETNSETK---RKK--LTKRIKLLE 51
Query: 255 HFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTT 314
F+++ +PEWM+L +LPVLPP+LRP++ +DGG+ +SD+N+LYRRVI RNN L LL
Sbjct: 52 AFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDL 111
Query: 315 SRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLL 374
+ P +V +++++QEAVD LLDNG RG+ + + + KS +D+I+GK+GRFR+ LL
Sbjct: 112 A--APDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLL 169
Query: 375 GKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIRE 434
GKRVDYSGRSVI VGP L LH+CGLP+++A+ELF+ F+ L + A+ I AK +
Sbjct: 170 GKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVER 229
Query: 435 KEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDG 494
+E +VW+IL EV+R HP+LLNRAPTLHRLGIQAF+P+L+EG+AI LHPLVC +NADFDG
Sbjct: 230 EEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDG 289
Query: 495 DQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
DQMA+HVPL+LEAQ EAR LM S N+LSPA G+PI VP+QD+++GLY +T
Sbjct: 290 DQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMT 340
>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 = 362 bits (919), Expect = 9e-99
Identities = 219/572 (38%), Positives = 318/572 (55%), Gaps = 71/572 (12%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GEVTK T +YK+ KPE GLF E IFGP+K C CG ++ I K C++CGV
Sbjct: 34 GEVTKAETINYKSLKPEPGGLFDEAIFGPVKDYECACGKFKKI---KYRGVRCDRCGVWV 90
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPS--YIANLLDKPLKELEGLVY---------- 142
+S +RR +MG+I L PV H+W K LPS I+ +L+ KE+E ++Y
Sbjct: 91 TESIVRRERMGHIALVSPVAHIWMSKELPSPSKISLVLNISYKEVEQVLYFVNYIVLDTG 150
Query: 143 ---------------CDFSFARPVVKKPTFLRLRG-------------------LFEYEI 168
D + + + R+ G +F +
Sbjct: 151 KIKDPKIMPFKFKEVLDLAGKGSLTTRQKMRRVIGYIFRNLIKNRSSEDYRKGKIFYESL 210
Query: 169 QSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERST 228
++ L A + + + GA AI E L +DL E+ +L +
Sbjct: 211 KNSSLPFSLNDAFNYIKKYTGFRVGIGAEAILELLNKIDLNY-------EFSKLNDALRK 263
Query: 229 HNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGK 288
++ ED KV + ++R++E F + + P+ M+L +PV+PP++RPIIQ+DG K
Sbjct: 264 AKKDSVEDAKVKK----ILRQLETISWFRNSKLHPKNMILHTVPVIPPDIRPIIQLDGAK 319
Query: 289 LMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMK 348
+SDIN YRRVI RN+ L +L + P +V +++L+QE+VD L DN R +P
Sbjct: 320 FTTSDINNFYRRVIIRNDRLRRILEDG-TVPAIVVNNEKRLLQESVDALFDNSSRHKPAL 378
Query: 349 DGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELF 408
+ KS +D ++GK+G FR LLGKRVDYSGRSVIVVGP L ++ G+P + ++LF
Sbjct: 379 SKDKRSLKSLTDRLKGKQGLFRHNLLGKRVDYSGRSVIVVGPELKMYEVGIPALMILKLF 438
Query: 409 QTFLIRSLIRKH---------FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPT 459
+ F+I LI K AS+I A+ I+ ++ ++W I+ +V++ P+LLNRAPT
Sbjct: 439 KPFIIHGLINKFDSNGNEIRPIASSIRQAEDMIKNQDDLIWGIVYDVIKDRPVLLNRAPT 498
Query: 460 LHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHT 519
LHRLGIQAF+P +V+G+AI LHPLV FNADFDGDQMA+HVPLS A EAR ++ +
Sbjct: 499 LHRLGIQAFEPRIVDGKAIRLHPLVTTAFNADFDGDQMAVHVPLSENAVNEARAILLASK 558
Query: 520 NLLSPAIGDPIAVPTQDMLIGLYILTSGNRRG 551
++L G PI PTQDM++G Y LT+ R+G
Sbjct: 559 HILGLKDGRPIVTPTQDMVLGNYYLTT-ERKG 589
>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 = 361 bits (918), Expect = 1e-98
Identities = 222/574 (38%), Positives = 318/574 (54%), Gaps = 75/574 (13%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEF 94
GEVTK T +YK+ KPE GLF E IFGP+K C CG ++ I K C++CGV
Sbjct: 36 GEVTKAETINYKSLKPEPGGLFDEAIFGPVKDYECACGKFKKI---KYRGVRCDRCGVWV 92
Query: 95 VDSRIRRYQMGYIKLACPVTHVWYLKRLPS--YIANLLDKPLKELEGLVY---------- 142
+S +RR +MG+I L PV H+W K LPS I+ +L+ KE+E ++Y
Sbjct: 93 TESIVRRERMGHIALVSPVAHIWMSKELPSPSKISLVLNISYKEVEQVLYFVNYIVLDTG 152
Query: 143 ---------------------------------CDFSFARPVVKKPTFLRLRGLFEYEIQ 169
+ F + K + +G YE
Sbjct: 153 KIKDDKIMPFKFKEVLDLTGKGSLSTRQKMRRVIGYIFRNLIKSKSSEDYRKGKIFYE-- 210
Query: 170 SWKYSIPLFFATHGFDTFRNR---EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEER 226
S K S F F+ + + GA AI E L +DL + E+ L +
Sbjct: 211 SLKNSSLPFSLNDAFNYIKKYTGFRVGIGAEAILELLNKIDLNL-------EFSRLNDAL 263
Query: 227 STHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDG 286
++ ED KV + ++R++E F + + P+ M+L +PV+PP++RPIIQ+DG
Sbjct: 264 RKAKKDSVEDAKVKK----ILRQLETISWFRNSKLHPKNMILHTVPVIPPDIRPIIQLDG 319
Query: 287 GKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQP 346
K +SDIN YRRVI RN+ L +L + P +V +++L+QE+VD L DN R +P
Sbjct: 320 AKFTTSDINNFYRRVIIRNDRLRRILEDG-TVPSIVVNNEKRLLQESVDALFDNSSRHKP 378
Query: 347 MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIE 406
+ KS +D ++GK+G FR LLGKRVDYSGRSVIVVGP L ++ G+P + ++
Sbjct: 379 SLSKDKRSLKSLTDRLKGKQGLFRHNLLGKRVDYSGRSVIVVGPELKMYEVGIPALMILK 438
Query: 407 LFQTFLIRSLIRKH---------FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRA 457
LF+ F+I LI K A++I A+ I+ ++ ++W I+ +V++ P+LLNRA
Sbjct: 439 LFKPFIIHGLINKFDENGNEIRPIAASIRQAEDMIKNQDDLIWGIVYDVIKDRPVLLNRA 498
Query: 458 PTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFS 517
PTLHRLGIQAF+P +V+G+AI LHPLV FNADFDGDQMA+HVPLS A EAR ++ +
Sbjct: 499 PTLHRLGIQAFEPRIVDGKAIRLHPLVTTAFNADFDGDQMAVHVPLSENAVNEARAVLLA 558
Query: 518 HTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRG 551
++L G PI PTQDM++G Y LT+ R+G
Sbjct: 559 SKHILGLKDGRPIVTPTQDMVLGNYYLTT-ERKG 591
>emb|CAC30844.1| (AL583923) [beta]' subunit of RNA polymerase [Mycobacterium leprae]
Length = 1316
Score = 357 bits (906), Expect = 3e-97
Identities = 172/307 (56%), Positives = 235/307 (76%), Gaps = 2/307 (0%)
Query: 240 GRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYR 299
G++K ++R+++ F ++ P MVL +PV+PPELRP++Q+DGG+ +SD+N+LYR
Sbjct: 286 GQKKLRALKRLKVVAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYR 345
Query: 300 RVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFS 359
RVI RNN L L+ P +V +++++QE+VD L DNG RG+P+ N+ KS S
Sbjct: 346 RVINRNNRLKRLIDLG--APDIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSLS 403
Query: 360 DIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK 419
D+++GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+ +A+ELF+ F+++ L+
Sbjct: 404 DLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALELFKPFVMKRLVDL 463
Query: 420 HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
+ A NI AK + + P VW++L+EV+ HP+LLNRAPTLHRLGIQAF+P+LVEG+AI
Sbjct: 464 NHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPMLVEGKAIQ 523
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
LHPLVC+ FNADFDGDQMA+H+PLS EAQAEAR+LM S N+LSPA G P+A+P DM+
Sbjct: 524 LHPLVCEAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILSPASGRPLAMPRLDMVT 583
Query: 540 GLYILTS 546
GLY LT+
Sbjct: 584 GLYYLTT 590
Score = 129 bits (320), Expect = 1e-28
Identities = 64/142 (45%), Positives = 88/142 (61%), Gaps = 12/142 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D +LRIG + + I W+ GEV KP T +Y+T KPEKDGLFCE+I
Sbjct: 1 MLDVNFFDELRIGLATAEDIRQWS---------YGEVKKPETINYRTLKPEKDGLFCEKI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP + C CG Y+ + K CE+CGVE +++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTRDWECYCGKYKRVRFKGI---ICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVY 142
+PS + LLD K+LE ++Y
Sbjct: 109 GVPSRLGYLLDLAPKDLEKIIY 130
>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 = 357 bits (906), Expect = 3e-97
Identities = 172/307 (56%), Positives = 235/307 (76%), Gaps = 2/307 (0%)
Query: 240 GRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYR 299
G++K ++R+++ F ++ P MVL +PV+PPELRP++Q+DGG+ +SD+N+LYR
Sbjct: 286 GQKKLRALKRLKVVAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYR 345
Query: 300 RVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFS 359
RVI RNN L L+ P +V +++++QE+VD L DNG RG+P+ N+ KS S
Sbjct: 346 RVINRNNRLKRLIDLG--APDIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSLS 403
Query: 360 DIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK 419
D+++GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+ +A+ELF+ F+++ L+
Sbjct: 404 DLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALELFKPFVMKRLVDL 463
Query: 420 HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
+ A NI AK + + P VW++L+EV+ HP+LLNRAPTLHRLGIQAF+P+LVEG+AI
Sbjct: 464 NHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPMLVEGKAIQ 523
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
LHPLVC+ FNADFDGDQMA+H+PLS EAQAEAR+LM S N+LSPA G P+A+P DM+
Sbjct: 524 LHPLVCEAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILSPASGRPLAMPRLDMVT 583
Query: 540 GLYILTS 546
GLY LT+
Sbjct: 584 GLYYLTT 590
Score = 129 bits (320), Expect = 1e-28
Identities = 64/142 (45%), Positives = 88/142 (61%), Gaps = 12/142 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D +LRIG + + I W+ GEV KP T +Y+T KPEKDGLFCE+I
Sbjct: 1 MLDVNFFDELRIGLATAEDIRQWS---------YGEVKKPETINYRTLKPEKDGLFCEKI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP + C CG Y+ + K CE+CGVE +++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTRDWECYCGKYKRVRFKGI---ICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVY 142
+PS + LLD K+LE ++Y
Sbjct: 109 GVPSRLGYLLDLAPKDLEKIIY 130
>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 = 356 bits (905), Expect = 4e-97
Identities = 172/307 (56%), Positives = 235/307 (76%), Gaps = 2/307 (0%)
Query: 240 GRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYR 299
G++K ++R+++ F ++ P MVL +PV+PPELRP++Q+DGG+ +SD+N+LYR
Sbjct: 286 GQKKLRALKRLKVVAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYR 345
Query: 300 RVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFS 359
RVI RNN L L+ P +V +++++QE+VD L DNG RG+P+ N+ KS S
Sbjct: 346 RVINRNNRLKRLIDLG--APEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSLS 403
Query: 360 DIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK 419
D+++GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+ +A+ELF+ F+++ L+
Sbjct: 404 DLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALELFKPFVMKRLVDL 463
Query: 420 HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
+ A NI AK + + P VW++L+EV+ HP+LLNRAPTLHRLGIQAF+P+LVEG+AI
Sbjct: 464 NHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPMLVEGKAIQ 523
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
LHPLVC+ FNADFDGDQMA+H+PLS EAQAEAR+LM S N+LSPA G P+A+P DM+
Sbjct: 524 LHPLVCEAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILSPASGRPLAMPRLDMVT 583
Query: 540 GLYILTS 546
GLY LT+
Sbjct: 584 GLYYLTT 590
Score = 129 bits (320), Expect = 1e-28
Identities = 64/142 (45%), Positives = 88/142 (61%), Gaps = 12/142 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D +LRIG + + I W+ GEV KP T +Y+T KPEKDGLFCE+I
Sbjct: 1 MLDVNFFDELRIGLATAEDIRQWS---------YGEVKKPETINYRTLKPEKDGLFCEKI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP + C CG Y+ + K CE+CGVE +++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTRDWECYCGKYKRVRFKGI---ICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVY 142
+PS + LLD K+LE ++Y
Sbjct: 109 GVPSRLGYLLDLAPKDLEKIIY 130
>emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' chain (fragment)
[Streptomyces coelicolor A3(2)]
Length = 1059
Score = 355 bits (902), Expect = 8e-97
Identities = 169/307 (55%), Positives = 235/307 (76%), Gaps = 2/307 (0%)
Query: 240 GRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYR 299
G++K ++R+++ F++T+ P+ MVL +PV+PP+LRP++Q+DGG+ +SD+N+LYR
Sbjct: 286 GQKKTRALKRLKVVSAFLQTSNSPKGMVLDCVPVIPPDLRPMVQLDGGRFATSDLNDLYR 345
Query: 300 RVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFS 359
RVI RNN L LL P +V +++++QEAVD L DNG RG+P+ N+ KS S
Sbjct: 346 RVINRNNRLKRLLDLG--APEIIVNNEKRMLQEAVDALFDNGRRGRPVTGPGNRPLKSLS 403
Query: 360 DIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK 419
D+++GK+GRFR+ LLGKRVDYS RSVIVVGP L LH+CGLP+ +A+ELF+ F+++ L+
Sbjct: 404 DMLKGKQGRFRQNLLGKRVDYSARSVIVVGPQLKLHQCGLPKAMALELFKPFVMKRLVDL 463
Query: 420 HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
+ A NI AK + +V+++L+EV+ HP+LLNRAPTLHRLGIQAF+P LVEG+AI
Sbjct: 464 NHAQNIKSAKRMVERGRTVVYDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPQLVEGKAIQ 523
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
+HPLVC FNADFDGDQMA+H+PLS EAQAEAR+LM S N+L PA G P+ +PTQDM++
Sbjct: 524 IHPLVCTAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILKPADGRPVTMPTQDMVL 583
Query: 540 GLYILTS 546
GL+ LT+
Sbjct: 584 GLFFLTT 590
Score = 127 bits (316), Expect = 4e-28
Identities = 64/142 (45%), Positives = 87/142 (61%), Gaps = 12/142 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D +LRIG + I W+ GEV KP T +Y+T KPEKDGLFCE+I
Sbjct: 1 MLDVNFFDELRIGLATADDIRQWSH---------GEVKKPETINYRTLKPEKDGLFCEKI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP + C CG Y+ + K CE+CGVE +++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTRDWECYCGKYKRVRFKGI---ICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVY 142
+PS + LLD K+LE ++Y
Sbjct: 109 GVPSRLGYLLDLAPKDLEKVIY 130
>emb|CAB65466.3| (Y19223) RNA polymerase, beta-prime subunit [Thermus aquaticus]
Length = 1524
Score = 354 bits (899), Expect = 2e-96
Identities = 180/355 (50%), Positives = 249/355 (69%), Gaps = 22/355 (6%)
Query: 195 GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAK 254
GA AI+E L +LDL + L E K R +R+E+ +
Sbjct: 457 GAEAIQELLKELDLEKLERELLEEMKHPSRARRAKAR----------------KRLEVVR 500
Query: 255 HFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTT 314
F+ + PEWM+L +PVLPP+LRP++Q+DGG+ +SD+N+LYRR+I RNN L LL
Sbjct: 501 AFLDSGNRPEWMILEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLL-- 558
Query: 315 SRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKD-GHNKVYKSFSDIIEGKEGRFRETL 373
++ P ++ +++++QEAVD ++DNG RG P+ + G + +S +DI+ GK+GRFR+ L
Sbjct: 559 AQGAPEIIIRNEKRMLQEAVDAVIDNGRRGSPVTNPGSERPLRSLTDILSGKQGRFRQNL 618
Query: 374 LGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIR 433
LGKRVDYSGRSVIVVGP L LH+CGLP+ +A+ELF+ FL++ + K FA N+ A+ +
Sbjct: 619 LGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKAFAPNVKAARRMLE 678
Query: 434 EKEPI---VWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNA 490
+ I VW+ L+EV+ G +LLNRAPTLHRLGIQAFQP+LVEG++I LHPLVC+ FNA
Sbjct: 679 RQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNA 738
Query: 491 DFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
DFDGDQMA+HVPLS AQAEAR+ M S NLLSPA G+P+A P++D+++GLY +T
Sbjct: 739 DFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYIT 793
Score = 129 bits (321), Expect = 1e-28
Identities = 64/135 (47%), Positives = 88/135 (64%), Gaps = 12/135 (8%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
+++RI SP++I +W+ GEV KP T +Y+T KPE+DGLF ERIFGPIK
Sbjct: 6 RKVRIALASPEKIRSWS---------YGEVEKPETINYRTLKPERDGLFDERIFGPIKDY 56
Query: 68 ICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIA 127
C CG Y+ ++ E K CE+CGVE S +RRY+MG+I+LA P H+W++K +PS I
Sbjct: 57 ECACGKYK---RQRFEGKVCERCGVEVTRSIVRRYRMGHIELATPAAHIWFVKDVPSKIG 113
Query: 128 NLLDKPLKELEGLVY 142
LLD ELE ++Y
Sbjct: 114 TLLDLSATELEQVLY 128
>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 = 351 bits (890), Expect = 2e-95
Identities = 167/299 (55%), Positives = 230/299 (76%), Gaps = 3/299 (1%)
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R ++L + F ++ PEWM+L +LPV+PPELRP++ +DGG+ +SD+N+LYRRVI RNN
Sbjct: 349 LRILQLVEGFKKSGNRPEWMILEVLPVIPPELRPLVALDGGRFATSDLNDLYRRVINRNN 408
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L+ S P ++ +++++QEAVD L+DNG RG P+K + + KS +D ++GK+
Sbjct: 409 RLKRLIELS--APDIIIRNEKRMLQEAVDALIDNGKRGNPVKQ-NGRPLKSLADYLKGKQ 465
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVIVVGP L +H+CGLP+ +A+ELF+ F+ R L K +A++I
Sbjct: 466 GRFRQNLLGKRVDYSGRSVIVVGPELQMHQCGLPKIMALELFKPFVYRRLEEKGYATSIK 525
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + +K P VWE L+EV++ HP+LLNRAPTLHR IQAF+P+LVEG+AI LHPLVC
Sbjct: 526 HAKKLVEQKTPEVWECLEEVVKQHPVLLNRAPTLHRPSIQAFEPVLVEGKAIQLHPLVCP 585
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+HVPL +EAQ E+ +LM S N+LSPA G P+ +P+QDM++G Y +T
Sbjct: 586 PFNADFDGDQMAVHVPLGIEAQLESYILMLSTQNILSPAHGKPLTMPSQDMVLGTYYMT 644
Score = 122 bits (302), Expect = 2e-26
Identities = 59/138 (42%), Positives = 83/138 (59%), Gaps = 12/138 (8%)
Query: 5 YKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPI 64
+ ++++ SP I +W+ GEV +P T +Y+T KPEKDGLFC +IFGP
Sbjct: 9 FPFSKIKLMLASPDDIRSWSH---------GEVKRPETLNYRTLKPEKDGLFCAKIFGPT 59
Query: 65 KSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPS 124
K C CG YR K+ E K CE+CGVE S +RR + G+I+LA PV H+W+LK PS
Sbjct: 60 KDYECLCGKYR---GKRYEGKICEKCGVEVTSSYVRRERFGHIELAAPVVHIWFLKSTPS 116
Query: 125 YIANLLDKPLKELEGLVY 142
I LL+ +++E + Y
Sbjct: 117 KIGTLLNLTSRDVERVAY 134
>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 = 349 bits (885), Expect = 8e-95
Identities = 166/299 (55%), Positives = 229/299 (76%), Gaps = 3/299 (1%)
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
+R ++L + F ++ PEWM+L +LPVLPPELRP++ +DGG+ +SD+N+ YRRVI RNN
Sbjct: 349 LRTLQLVEGFKKSGNRPEWMILEVLPVLPPELRPLVALDGGRFATSDLNDFYRRVINRNN 408
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L L+ + P ++ +++++QEAVD L+DNG RG P+K + + KS +D ++GK+
Sbjct: 409 RLKRLIELN--APDIIIRNEKRMLQEAVDALIDNGKRGNPVKQ-NGRPLKSLADYLKGKQ 465
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
GRFR+ LLGKRVDYSGRSVIVVGP L +H+CGLP+ +A+ELF+ F+ R L K +A++I
Sbjct: 466 GRFRQNLLGKRVDYSGRSVIVVGPELQMHQCGLPKIMALELFKPFVYRRLEEKGYATSIK 525
Query: 427 VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
AK + +K P VWE L+EV++ HP+LLNRAPTLHR IQAF+P+LVEG+AI LHPLVC
Sbjct: 526 HAKRLVEQKTPEVWECLEEVVKEHPVLLNRAPTLHRPSIQAFEPVLVEGKAIQLHPLVCP 585
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+HVPL +EAQ E+ +LM S N+LSPA G P+ +P+QDM++G Y +T
Sbjct: 586 PFNADFDGDQMAVHVPLGIEAQLESYILMLSTQNVLSPAHGKPLTMPSQDMVLGTYYIT 644
Score = 124 bits (309), Expect = 3e-27
Identities = 60/138 (43%), Positives = 85/138 (61%), Gaps = 12/138 (8%)
Query: 5 YKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPI 64
+ ++++ SP+ I +W+ GEV +P T +Y+T KPEKDGLFC +IFGPI
Sbjct: 9 FPFSKIKLMLASPEDIRSWSH---------GEVKRPETLNYRTLKPEKDGLFCAKIFGPI 59
Query: 65 KSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPS 124
K C CG YR K+ E K CE+CGVE S +RR + G+I+LA PV H+W+LK PS
Sbjct: 60 KDYECLCGKYR---GKRYEGKICEKCGVEVTTSYVRRQRFGHIELAAPVVHIWFLKSTPS 116
Query: 125 YIANLLDKPLKELEGLVY 142
I LL+ +++E + Y
Sbjct: 117 KIGTLLNLTSRDVERVAY 134
>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 = 341 bits (866), Expect = 1e-92
Identities = 184/417 (44%), Positives = 268/417 (64%), Gaps = 47/417 (11%)
Query: 191 EISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRM 250
E GA A++E L +L+L D E E ++ S H ++ RK R+
Sbjct: 470 EAKMGAEAVKELLDELNL----DELETELNEQMKDNSRH-------KRAKARK-----RL 513
Query: 251 ELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLID 310
E+ + F + P WM+L +PV+PP+LRP++Q+DGG+ +SD+N+LYRR+I RNN L
Sbjct: 514 EVTRSFKASGNNPSWMILGTVPVMPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKK 573
Query: 311 LLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKD-GHNKVYKSFSDIIEGKEGRF 369
L+ S+ P ++ +++++QEAVD L+DNG RG P+ + G ++ +S +D++ GK+GRF
Sbjct: 574 LM--SQGAPDMIIRNEKRMLQEAVDALIDNGRRGSPVTNPGSDRSLRSLTDLLGGKQGRF 631
Query: 370 RETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAK 429
R+ LLGKRVDYSGRSVIVVGP L LH+CG+P+ +A+ELF+ FL + L K +NI A+
Sbjct: 632 RQNLLGKRVDYSGRSVIVVGPQLKLHQCGVPKRMALELFKPFLFKVLEEKGEVTNIKQAR 691
Query: 430 SKI---REKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCK 486
+ R+ VW+ L+EV+ +LLNRAPTLHRLGIQAF+P+LVEG++I LHPLVC+
Sbjct: 692 KMLERYRDTRDSVWDALEEVIEDKVVLLNRAPTLHRLGIQAFEPVLVEGQSIQLHPLVCE 751
Query: 487 GFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTS 546
FNADFDGDQMAIHVPLS +AQAEAR+ M + NLLSPA G+P P++D+++G++ LT
Sbjct: 752 AFNADFDGDQMAIHVPLSAQAQAEARIQMLASHNLLSPANGEPNVKPSRDIILGIFTLTQ 811
Query: 547 GNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSP 603
R + A +++ DA+ AF + K++ +SP
Sbjct: 812 LRRDNLGAGTE-------------------------YASEADALAAFDEGKLSLNSP 843
Score = 129 bits (321), Expect = 1e-28
Identities = 67/147 (45%), Positives = 91/147 (61%), Gaps = 16/147 (10%)
Query: 9 QLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGI 68
++RI SP++I W+ GEV KP T +Y+T KPE++GLF ERIFGPIK
Sbjct: 6 KVRIAIASPEKIREWS---------FGEVEKPETINYRTLKPEREGLFDERIFGPIKDYE 56
Query: 69 CTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIAN 128
C CG Y+ ++ E K CE+CGVE S++RRY+MG+I LA P H+WY+K PS I
Sbjct: 57 CACGKYK---RQRYEGKVCERCGVEVTSSKVRRYRMGHIDLATPAAHIWYVKDSPSKIGT 113
Query: 129 LLDKPLKELEGLVYCDFSFARPVVKKP 155
LLD +LE ++Y F+ +V KP
Sbjct: 114 LLDLSAGQLEKVLY----FSSFIVTKP 136
>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 = 335 bits (850), Expect = 1e-90
Identities = 176/362 (48%), Positives = 251/362 (68%), Gaps = 25/362 (6%)
Query: 194 SGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELA 253
+GA AI++ L +LDL + E K+L S + L RR+++
Sbjct: 463 AGAQAIKKLLQNLDLEALQAEIEAELKKLPSSSSKAIK--------------LRRRLKMV 508
Query: 254 KHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLT 313
K F+++ +PEWMVL ++PV+PP+LRP+IQI+GG+ ++D+NELYRR+I RNN L LL
Sbjct: 509 KDFLKSGNKPEWMVLEVVPVIPPDLRPMIQIEGGRFATTDLNELYRRLINRNNRLKKLLE 568
Query: 314 TSRSTPGELVMCQEKLVQEAVDTLLDNGI-------RGQPMKDGHNKVYKSFSDIIEGKE 366
P ++ +++++QEAVD L+ NG R +KD + + KS +D+++GK+
Sbjct: 569 LG--APEIILRNEKRMLQEAVDALIHNGSDSEGKRSRRAVLKDRNGRPLKSLTDLLKGKK 626
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNI- 425
GRFR LLGKRVDYSGR+VIVVGP+L +H+CG+P+++A+ELF+ F++ L+ + +S
Sbjct: 627 GRFRRNLLGKRVDYSGRAVIVVGPNLKIHQCGIPKKMAMELFKPFVLAKLLGEGSSSKTM 686
Query: 426 -GVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLV 484
V K+ I ++ P WE+L+EV++G +LLNRAPTLHR+ IQAF+P LVEG AI LHP+V
Sbjct: 687 RKVKKAIIEKEMPEAWEVLEEVIKGSVVLLNRAPTLHRMSIQAFEPKLVEGNAIQLHPVV 746
Query: 485 CKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYIL 544
C FNADFDGDQMA+HVPLS AQAEAR LM S N++SPA G PI++PTQD++IG Y L
Sbjct: 747 CPPFNADFDGDQMAVHVPLSAAAQAEARFLMLSRYNIISPAHGKPISLPTQDIIIGSYYL 806
Query: 545 TS 546
T+
Sbjct: 807 TT 808
Score = 124 bits (309), Expect = 3e-27
Identities = 60/137 (43%), Positives = 83/137 (59%), Gaps = 12/137 (8%)
Query: 6 KHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIK 65
K + ++I SP+ I +W+ GEV KP T +Y+T KPE+DGLFCERIFGP+K
Sbjct: 9 KIKAIQIKIASPEVIRSWSG---------GEVKKPETINYRTFKPERDGLFCERIFGPVK 59
Query: 66 SGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSY 125
C CG Y+ KK E CE+CGV RR +MG+I+LA P H+WYL+ +PS
Sbjct: 60 DYECACGKYK---GKKYEGTVCERCGVRVESREARRKRMGHIELAAPAVHIWYLESIPSV 116
Query: 126 IANLLDKPLKELEGLVY 142
+ LL+ +LE ++Y
Sbjct: 117 LGTLLNMSTSDLENIIY 133
>gi|12545457 RNA polymerase subunit [Astasia longa]
emb|CAC24618.1| (AJ294725) RNA polymerase subunit [Astasia longa]
Length = 575
Score = 333 bits (846), Expect = 3e-90
Identities = 215/599 (35%), Positives = 329/599 (54%), Gaps = 83/599 (13%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP+QI W ++ P G+ +G++ K K + GLFCE+IFGP K C
Sbjct: 5 VKINIASPKQILKWTERLTPKGKYIGKLKNSKKTLDKKGKCIRGGLFCEQIFGPTKKNTC 64
Query: 70 TCG---NYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYI 126
CG NY+ +K K C C VE D IR Y+MGYI+L P+ ++ YL P Y+
Sbjct: 65 RCGYYKNYKKSKKEKKHIKLCRICNVEITDPIIRNYRMGYIELNIPIINILYLNINPCYL 124
Query: 127 ANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDT 186
A + + + L+ ++ S K I + D
Sbjct: 125 AIITNLKINYLK----------------------------QLHSGKAYITIK------DK 150
Query: 187 FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNF- 245
+ + +G AI + L +DL + +L+ + T+N ++++++ + KNF
Sbjct: 151 NQKEKKLTGGEAINDILSKIDL----EKTLI--------KLTNNIHQYKEKNI-TIKNFK 197
Query: 246 -LVRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYR 304
++ +++L + ++T I+ W++ LPVLPP +RPII + + +S+D+N LY +I
Sbjct: 198 NILNKIKLYNYLLQTKIKFSWLLFKYLPVLPPNVRPIINMKNNQQISNDLNTLYASIINV 257
Query: 305 NNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDG---HNKVYKSFSDI 361
NN +I L + P + ++ L+Q+ VD L++N + + K G +NK KS ++
Sbjct: 258 NNKIIKLKESL--IPDNYFINEKILLQKKVDQLINNE-KYKENKLGKIINNKKLKSITEN 314
Query: 362 IEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHF 421
I+GKEG RE +LGK V++SGRSVIVV P+L+L+ CGLP+E+AI LF F+I+ LI+
Sbjct: 315 IKGKEGIIRENMLGKTVNFSGRSVIVVEPTLNLNECGLPKEMAINLFYPFIIKELIKLKL 374
Query: 422 ASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLH 481
+ KI++ I+ IL+ +++ H ILLNRAPTLHRL IQAFQP L G++I LH
Sbjct: 375 IKRL----YKIKKITKILDIILENIIKNHYILLNRAPTLHRLNIQAFQPKLTIGKSIKLH 430
Query: 482 PLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGL 541
PLVC FNADFDGDQM +H+PLSL+AQAEAR ++ S N S GDP +P+QD+++G
Sbjct: 431 PLVCSAFNADFDGDQMGVHIPLSLKAQAEARNILISINNCNSLKNGDPNILPSQDIILGC 490
Query: 542 Y--------ILTSGNRRGICAN------RYNRSN-------WKNSKNEKIRDKKYMKKK 579
Y +L N+ I N Y + N W N KN++ DK +K+K
Sbjct: 491 YFSNIENCNLLYILNKIQIYTNMEKIKMEYKKENLSIHNFIWLNFKNKQQIDKLKIKRK 549
>gi|7524892 RNA polymerase gamma subunit [Chlorella vulgaris]
sp|P56300|RPOC_CHLVU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||T07322 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Chlorella
vulgaris chloroplast
dbj|BAA57970.1| (AB001684) RNA polymerase gamma subunit [Chlorella vulgaris]
Length = 836
Score = 305 bits (772), Expect = 1e-81
Identities = 176/377 (46%), Positives = 236/377 (61%), Gaps = 27/377 (7%)
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
R+ EL + F +P WM+L LPVLPP LRPI I GG +++SDIN YR++I RN
Sbjct: 382 RQRELYRDFEVGKTQPAWMILNNLPVLPPGLRPITSI-GGLVVASDINSFYRKIIIRNKR 440
Query: 308 LI--DLLTTSRSTPGE--LVMCQE-KLVQEAVDTLLDNGI--RGQPMKDGHNKVYKSFSD 360
+ + L +T G L C + VQEAVD LL G G+P+K S D
Sbjct: 441 MSPRNNLGIFDTTLGGSWLSWCYNLRQVQEAVDELLRTGSVDAGRPLK--------SLLD 492
Query: 361 IIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH 420
++GK+GRFR+ LLGKRVDYSGRSVIVVGP L LH+CGLP+E+A+ELFQ F+I+ L +
Sbjct: 493 GLKGKKGRFRQHLLGKRVDYSGRSVIVVGPKLKLHQCGLPKEMAVELFQPFIIQQLRLQG 552
Query: 421 FASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ AK I +++PIVW +L E+++ HP+LLNRAPTLHRLGIQAF P LVEG+AI L
Sbjct: 553 IVFTVTAAKVLIADRKPIVWSVLGEILKRHPVLLNRAPTLHRLGIQAFLPRLVEGKAILL 612
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
HPLVC FNADFDGDQMA+HVPLS + +AEA L++S LL+P+ G P +PTQDM++G
Sbjct: 613 HPLVCPAFNADFDGDQMAVHVPLSAKTRAEALSLLWSRNQLLAPSSGQPQHLPTQDMVLG 672
Query: 541 LYILTSGNRR------GICANR---YNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIG 591
Y LT + + ++R + S + KNE+ K + +FS
Sbjct: 673 FYYLTCSLEKTLKRVDSLVSSRKLFFQSSFFLKKKNEE--TLKNSIPQNLYFSEFSQVKT 730
Query: 592 AFRQKKINFDSPFWLRW 608
A+ + +P W++W
Sbjct: 731 AYDIGNLTLHTPIWVKW 747
Score = 106 bits (263), Expect = 7e-22
Identities = 54/136 (39%), Positives = 77/136 (55%), Gaps = 3/136 (2%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
++ I SP+ I W + PNG+ + EVT T +YKT KPE GLFC+ IFGP+
Sbjct: 10 KKAEISLASPKAIEIWTERYFPNGQPINEVTSSETVNYKTLKPEPHGLFCQTIFGPVVDF 69
Query: 68 ICTCGN--YRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSY 125
C CG +++ +KK +C +CGVE SR+RRY++G IKL PV H Y+ PS
Sbjct: 70 TCACGKKATKLVKNKKFR-GYCPKCGVERTSSRVRRYRLGLIKLKQPVAHSLYVSHRPSP 128
Query: 126 IANLLDKPLKELEGLV 141
+ L K L+ ++
Sbjct: 129 LRLCLGWSTKRLQAVL 144
>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 = 300 bits (761), Expect = 3e-80
Identities = 162/360 (45%), Positives = 233/360 (64%), Gaps = 24/360 (6%)
Query: 195 GAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAK 254
GA AIRE L L+L E E ++ ++ N + D+K R L+RR+E +
Sbjct: 237 GAEAIRELLEKLNLE--------EEHEKIKQAIQNSPNAY-DQKTKR----LLRRLECVR 283
Query: 255 HFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTT 314
+ +PEWMV+ +PV P E RPII +DGG+ +SD N YR++I RN L + T
Sbjct: 284 WIKDSGSKPEWMVMTRIPVTPSETRPIISLDGGRFTTSDTNNFYRKIIIRNERLKQMQAT 343
Query: 315 SRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLL 374
P L+ +++L+QEAVD+L DN R +P+ + KS S+ ++GK+G FR+ LL
Sbjct: 344 D--APEILLDNEKRLLQEAVDSLFDNNSRKKPVVGKDKRPLKSLSNHLKGKQGLFRQNLL 401
Query: 375 GKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKH---------FASNI 425
GKRVDYSGRSVIVVGP L ++ G+P + ++LF+ ++I LIRK +NI
Sbjct: 402 GKRVDYSGRSVIVVGPELKMYEVGIPALMILKLFRPYIISELIRKRDELGNEIQPICANI 461
Query: 426 GVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVC 485
+A+ KI ++ +W ++++V++ P++LNRAPTLHRLGIQAF+P +V+G+AI LHPLV
Sbjct: 462 KLAEQKILAQDNEIWPVVEKVIKQRPVILNRAPTLHRLGIQAFEPKMVDGKAIRLHPLVT 521
Query: 486 KGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQMA+H+PLS EA AEAR ++ + ++L P G PI PTQDM++G+Y LT
Sbjct: 522 TAFNADFDGDQMAVHIPLSKEAVAEARSILLASWHILGPKDGKPIITPTQDMILGIYYLT 581
Score = 116 bits (289), Expect = 6e-25
Identities = 63/137 (45%), Positives = 84/137 (60%), Gaps = 14/137 (10%)
Query: 8 QQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSG 67
+ L I SP+QI W+ GE+TKP T +YK+ KPE +GLF E IFGP K
Sbjct: 7 KSLTISIASPEQILNWSK---------GEITKPETINYKSLKPEPNGLFDESIFGPSKDY 57
Query: 68 ICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRL--PSY 125
C CG YR + K + K CE+C VE +S +RR +MG+I+LA PV H+W+ K L PS
Sbjct: 58 ECYCGKYRKV---KHKGKICERCHVEITESIVRRERMGHIELAAPVAHIWFTKELPSPSK 114
Query: 126 IANLLDKPLKELEGLVY 142
I+ LLD KE++ +VY
Sbjct: 115 ISLLLDITYKEVDQVVY 131
>gi|11496557 RNA polymerase C1 [Toxoplasma gondii]
gb|AAD41154.1|U87145_23 (U87145) RNA polymerase C1 [Toxoplasma gondii]
Length = 565
Score = 296 bits (749), Expect = 7e-79
Identities = 201/602 (33%), Positives = 309/602 (50%), Gaps = 88/602 (14%)
Query: 11 RIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICT 70
R+ SP I W+ K + N I+GEV +P+T ++KT PE +GLFCERIFGP+ S C
Sbjct: 14 RLSLASPNLIIKWSLKYIKNFFILGEVIEPFTINFKTGYPEPNGLFCERIFGPLLSWKCR 73
Query: 71 CG----NYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYI 126
CG NY I FC CGVE ++ RR++MG+I LA P+ H WY+K + S +
Sbjct: 74 CGINFINYTNINT------FCNFCGVEININQSRRWRMGFINLATPIAHKWYVKDILSLL 127
Query: 127 ANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDT 186
++ P+ EL+ L+Y ++ LF Y+ +Y+ F+ F +
Sbjct: 128 LHI---PINELKILLY---------------YKIFSLFSYKKNQKQYNFNWIFSKLLFIS 169
Query: 187 FRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFL 246
++I + E LV KE+ E N N K L
Sbjct: 170 EWFKQILKEYNLLNE--------------LVFCKEMYYELYFSNNNI---------KKKL 206
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNN 306
++++ + F+ NI PEW+ L +LPV+P LRP+++I +SS IN LY+ +I RNN
Sbjct: 207 LKKLSILHLFLLNNINPEWLFLTVLPVIPAGLRPLVKIKQKLFVSSLINNLYKIIILRNN 266
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L S P + ++L+Q ++D LL+ I+ +P S ++GK+
Sbjct: 267 RLKRWKILRHSIPFFFELIDKQLLQCSIDDLLN--IKTKPSS--------SNCFTLQGKK 316
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIG 426
G+FR+ +LGKR+D+SGRSVI+ G L GLP ++++LF+ L+ + ++K +
Sbjct: 317 GKFRQYILGKRIDFSGRSVILPGSDLIYKNIGLPLNLSLDLFKPMLL-NFLKKDLSIITL 375
Query: 427 VAKSKIREKEPIVWE-ILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVC 485
+ S I + PI+ + IL+ ++ +LLNRAPTLHR+ IQAF+P L+E I L+P+ C
Sbjct: 376 LRASYITQYNPILLKRILKFLITKEIVLLNRAPTLHRMNIQAFKPYLIEFEGIKLYPVGC 435
Query: 486 KGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
FNADFDGDQM + + LS A+ EA+ LM N+ SP + +Q +++G+ L
Sbjct: 436 SSFNADFDGDQMGLFLILSKIAKQEAKKLMAFDKNIFSPTYLRNMFKLSQSIILGISTLL 495
Query: 546 SGNRRGICANRYNRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFW 605
+ N + YN + F+N YD I +F I DSP W
Sbjct: 496 NLNGMVL----YNNT---------------------IFANLYDVISSFFFNLIKLDSPIW 530
Query: 606 LR 607
+R
Sbjct: 531 IR 532
>pir||A05033 rpoC protein homolog - common tobacco chloroplast
prf||1211235R rpoC-like ORF 151 [Nicotiana tabacum]
Length = 151
Score = 282 bits (714), Expect = 9e-75
Identities = 132/144 (91%), Positives = 137/144 (94%), Gaps = 1/144 (0%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEK F +
Sbjct: 8 MIDRYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKMDYFVKN- 66
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGPIKSGIC CGNYRVIGD+K++PKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK
Sbjct: 67 FGPIKSGICACGNYRVIGDEKEDPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 126
Query: 121 RLPSYIANLLDKPLKELEGLVYCD 144
RLPSYIANLLDKPLKELEGLVYCD
Sbjct: 127 RLPSYIANLLDKPLKELEGLVYCD 150
>emb|CAB56763.1| (AJ012558) RNA polymerase [Allium cepa]
Length = 144
Score = 265 bits (670), Expect = 1e-69
Identities = 127/146 (86%), Positives = 137/146 (92%), Gaps = 2/146 (1%)
Query: 119 LKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLF 178
LKRLPSYIANLLDKPLKELEGLVYCDFSFARP+ KKPTFLRLRGLFEYEIQSWKYSIPLF
Sbjct: 1 LKRLPSYIANLLDKPLKELEGLVYCDFSFARPIAKKPTFLRLRGLFEYEIQSWKYSIPLF 60
Query: 179 FATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRK 238
F T GF+TFRNREIS+GAGAIREQL DLDLRI+I++SLVEWKELG+E S ENEWEDRK
Sbjct: 61 FTTQGFETFRNREISTGAGAIREQLADLDLRIIIENSLVEWKELGDEESA--ENEWEDRK 118
Query: 239 VGRRKNFLVRRMELAKHFIRTNIEPE 264
+ RRK+FLVRRMELAKHFIRTN+EPE
Sbjct: 119 IRRRKDFLVRRMELAKHFIRTNVEPE 144
>emb|CAB56766.1| (AJ012559) RNA polymerase [Arabidopsis thaliana]
Length = 144
Score = 257 bits (649), Expect = 4e-67
Identities = 125/146 (85%), Positives = 134/146 (91%), Gaps = 2/146 (1%)
Query: 119 LKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLF 178
LKRLPSYIANLLDKPLKELEGLVYCDFSFARP+ KKPTFLRLRG FEYEIQSWKYSIPLF
Sbjct: 1 LKRLPSYIANLLDKPLKELEGLVYCDFSFARPITKKPTFLRLRGSFEYEIQSWKYSIPLF 60
Query: 179 FATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRK 238
F T GFD FRNREIS+GAGAIREQL DLDLRI+I++SLVEWK+LGEE T NEWEDRK
Sbjct: 61 FTTQGFDIFRNREISTGAGAIREQLADLDLRIIIENSLVEWKQLGEEGPT--GNEWEDRK 118
Query: 239 VGRRKNFLVRRMELAKHFIRTNIEPE 264
+ RRK+FLVRRMELAKHFIRTNIEP+
Sbjct: 119 IVRRKDFLVRRMELAKHFIRTNIEPK 144
>emb|CAB56767.1| (AJ012564) RNA polymerase [Arabidopsis thaliana]
Length = 155
Score = 251 bits (634), Expect = 2e-65
Identities = 116/155 (74%), Positives = 133/155 (84%)
Query: 498 AIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRY 557
A+HVPLSLEAQAEARLLMFSH NLLSPAIGDPI+VPTQDMLIGLY+LTSG RRGICANRY
Sbjct: 1 AVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGTRRGICANRY 60
Query: 558 NRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSS 617
N N KN +NE+I + Y KEPFF NSYDAIGA+RQKKIN DSP WLRW+LD+ +++S
Sbjct: 61 NPCNRKNYQNERIYETNYKYTKEPFFCNSYDAIGAYRQKKINLDSPLWLRWQLDQRVIAS 120
Query: 618 REAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCI 652
RE PIEVHYES G YH+IY HYL++RS+KK+ CI
Sbjct: 121 REVPIEVHYESFGNYHEIYAHYLIVRSVKKENFCI 155
>sp|P21422|RPOC_PLAFA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
pir||S72283 DNA-directed RNA polymerase (EC 2.7.7.6) beta'-1 chain - Plasmodium
falciparum plastid
emb|CAA64573.1| (X95275) rpoC [Plasmodium falciparum]
Length = 575
Score = 246 bits (621), Expect = 8e-64
Identities = 161/518 (31%), Positives = 274/518 (52%), Gaps = 39/518 (7%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
L++ ++P+QI W++ N I+GEV P T ++ T P +GLFCE+IF + C
Sbjct: 12 LKLNILNPKQIIKWSSIFYKNKIIIGEVLIPNTINFNTGLPILNGLFCEKIFDYMYKWNC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
C + +C+ C + + + R+Y++G+I L P+ H+WYL + L
Sbjct: 72 NCNKKMYNINNFSFFLYCKFCKNKLIININRKYKLGFIFLNIPILHLWYLTGPLKVASLL 131
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLF-EYEIQSWKY-SIPLFFATHGFDTF 187
L+K + L+ L+Y + F+ +K + LF + + KY +I + +H
Sbjct: 132 LNKNVFYLKFLIYYKYFFSN--IKYKQYFYYNKLFSKINLYKKKYKNIIQYLFSHNILYK 189
Query: 188 RNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLV 247
+ + I+ + E L + +L ++ N++ ++K +L
Sbjct: 190 KLQNIN----LLTELLNNKELLLI-------------------NNKYYNKK------YLY 220
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+++ L FI NI+P W+ L LLP+LP LRP I+ + S INE YR +I +NN
Sbjct: 221 KKINLFNLFILNNIKPNWIFLDLLPILPAGLRPYFYINNSTYIISTINENYRLIILKNNK 280
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L L + + +++L+Q+ +D LL N + + +N + +FS +GK
Sbjct: 281 LKYWLYLRNNIFFIFEIIEKRLLQQLIDYLLINKLILK-----NNNTFFNFSKTFQGKYS 335
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
+ LLGKRVD+SGRSVI V PS+ + GLP I+I LF+ FLI ++++ + NI
Sbjct: 336 TIKYKLLGKRVDFSGRSVITVNPSIIYNNIGLPYYISINLFKPFLI-NILKYNSKLNIIF 394
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
I + I+ + L +++ I++NRAPTLHR+ +Q+F+P+L EG ++ +PL C
Sbjct: 395 KSLLINKNLFIIQKFLNRLLQNQFIIINRAPTLHRMNLQSFKPLLTEGYSLKFYPLGCTS 454
Query: 488 FNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPA 525
FNADFDGDQM+I +PL ++ E+ + + N++SP+
Sbjct: 455 FNADFDGDQMSIFLPLIKTSKFESNINLNFDKNIISPS 492
>emb|CAB56764.1| (AJ012563) RNA polymerase [Allium cepa]
Length = 157
Score = 232 bits (585), Expect = 1e-59
Identities = 106/157 (67%), Positives = 131/157 (82%), Gaps = 2/157 (1%)
Query: 498 AIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRY 557
A+HVPLSLEAQA ARLLMFSH NLLSPAIGDPI+VP+QDMLIGLY+LT GNRRGIC NRY
Sbjct: 1 AVHVPLSLEAQAXARLLMFSHMNLLSPAIGDPISVPSQDMLIGLYVLTMGNRRGICENRY 60
Query: 558 NRSNWKNSKNEKIRDK--KYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIM 615
N N N +N+ + + +Y K+KEP+F +SY+A+GA+RQK+I DSPFWLRWRLD+ ++
Sbjct: 61 NPYNCANYQNKTVDNNNYEYTKEKEPYFGSSYNALGAYRQKRIKLDSPFWLRWRLDQRVI 120
Query: 616 SSREAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCI 652
+E PIEV YES GTYH+IY HYL++ S+KK+ICCI
Sbjct: 121 GLKEVPIEVQYESFGTYHEIYGHYLIVGSMKKEICCI 157
>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 = 231 bits (582), Expect = 3e-59
Identities = 174/551 (31%), Positives = 271/551 (48%), Gaps = 106/551 (19%)
Query: 35 GEVTKPYTFHYKTNKPEKDGLFCERIF--GPIKSGICTCGNYRVIGDKKDEPKFCEQCG- 91
GEV T + KT +PE GLFC +IF + IC +YR + +P C +CG
Sbjct: 50 GEVCTSKTLNSKTYEPEDGGLFCNKIFKTNSKNNYICNVCSYR-----QSKPYRCLRCGS 104
Query: 92 -VEFVDSRIRRYQMGYIKLACPVTHVWYLK-----RLPSYIANLLDKPLKELEGLVYCD- 144
+ S I+ MG+I+L P+ H W L+ RL + N+ D KE++ ++ D
Sbjct: 105 NTKLDKSNIQNLSMGHIELISPIPHPWLLRTKIIHRLAVGLNNIYD--YKEIDKILLTDP 162
Query: 145 ---FSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIRE 201
+++ + + LR Y I F N I I
Sbjct: 163 ETIYNYFEQMDLLDVYFNLR----------NYLINDFIIKKNKKNINNINIDKN---IIY 209
Query: 202 QLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNI 261
+ +RI+ ++L+ K+ EW F ++R+ +
Sbjct: 210 YAIKKKIRII--TTLIRLKQ---------RPEW----------FFLKRIPV--------- 239
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLL--------T 313
L P P ++++D ++SDIN LY+ +I RNN L +LL
Sbjct: 240 --------LSPTYRP----LMKLDDKLFVASDINFLYQNIIERNNILKELLKRYSLEKID 287
Query: 314 TSRSTPGELV--------MCQEKL-VQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEG 364
S E++ + + K+ +Q+AV TL+D+ +K KS + G
Sbjct: 288 RISSLFTEIIDEVKKDNPIIKGKINLQKAVTTLMDSSF----IKGIITFKNKSLIKRLSG 343
Query: 365 KEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASN 424
K+GRFR+ +LGKR+++SGR+VI GP L L++CGLP E+ +ELF+ F+I + + S
Sbjct: 344 KKGRFRKDILGKRINFSGRTVITSGPRLHLNQCGLPIELVLELFKPFIILKMRDLNICSQ 403
Query: 425 IGVAKSKIREKEP----------IVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVE 474
+ K + +V++++ ++ HP+LLNRAPTLHR+ IQ F P+L+
Sbjct: 404 TSLKNLKTYDDFKQILFNKFTINLVFKLINSIISKHPVLLNRAPTLHRMNIQTFSPLLIY 463
Query: 475 GRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPT 534
+AI LHPLVC FNADFDGD MAI++P +L +Q E+R+LM S TN++SP+ +PI PT
Sbjct: 464 TKAIQLHPLVCSSFNADFDGDTMAIYIPHTLRSQIESRVLMMSSTNIISPSTQEPIISPT 523
Query: 535 QDMLIGLYILT 545
QD++ GLY T
Sbjct: 524 QDIVFGLYYAT 534
>pir||S10439 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - malaria
parasite (Plasmodium falciparum) (fragments)
emb|CAA36428.1| (X52177) RNA polymerase beta-prime subunit (AA 1- 462) [Plasmodium
falciparum]
Length = 462
Score = 229 bits (578), Expect = 8e-59
Identities = 152/488 (31%), Positives = 255/488 (52%), Gaps = 39/488 (7%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
L++ ++P+QI W++ N I+GEV P T ++ T P +GLFCE+IF + C
Sbjct: 12 LKLNILNPKQIIKWSSIFYKNKIIIGEVLIPNTINFNTGLPILNGLFCEKIFDYMYKWNC 71
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
C + +C+ C + + + R+Y++G+I L P+ H+WYL + L
Sbjct: 72 NCNKKMYNINNFSFFLYCKFCKNKLIININRKYKLGFIFLNIPILHLWYLTGPLKVASLL 131
Query: 130 LDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLF-EYEIQSWKY-SIPLFFATHGFDTF 187
L+K + L+ L+Y + F+ +K + LF + + KY +I + +H
Sbjct: 132 LNKNVFYLKFLIYYKYFFSN--IKYKQYFYYNKLFSKINLYKKKYKNIIQYLFSHNILYK 189
Query: 188 RNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLV 247
+ + I+ + E L + +L ++ N++ ++K +L
Sbjct: 190 KLQNIN----LLTELLNNKELLLI-------------------NNKYYNKK------YLY 220
Query: 248 RRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNT 307
+++ L FI NI+P W+ L LLP+LP LRP I+ + S INE YR +I +NN
Sbjct: 221 KKINLFNLFILNNIKPNWIFLDLLPILPAGLRPYFYINNSTYIISTINENYRLIILKNNK 280
Query: 308 LIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEG 367
L L + + +++L+Q+ +D LL N + + +N + +FS +GK
Sbjct: 281 LKYWLYLRNNIFFIFEIIEKRLLQQLIDYLLINKLILK-----NNNTFFNFSKTFQGKYS 335
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGV 427
+ LLGKRVD+SGRSVI V PS+ + GLP I+I LF+ FLI ++++ + NI
Sbjct: 336 TIKYKLLGKRVDFSGRSVITVNPSIIYNNIGLPYYISINLFKPFLI-NILKYNSKLNIIF 394
Query: 428 AKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKG 487
I + I+ + L +++ I++NRAPTLHR+ +Q+F+P+L EG ++ +PL C
Sbjct: 395 KSLLINKNLFIIQKFLNRLLQNQFIIINRAPTLHRMNLQSFKPLLTEGYSLKFYPLGCTS 454
Query: 488 FNADFDGD 495
FNADFDGD
Sbjct: 455 FNADFDGD 462
>gb|AAC63551.1| (AF031457) RNA polymerase C1 [Gossypium arboreum]
gb|AAC63552.1| (AF031458) RNA polymerase C1 [Gossypium hirsutum]
gb|AAC63553.1| (AF031459) RNA polymerase C1 [Gossypium barbadense]
gb|AAC63554.1| (AF031460) RNA polymerase C1 [Gossypium tomentosum]
gb|AAC63555.1| (AF031461) RNA polymerase C1 [Gossypium mustelinum]
gb|AAC63556.1| (AF031462) RNA polymerase C1 [Gossypium darwinii]
Length = 117
Score = 207 bits (521), Expect = 4e-52
Identities = 101/119 (84%), Positives = 108/119 (89%), Gaps = 2/119 (1%)
Query: 145 FSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLV 204
FSFARP+ KKPTFLRLRG FEYEIQSWKYSIPLFF T GFDTFR+REIS+GAGAIREQL
Sbjct: 1 FSFARPIAKKPTFLRLRGSFEYEIQSWKYSIPLFFTTQGFDTFRSREISTGAGAIREQLA 60
Query: 205 DLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEP 263
DLDLRI+ID S+VEWKELGEE T NEWEDRK+GRRK+FLVRRMELAKHFIRTNIEP
Sbjct: 61 DLDLRILIDYSVVEWKELGEEGLT--GNEWEDRKIGRRKDFLVRRMELAKHFIRTNIEP 117
>pir||S48843 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - white
mustard chloroplast (fragment)
emb|CAA57815.1| (X82417) RNA polymerase subunit beta prime [Sinapis alba]
Length = 101
Score = 205 bits (515), Expect = 2e-51
Identities = 93/101 (92%), Positives = 97/101 (95%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID+YKHQQLRIG VSPQQISAWATK +PNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI
Sbjct: 1 MIDRYKHQQLRIGLVSPQQISAWATKKIPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRR 101
FGPIKSGIC CGNYRVIGD+K +PKFCEQCGVEFVDSRIRR
Sbjct: 61 FGPIKSGICACGNYRVIGDEKGDPKFCEQCGVEFVDSRIRR 101
>emb|CAB56784.1| (AJ012560) RNA polymerase [Ginkgo biloba]
Length = 144
Score = 185 bits (466), Expect = 1e-45
Identities = 92/145 (63%), Positives = 111/145 (76%), Gaps = 2/145 (1%)
Query: 120 KRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLFF 179
KRLPSYIANLL KPLKELEG VYCD ARP+ KPT LR RG F+Y+IQSW +P +
Sbjct: 2 KRLPSYIANLLAKPLKELEGPVYCDLFIARPIANKPTSLRSRGTFKYDIQSWGDILPHYL 61
Query: 180 ATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKV 239
+ GF F+NREI++G AIREQL DLRI++ +S +EWK L E++ST NEWED K+
Sbjct: 62 SAQGFGAFQNREIATGGDAIREQLAGPDLRILMANSYMEWKILEEQKST--GNEWEDEKI 119
Query: 240 GRRKNFLVRRMELAKHFIRTNIEPE 264
RRK+F VRRMELAKHFI+TNIEP+
Sbjct: 120 QRRKDFSVRRMELAKHFIQTNIEPK 144
>emb|CAB56813.1| (AJ012562) RNA polymerase [Zamia floridana]
Length = 144
Score = 185 bits (464), Expect = 2e-45
Identities = 90/146 (61%), Positives = 111/146 (75%), Gaps = 2/146 (1%)
Query: 119 LKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEYEIQSWKYSIPLF 178
LKRLPSYIANLL KPLKE EGLVYCD ARP+ KPT L GLF+YEIQSW+ IP +
Sbjct: 1 LKRLPSYIANLLAKPLKESEGLVYCDLFLARPIANKPTSLXXXGLFKYEIQSWRDIIPNY 60
Query: 179 FATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRK 238
F+ GF+ FR REI++G AIREQL LDL+ +++ S +EWK LG+ +ST N W DRK
Sbjct: 61 FSARGFEAFRRREIATGGDAIREQLTGLDLQTLMNRSYMEWKRLGKHKST--GNGWGDRK 118
Query: 239 VGRRKNFLVRRMELAKHFIRTNIEPE 264
+ RRK+F VRRM LAKHF++T+IEP+
Sbjct: 119 IKRRKDFSVRRMRLAKHFLQTDIEPK 144
>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 = 180 bits (451), Expect = 6e-44
Identities = 111/314 (35%), Positives = 171/314 (54%), Gaps = 31/314 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEW VL +LPV P +RP I ++ G+ D+ +I N ++ P ++
Sbjct: 199 PEWFVLTVLPVPPVTVRPSIILETGQRSEDDLTHKLVDIIRINQRFME--NKEAGAPQQI 256
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ +L+Q V T +DN + G P + + K+ + ++GKEGRFR +L GKRV++S
Sbjct: 257 LEDLWELLQYHVTTYIDNEVSGIPPARHRSGRPLKTLAQRLKGKEGRFRGSLSGKRVNFS 316
Query: 382 GRSVIVVGPSLSLHRCGLPREIA-------------IELFQTFLIRSLIRKHFASNIGVA 428
R+VI P LS++ G+PREIA I++ + F++RS +H +N V
Sbjct: 317 ARTVISPDPCLSINEVGVPREIAEELTVPIYVTPQNIDMAREFVLRS---EHPKANYIVR 373
Query: 429 ------------KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
K ++ EK W + +++M G +L NR P+LHR+ I A ++ +
Sbjct: 374 PDGRRIRVIESNKEELAEKLEPGWIVERQLMDGDIVLFNRQPSLHRMSIMAHYVRVLPYK 433
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+P VC +NADFDGD+M +HVP SLEAQAEA++LM ++LSP G PI D
Sbjct: 434 TFRLNPAVCPPYNADFDGDEMNLHVPQSLEAQAEAKILMAVQEHILSPRFGGPIIGGIHD 493
Query: 537 MLIGLYILTSGNRR 550
+ GLY+LT G ++
Sbjct: 494 HISGLYLLTRGEKK 507
>emb|CAB56785.1| (AJ012566) RNA polymerase [Ginkgo biloba]
Length = 148
Score = 176 bits (441), Expect = 1e-42
Identities = 94/157 (59%), Positives = 115/157 (72%), Gaps = 11/157 (7%)
Query: 498 AIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRY 557
A+HVPLSLEAQAEARLLMFSHTNLL PAIGDPI+VPTQDML+GLYILT N +GI NRY
Sbjct: 1 AVHVPLSLEAQAEARLLMFSHTNLLYPAIGDPISVPTQDMLLGLYILTVENNQGIYGNRY 60
Query: 558 NRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSS 617
+ N +KK K+ FS+ DA+ A+R+K+I+ SP WLRWR+D I +S
Sbjct: 61 HPYN---------SNKKIFYCKKLSFSSYDDALRAYREKRIHLYSPLWLRWRVDLRITTS 111
Query: 618 --REAPIEVHYESLGTYHDIYEHYLVIRSIKKQICCI 652
REAPIEV YESLGT+ +I+EHY +IRS+ +I I
Sbjct: 112 VNREAPIEVQYESLGTFREIHEHYRIIRSMMGEILSI 148
>emb|CAB56778.1| (AJ012565) RNA polymerase [Cycas revoluta]
Length = 148
Score = 170 bits (427), Expect = 4e-41
Identities = 90/146 (61%), Positives = 106/146 (71%), Gaps = 11/146 (7%)
Query: 498 AIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILTSGNRRGICANRY 557
A+HVPLSLEAQAEARLLMFSHTNLLSPAIGDPI+VPTQDML+GLYILT GN +GI NRY
Sbjct: 1 AVHVPLSLEAQAEARLLMFSHTNLLSPAIGDPISVPTQDMLLGLYILTVGNNQGIYGNRY 60
Query: 558 NRSNWKNSKNEKIRDKKYMKKKEPFFSNSYDAIGAFRQKKINFDSPFWLRWRLDKCIMSS 617
+ K + K+P F + DA+GA QK+I DSP WLRW + I++S
Sbjct: 61 HPYYSKYN---------IFSCKKPSFYSYDDALGAHWQKRIELDSPLWLRWGVGLRIITS 111
Query: 618 --REAPIEVHYESLGTYHDIYEHYLV 641
REAPIEV YESLG +H+IYEHY +
Sbjct: 112 VDREAPIEVQYESLGIFHEIYEHYRI 137
>gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A; RpoA
[Halobacterium sp. NRC-1]
Length = 926
Score = 169 bits (425), Expect = 7e-41
Identities = 106/314 (33%), Positives = 167/314 (52%), Gaps = 29/314 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+L +LPV P RP I +D G+ D+ +I N ++ P +
Sbjct: 231 PEWMILTVLPVPPVTARPSITLDNGQRSEDDLTHKLVDIIRINQRFME--NREAGAPQLI 288
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP-MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ +L+Q V T +DN I G P + + K+ S ++GKEGRFR +L GKRV++S
Sbjct: 289 IEDLWELLQYHVTTFMDNEISGTPPARHRSGRPLKTLSQRLKGKEGRFRGSLSGKRVNFS 348
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLI--------RSLIRK--------HFASNI 425
R+VI P+LSL+ G+P +A E+ QT ++ R +R ++ +
Sbjct: 349 ARTVISPDPTLSLNEVGVPDRVATEMTQTMVVNEQNLERARRYVRNGPEGHPGANYVTRP 408
Query: 426 GVAKSKIREK---------EPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ ++ EK EP WE+ + ++ G I+ NR P+LHR+ I A + +++ +
Sbjct: 409 DGRRVRVTEKVCEELAERVEP-GWEVQRHLIDGDIIIFNRQPSLHRMSIMAHEVVVMPYK 467
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ +VC +NADFDGD+M +H + EA+AEAR+LM +LSP G+ I QD
Sbjct: 468 TFRLNTVVCPPYNADFDGDEMNMHALQNEEARAEARVLMRVQEQILSPRFGENIIGAIQD 527
Query: 537 MLIGLYILTSGNRR 550
+ G Y+LT+ N R
Sbjct: 528 HISGTYLLTNDNPR 541
>sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A'
emb|CAA40426.1| (X57144) RNA polymerase subunit A [Halobacterium halobium]
Length = 971
Score = 169 bits (425), Expect = 7e-41
Identities = 106/314 (33%), Positives = 167/314 (52%), Gaps = 29/314 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+L +LPV P RP I +D G+ D+ +I N ++ P +
Sbjct: 276 PEWMILTVLPVPPVTARPSITLDNGQRSEDDLTHKLVDIIRINQRFME--NREAGAPQLI 333
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP-MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ +L+Q V T +DN I G P + + K+ S ++GKEGRFR +L GKRV++S
Sbjct: 334 IEDLWELLQYHVTTFMDNEISGTPPARHRSGRPLKTLSQRLKGKEGRFRGSLSGKRVNFS 393
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLI--------RSLIRK--------HFASNI 425
R+VI P+LSL+ G+P +A E+ QT ++ R +R ++ +
Sbjct: 394 ARTVISPDPTLSLNEVGVPDRVATEMTQTMVVNEQNLERARRYVRNGPEGHPGANYVTRP 453
Query: 426 GVAKSKIREK---------EPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ ++ EK EP WE+ + ++ G I+ NR P+LHR+ I A + +++ +
Sbjct: 454 DGRRVRVTEKVCEELAERVEP-GWEVQRHLIDGDIIIFNRQPSLHRMSIMAHEVVVMPYK 512
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ +VC +NADFDGD+M +H + EA+AEAR+LM +LSP G+ I QD
Sbjct: 513 TFRLNTVVCPPYNADFDGDEMNMHALQNEEARAEARVLMRVQEQILSPRFGENIIGAIQD 572
Query: 537 MLIGLYILTSGNRR 550
+ G Y+LT+ N R
Sbjct: 573 HISGTYLLTNDNPR 586
>pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Halobacterium
salinarum
Length = 972
Score = 166 bits (416), Expect = 8e-40
Identities = 105/314 (33%), Positives = 166/314 (52%), Gaps = 29/314 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+L +LPV P RP I +D G+ D+ +I N ++ P +
Sbjct: 277 PEWMILTVLPVPPVTARPSITLDNGQRSEDDLTHKLVDIIRINQRFME--NREAGAPQLI 334
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP-MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ +L+Q V T +DN I G P + + K+ S ++GKEGRFR +L GKRV++S
Sbjct: 335 IEDLWELLQYHVTTFMDNEISGTPPARHRSGRPLKTLSQRLKGKEGRFRGSLSGKRVNFS 394
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLI--------RSLIRK--------HFASNI 425
R+VI P+LSL+ G+P +A E+ QT ++ R +R ++ +
Sbjct: 395 ARTVISPDPTLSLNEVGVPDRVATEMTQTMVVNEQNLERARRYVRNGPEGHPGANYVTRP 454
Query: 426 GVAKSKIREK---------EPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ ++ EK EP WE+ + ++ G I+ NR P+LHR+ I A + +++ +
Sbjct: 455 DGRRVRVTEKVCEELAERVEP-GWEVQRHLIDGDIIIFNRQPSLHRMSIMAHEVVVMPYK 513
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ +VC +NAD DGD+M +H + EA+AEAR+LM +LSP G+ I QD
Sbjct: 514 TFRLNTVVCPPYNADEDGDEMNMHALQNEEARAEARVLMRVQEQILSPRFGENIIGAIQD 573
Query: 537 MLIGLYILTSGNRR 550
+ G Y+LT+ N R
Sbjct: 574 HISGTYLLTNDNPR 587
>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 = 162 bits (405), Expect = 2e-38
Identities = 105/308 (34%), Positives = 159/308 (51%), Gaps = 27/308 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWMVL +LPV P +RP I ++ G D+ +I NN L + P +
Sbjct: 210 PEWMVLTVLPVPPVTMRPSITLESGIRAEDDLTHKLVDIIRINNRLKSNIEAG--APQLI 267
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T ++N G P K + K+ S ++GKEGRFR L GKRV++S
Sbjct: 268 IEDLWDLLQYHVTTYINNETSGIPPAKHKSGRPLKTLSQRLKGKEGRFRGNLSGKRVNFS 327
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLI----RKHFASNIGVAK 429
R+VI P +S++ G+P IA+EL F +R ++ K+ +N +
Sbjct: 328 ARTVISPDPMISINEVGVPMAIAMELTVPEKVTEFNFEKLRKMVLNGPEKYPGANYVIDP 387
Query: 430 S------------KIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
+ EK I W + + ++ G +L NR P+LHR+ I A + ++ R
Sbjct: 388 EGRRIRLMENNLETVAEKLDIGWTVERHLLDGDVVLFNRQPSLHRMSIMAHRVRVMPYRT 447
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
L+ VC +NADFDGD+M +HVP + EAQAEA++LM +++SP G P+ QD
Sbjct: 448 FRLNLSVCPPYNADFDGDEMNLHVPQTEEAQAEAKILMEVQNHIISPRYGGPLIAGIQDH 507
Query: 538 LIGLYILT 545
+ G Y+LT
Sbjct: 508 ISGGYLLT 515
>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 = 157 bits (393), Expect = 4e-37
Identities = 108/308 (35%), Positives = 160/308 (51%), Gaps = 27/308 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWMVL +LPV P RP I ++ G D+ +I NN L + P +
Sbjct: 210 PEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAG--APQLI 267
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T ++N G P K + K+ + ++GKEGRFR L GKRV++S
Sbjct: 268 IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIR----KHFASN--IGV 427
R+VI P +S++ G+P +IA+EL F +R ++ K+ +N I
Sbjct: 328 ARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDP 387
Query: 428 AKSKIREKEP----------IVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
+IR E I W + + ++ G +L NR P+LHR+ I A + ++ R
Sbjct: 388 EGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRT 447
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
L+ VC +NADFDGD+M +HVP + EAQAEAR+LM +++SP G PI QD
Sbjct: 448 FRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDH 507
Query: 538 LIGLYILT 545
+ G Y+LT
Sbjct: 508 ISGGYLLT 515
>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 = 156 bits (390), Expect = 9e-37
Identities = 103/308 (33%), Positives = 160/308 (51%), Gaps = 27/308 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWMVL +LPV P +RP I ++ G D+ +I NN L + P +
Sbjct: 210 PEWMVLTVLPVPPVTVRPSITLETGIRAEDDLTHKLVDIIRINNRLRQNIEAG--APQLI 267
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T ++N G P K + K+ + ++GKEGRFR L GKRV++S
Sbjct: 268 IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIR----KHFASNIGVA- 428
R+VI P +S++ G+P +IA+EL F +R ++ K+ +N +
Sbjct: 328 ARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDP 387
Query: 429 -----------KSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
K + + I W + + ++ G +L NR P+LHR+ I A + ++ +
Sbjct: 388 EGRRIRIMESNKENLAKMIDIGWTVERHLVDGDIVLFNRQPSLHRMSIMAHRVRVMPYKT 447
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
L+ VC +NADFDGD+M +HVP + EAQAEA++LM +++SP G PI QD
Sbjct: 448 FRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAKILMEVQNHIISPRYGGPIIGGIQDH 507
Query: 538 LIGLYILT 545
+ G Y+LT
Sbjct: 508 ISGGYLLT 515
>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 = 154 bits (386), Expect = 3e-36
Identities = 103/309 (33%), Positives = 158/309 (50%), Gaps = 28/309 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+L +LPV P +RP I I+ G D+ +I N L + + P +
Sbjct: 204 PEWMILTVLPVPPITIRPSITIESGIRAEDDLTHKLVDIIRLNERLKESIEAG--APQLI 261
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T DN I G P K + ++ + ++GKEGRFR L GKRVD+S
Sbjct: 262 IEDLWDLLQYHVATYFDNEIPGLPPAKHRSGRPLRTLAQRLKGKEGRFRGNLSGKRVDFS 321
Query: 382 GRSVIVVGPSLSLHRCGLPREIA-------------IELFQTFLIRSLIRKHFASNIGVA 428
R+VI P+LS+ G+P IA IE + ++I + A+ +
Sbjct: 322 ARTVISPDPNLSIDEVGIPYTIARMLTVPERVTNINIERIRQYIINGPDKWPGANYVIKP 381
Query: 429 KSK------IREKEPIVWEIL------QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ +++++ + I + ++ G +L NR P+LHR+ + A + ++ GR
Sbjct: 382 DGRRIDLRYVKDRKELASSITAGYVVERHLVDGDVVLFNRQPSLHRISMMAHKVRVLPGR 441
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ L C +NADFDGD+M +HVP S EA AEAR LM H N+++P G PI QD
Sbjct: 442 TFRLNLLDCPPYNADFDGDEMNLHVPQSEEAIAEARELMLVHKNIITPRYGGPIIGGGQD 501
Query: 537 MLIGLYILT 545
+ G Y+L+
Sbjct: 502 YISGAYLLS 510
>pir||T31436 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - Nosema
locustae
gb|AAD12605.1| (AF061288) RNA polymerase II largest subunit [Nosema locustae]
Length = 1553
Score = 154 bits (385), Expect = 4e-36
Identities = 116/376 (30%), Positives = 183/376 (47%), Gaps = 32/376 (8%)
Query: 256 FIRTNIE---PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLL 312
F+ NI+ PE+M+L +L V PP +RP I ++G D+ Y +I N L
Sbjct: 190 FLGFNIKYSRPEYMILSVLLVAPPAVRPSIVMEGTLRGEDDLTYKYSDIIKSNQNLKKY- 248
Query: 313 TTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHN-KVYKSFSDIIEGKEGRFRE 371
P ++ E+LVQ V TL+DN I GQP N + K+ S ++GKEGR R
Sbjct: 249 -EEEGAPAHIIRDYEQLVQFHVATLIDNEISGQPQALQKNGRPLKAISARLKGKEGRLRG 307
Query: 372 TLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIA--------IELFQTFLIRSLI----RK 419
L+GKRVD+S RSVI P++SL G+P ++A + F +R L+ K
Sbjct: 308 NLMGKRVDFSARSVITADPNISLEELGVPMKVAMIHTFPERVTSFNLNKLRKLVSNGPNK 367
Query: 420 HFASNIGVAKSKIR-----EKEPIVWE----ILQEVMRGHPILLNRAPTLHRLGIQAFQP 470
+ +N + + R + ++ E + + ++ G +L NR P+LH++ + A +
Sbjct: 368 YPGANYLIRRDGQRIDLNFSRGDVILEEGYVVERHMLNGDLVLFNRQPSLHKMSMMAHKV 427
Query: 471 ILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPI 530
+++G L+ +NADFDGD+M +H+P S ++AE LM +++SP P+
Sbjct: 428 KVMDGLTFRLNLSATAPYNADFDGDEMNLHMPQSYNSKAELSELMLVSKHIISPQSNKPV 487
Query: 531 AVPTQDMLIGLYILTSGN---RRGICANRYNRSNWKNSKNEK--IRDKKYMKKKEPFFSN 585
QD L+G+ LTS +R N SN N K I K + + FS
Sbjct: 488 MGIIQDTLLGVCRLTSKGVFIKREEFCNLVYASNLVARANIKPAIARPKILYTGKQLFSL 547
Query: 586 SYDAIGAFRQKKINFD 601
+ + FR K + D
Sbjct: 548 TLPKLNFFRDKVVIMD 563
>pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [validated] -
Sulfolobus acidocaldarius
Length = 880
Score = 153 bits (384), Expect = 5e-36
Identities = 103/309 (33%), Positives = 158/309 (50%), Gaps = 28/309 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+L +LPV P +RP I I+ G D+ +I N L + + P +
Sbjct: 204 PEWMILTVLPVPPITIRPSITIESGIRAEDDLTHKLVDIIRLNERLKESIEAG--APQLI 261
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T DN I G P K + ++ + ++GKEGRFR L GKRVD+S
Sbjct: 262 IEDLWDLLQYHVATYFDNEIPGLPPAKHRSGRPLRTLAQRLKGKEGRFRGHLSGKRVDFS 321
Query: 382 GRSVIVVGPSLSLHRCGLPREIA-------------IELFQTFLIRSLIRKHFASNIGVA 428
R+VI P+LS+ G+P IA IE + ++I + A+ +
Sbjct: 322 ARTVISPDPNLSIDEVGIPYTIARMLTVPERVTNINIERIRQYIINGPDKWPGANYVIKP 381
Query: 429 KSK------IREKEPIVWEIL------QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ +++++ + I + ++ G +L NR P+LHR+ + A + ++ GR
Sbjct: 382 DGRRIDLRYVKDRKELASSITAGYVVERHLVDGDVVLFNRQPSLHRISMMAHKVRVLPGR 441
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ L C +NADFDGD+M +HVP S EA AEAR LM H N+++P G PI QD
Sbjct: 442 TFRLNLLDCPPYNADFDGDEMNLHVPQSEEAIAEARELMLVHKNIITPRYGGPIIGGGQD 501
Query: 537 MLIGLYILT 545
+ G Y+L+
Sbjct: 502 YISGAYLLS 510
>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 = 151 bits (378), Expect = 2e-35
Identities = 104/319 (32%), Positives = 158/319 (48%), Gaps = 35/319 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PE+MVL +LPV P +RP I ++ G+ D+ +I N L + + + P +
Sbjct: 207 PEYMVLTVLPVPPVTVRPSITLESGERSEDDLTHKLVDIIRINQRLEENI--NGGAPNLI 264
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q ++T DN G P + + ++ + ++GKEGRFR L GKRV++S
Sbjct: 265 IEDLWDLLQYHINTYFDNEAPGIPPARHRSGRPLRTLAQRLKGKEGRFRHNLAGKRVNFS 324
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIR----KHFASNIGVAK 429
R+VI P LS++ G+P IA EL + IR LI KH N + K
Sbjct: 325 ARTVISPDPRLSINEVGIPELIAKELTVPEKVTPYNIERIRKLIENGSDKHPGVNYVIKK 384
Query: 430 SKIREKEPIVWEIL--------------------QEVMRGHPILLNRAPTLHRLGIQAFQ 469
K ++ + ++I + + G +L NR P+LHR+ I A +
Sbjct: 385 VKTKDGKEEEYKIKITDTNKKMWVENIVDGMVVERHLGDGDVVLYNRQPSLHRMSIMAHK 444
Query: 470 PILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDP 529
++ R + VC +NADFDGD+M +HVP S EA+AEA LM +++SP G P
Sbjct: 445 VKVLPYRTFRHNLCVCPPYNADFDGDEMNVHVPQSEEARAEAETLMLVEKHIISPRYGGP 504
Query: 530 IAVPTQDMLIGLYILTSGN 548
I D + G Y+LTS N
Sbjct: 505 IIGAIHDFVSGAYVLTSSN 523
>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 = 150 bits (375), Expect = 5e-35
Identities = 100/314 (31%), Positives = 153/314 (47%), Gaps = 29/314 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWMV +L V P +RP I ++ G D+ ++ +N L +++ T+ P L
Sbjct: 215 PEWMVATVLIVPPLAVRPSITLETGLRSEDDLTHALAEIVRQNEKLRNVIVTN--APETL 272
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVY-KSFSDIIEGKEGRFRETLLGKRVDYS 381
+ ++QE V +DN + G K Y K+ + ++GK+GR R L GKRV+YS
Sbjct: 273 IEENWMVLQEMVAAYIDNELPGARRLTHRRKRYLKTLAQRLKGKDGRIRGNLSGKRVNYS 332
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELF--------------------------QTFLIRS 415
R+VI P +S++ G+P EIA L F+ ++
Sbjct: 333 ARTVISPDPYISINEVGVPEEIAKTLTIAMRVTPYNLEEARRYVLNGPDKWPGALFVYKA 392
Query: 416 LIRKHFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
RK + K+ E + + ++ G +L NR P+LHR+ I ++ G
Sbjct: 393 SERKKYDLRFFKDYEKLAESLEPGDVVERHLINGDIVLFNRQPSLHRMSIMGHIVRVMPG 452
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
+ L+ LVC +NADFDGD+M +HVP EAQAEAR +M ++L+P G PI Q
Sbjct: 453 KTFRLNLLVCPPYNADFDGDEMNLHVPRLEEAQAEAREIMLVEKHILTPRYGGPIIGGRQ 512
Query: 536 DMLIGLYILTSGNR 549
D + G Y+LT R
Sbjct: 513 DYVSGAYLLTVKTR 526
>gb|AAF24186.1| (AF159374) RpoC1 [Anabaenopsis circularis]
Length = 203
Score = 148 bits (371), Expect = 2e-34
Identities = 95/231 (41%), Positives = 129/231 (55%), Gaps = 38/231 (16%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PV HVWYLK +PSYIA LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGYIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY----FNSYVVLSP 113
Query: 156 ------TFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
T+ +L ++ EI+ YS T + E+ GA A+ L D++L
Sbjct: 114 GNAETLTYKQLLSEDQWLEIEDQIYSED--------STLQGVEVGIGAEALLRLLADINL 165
Query: 209 RIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E + L EE ST G+++ L++R+ + +FI T
Sbjct: 166 E-------QEAESLREEISTAK---------GQKRAKLIKRLRVIDNFIAT 200
>dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [Aspergillus oryzae]
Length = 1748
Score = 146 bits (366), Expect = 6e-34
Identities = 105/324 (32%), Positives = 159/324 (48%), Gaps = 35/324 (10%)
Query: 247 VRRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDG---GKLMSSDINELYRRVIY 303
VR M L+ + R PEWMVL +LPV PP +RP + + G G+ D+ ++
Sbjct: 231 VRIMGLSNDYAR----PEWMVLTVLPVPPPPVRPSVLVGGSTSGQRGEDDLTYKLAEIVR 286
Query: 304 RNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMK-DGHNKVYKSFSDII 362
N + P +V E L+Q V T +DN I GQP N+ K+ +
Sbjct: 287 ANQNV--QRCEQEGAPEHVVREFESLLQYHVATYMDNDIAGQPKAMQKSNRPVKAIRSRL 344
Query: 363 EGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIA-------------IELFQ 409
+GKEGR R+ L+GKRVD+S R+VI P+LSL G+P+ IA I+ Q
Sbjct: 345 KGKEGRLRQNLMGKRVDFSARTVITGDPNLSLDEVGVPKSIARTLTYPEVVTPYNIDKLQ 404
Query: 410 TFL---------IRSLIRKHFASNIGVAKSKIREKEPIV--WEILQEVMRGHPILLNRAP 458
+ R ++R + I + +K + ++ W++ + VM G IL NR P
Sbjct: 405 QLVSNGPNEHPGARYIVRDN-GERIDLRHAKRAGGQQLLYGWKVERHVMDGDVILFNRQP 463
Query: 459 TLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSH 518
+LH+ + + ++ L+ V +NADFDGD+M +HVP S E++AE L
Sbjct: 464 SLHKESMMGHRVRVMPYSTFRLNLSVTTPYNADFDGDEMNLHVPQSEESRAELLQLALVP 523
Query: 519 TNLLSPAIGDPIAVPTQDMLIGLY 542
N++SP P+ QD L G+Y
Sbjct: 524 MNIVSPQRNGPLMGIVQDTLCGIY 547
>pir||S20583 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Cyanophora
paradoxa cyanelle (fragment)
emb|CAA77503.1| (Z11152) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Cyanophora paradoxa]
Length = 208
Score = 146 bits (366), Expect = 6e-34
Identities = 86/227 (37%), Positives = 130/227 (56%), Gaps = 25/227 (11%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
++TKP T +Y+T KPE DGLFCE+IFGP+K C CG Y+ I + CE+CGVE
Sbjct: 1 KITKPETINYRTLKPEMDGLFCEKIFGPVKDWECHCGKYKSIFYRG---VICERCGVEIT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+S++RR++MGYI+LA PVTH+WYLK +PSYI+ LL+K +KE+E +VY F VV P
Sbjct: 58 ESQVRRHRMGYIELAAPVTHIWYLKGIPSYISILLNKKVKEIEQVVY----FNAYVVLNP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L + + + W Y + D E+ GA AI+ L DLDL+
Sbjct: 114 GTSDLLNYGDILTEDDEKWPYIEEKLYTKELMDV----ELGIGAEAIQRLLSDLDLQ--- 166
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E K + E ++++ +K +++ L++++ + +FI T
Sbjct: 167 ----AEAKTIREILISNSDK----KKNTQKRAKLIKKLRIINNFIAT 205
>sp|P42075|RPOC_PROHO DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S20584 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain -
Prochlorothrix hollandica (fragment)
emb|CAA77505.1| (Z11154) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Prochlorothrix hollandica]
Length = 203
Score = 146 bits (365), Expect = 8e-34
Identities = 90/227 (39%), Positives = 125/227 (54%), Gaps = 30/227 (13%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PVTHVWYLK +PSYI+ LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGYIKLAAPVTHVWYLKGIPSYISILLDMPLRDVEQIVY----FNSYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L E QS + ++ T E+ GA A+ L DL+L
Sbjct: 114 GNHPELQTKQLLT-EDQSMELEDQIYAED---STLEGIEVGIGAEALERLLQDLEL---- 165
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E+ E + G+++ L++R+ + +F+ T
Sbjct: 166 ------------EQDAERLREEINSAKGQKRAKLIKRLRVVDNFVAT 200
>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 = 146 bits (364), Expect = 1e-33
Identities = 100/320 (31%), Positives = 153/320 (47%), Gaps = 34/320 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWMVL +LPV P +RP I ++ G+ D+ +I + L + + +P +
Sbjct: 206 PEWMVLTVLPVPPINVRPSITLETGERSEDDLTHKLVDIIRISQRLRE--SRDNGSPQLI 263
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+Q V T DN G P + + K+ ++GKEGRFR L GKRV +S
Sbjct: 264 IEDLWDLLQFHVTTYFDNQTPGIPPARHRSGRALKTLVQRLKGKEGRFRSNLSGKRVSFS 323
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRK------HFASNIGV 427
R+VI P LS++ G+P A EL F +R LI++ F +
Sbjct: 324 SRTVISPEPYLSVNEVGVPERAARELTVPVIVNQFNIDEMRELIKRGRNPRDQFGRYVTG 383
Query: 428 AKSKIR-----------------EKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQP 470
IR ++ I W + +++M G +L NR P+LHR+ +
Sbjct: 384 VNYVIRPDGRRIKITDQNAAENADRIDIGWTVERQLMEGDIVLFNRQPSLHRMSMMGHTV 443
Query: 471 ILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPI 530
++ G+ + VC +NADFDGD+M +HV EA+AEAR++M ++SP G PI
Sbjct: 444 RILPGQTFRFNLAVCTPYNADFDGDEMNLHVIQKEEARAEARIIMKVQEQIMSPRFGGPI 503
Query: 531 AVPTQDMLIGLYILTSGNRR 550
D + L++LT N R
Sbjct: 504 IGGIHDHVTALFLLTHNNPR 523
>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 = 145 bits (363), Expect = 1e-33
Identities = 109/370 (29%), Positives = 178/370 (47%), Gaps = 45/370 (12%)
Query: 219 WKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIE---------------- 262
+ E ++ H E E E+ K+ + + + +L +R +E
Sbjct: 138 YAEARRDKCPHCEEEQEEIKLDKPVSIVEGDYKLTPSEVRERLERISDDDALILGVNPEV 197
Query: 263 --PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPG 320
PEWMVL +LPV P +RP I ++ G+ D+ ++ N L + + P
Sbjct: 198 ARPEWMVLTVLPVPPVTVRPSITLETGERSEDDLTHKLVDILRINQRLKENMEAG--APQ 255
Query: 321 ELVMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+V +L+Q V T DN G P + + K+ + ++GKEGRFR L GKRV+
Sbjct: 256 LIVEDLWELLQYHVTTYFDNEASGVPPARHRSGRPLKTLAQRLKGKEGRFRSNLSGKRVN 315
Query: 380 YSGRSVIVVGPSLSLHRCGLP----REIAIELFQTFLIRSLIRKHFASNIGVAKS----- 430
+S R+VI P++S++ G+P RE+ + ++ T +R++ + V
Sbjct: 316 FSARTVISPDPNISINEVGVPEIIAREVTVPVYVTEWNIDRMREYIENGPDVHPGANYVI 375
Query: 431 -----KIR---EKEPIVWEILQ-------EVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
KIR E + +V E L+ + G +L NR P+LHR+ + A Q ++
Sbjct: 376 RPDGRKIRIYNETKEVVLENLKPGYIVERHLKDGDIVLFNRQPSLHRMSMMAHQVRVLPY 435
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
+ L+ VC +NADFDGD+M +HV + E++AEA+ LM ++LSP G PI
Sbjct: 436 KTFRLNLCVCPPYNADFDGDEMNMHVFQTEESRAEAKTLMRVQEHILSPRFGGPIIGGIH 495
Query: 536 DMLIGLYILT 545
D + G Y+LT
Sbjct: 496 DHISGAYLLT 505
>gb|AAA97919.1| (U52343) DNA-dependent RNA polymerase [Synechococcus sp.]
Length = 204
Score = 145 bits (362), Expect = 2e-33
Identities = 90/227 (39%), Positives = 129/227 (56%), Gaps = 27/227 (11%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHK 117
Query: 154 KPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
T+ +L L E E W FA + + GA A+++ L D+DL
Sbjct: 118 DLTYKQL--LTEDE---WLEIEDQIFAEDS-EIENEPIVGIGAEALKQLLEDIDLE---- 167
Query: 214 SSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
KE + R N ++ G+++ L++R+ + +FI TN
Sbjct: 168 ------KEAEQLREDINNSK------GQKRAKLIKRLRVIDNFIATN 202
>sp|P42074|RPOC_FISP4 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
emb|CAA77504.1| (Z11153) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Fischerella PCC7414]
Length = 203
Score = 144 bits (360), Expect = 3e-33
Identities = 90/227 (39%), Positives = 124/227 (53%), Gaps = 30/227 (13%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PV HVWYLK +PSYI+ LLD PL+++E +VY +
Sbjct: 58 ESRVRRHRMGYIKLAAPVAHVWYLKGIPSYISILLDMPLRDVEQIVYFNSYVVLSPGNAE 117
Query: 156 TFLRLRGLFE---YEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
T + L E EI+ YS T + E+ GA A+ L D++L
Sbjct: 118 TLSYKQLLSEDQWLEIEDQIYSED--------STLQGVEVGIGAEALLRLLADINLE--- 166
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E + L EE +T G+++ L++R+ + +FI T
Sbjct: 167 ----QEAETLREEITTAK---------GQKRAKLIKRLRVIDNFIAT 200
>sp|P42077|RPOC_PROV1 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S20587 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain -
Prochlorococcus sp. (strain DV1) (fragment)
emb|CAA77510.1| (Z11159) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Prochlorococcus sp. DV1]
Length = 204
Score = 144 bits (360), Expect = 3e-33
Identities = 89/226 (39%), Positives = 126/226 (55%), Gaps = 25/226 (11%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PV+HVWYLK +PSY+A LLD PL+++E +VY + V
Sbjct: 58 ESRVRRHRMGYIKLAAPVSHVWYLKGIPSYVAILLDIPLRDVEQIVYFNCYVVLDVGDHK 117
Query: 156 TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNRE-ISSGAGAIREQLVDLDLRIVIDS 214
+ L E E W +A T N + GA A+++ L DLDL + +
Sbjct: 118 DLKYKQLLTEDE---WLEIEDEVYAED--STIENEPVVGIGAEALKQLLEDLDLNQIAE- 171
Query: 215 SLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
EL EE + G+++ L++R+ + +F+ TN
Sbjct: 172 ------ELREEITNSK---------GQKRAKLIKRIRVIDNFLATN 202
>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 = 144 bits (360), Expect = 3e-33
Identities = 95/304 (31%), Positives = 147/304 (48%), Gaps = 28/304 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV PP +RP I +DG D+ +I N + P +
Sbjct: 237 PDWMIITVLPVPPPSVRPSISVDGTSRGEDDLTHKLSDIIKANANV--RRCEQEGAPAHI 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQPMK-DGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
V E+L+Q V T +DN I GQP + KS ++GKEGR R L+GKRVD+S
Sbjct: 295 VSEYEQLLQFHVATYMDNEIAGQPQALQKSGRPLKSIRARLKGKEGRLRGNLMGKRVDFS 354
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSKIR 433
R+VI P+LSL G+PR IA L + + ++ L+R + G AK IR
Sbjct: 355 ARTVITGDPNLSLDELGVPRSIAKTLTYPETVTPYNIYQLQELVRNGPDEHPG-AKYIIR 413
Query: 434 EKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
+ + W + + + G ++ NR P+LH++ + + ++
Sbjct: 414 DTGERIDLRYHKRAGDIPLRYGWRVERHIRDGDVVIFNRQPSLHKMSMMGHRIRVMPYST 473
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
L+ V +NADFDGD+M +HVP S E +AE + + ++SP P+ QD
Sbjct: 474 FRLNLSVTSPYNADFDGDEMNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDT 533
Query: 538 LIGL 541
L G+
Sbjct: 534 LAGV 537
>sp|P42076|RPOC_PROMA DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S20585 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain -
Prochlorococcus marinus (fragment)
emb|CAA77511.1| (Z11160) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Prochlorococcus marinus]
Length = 204
Score = 143 bits (357), Expect = 7e-33
Identities = 89/226 (39%), Positives = 126/226 (55%), Gaps = 25/226 (11%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY +
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHQ 117
Query: 156 TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNRE-ISSGAGAIREQLVDLDLRIVIDS 214
+ L E E W +A T N + GA A+++ L DL+L V +
Sbjct: 118 DLKYKQLLTEDE---WLEIEDEIYAED--STIENEPVVGIGAEALKQLLEDLELPKVAE- 171
Query: 215 SLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
EL EE S+ G+++ L++R+ + +FI TN
Sbjct: 172 ------ELREEISSSK---------GQKRAKLIKRLRVIDNFIATN 202
>gb|AAF24187.1| (AF159375) RpoC1 [Anabaena bergii]
Length = 198
Score = 143 bits (356), Expect = 9e-33
Identities = 89/229 (38%), Positives = 123/229 (52%), Gaps = 38/229 (16%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PV HVWYLK +PSYI+ LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGYIKLAAPVAHVWYLKGIPSYISILLDMPLRDVEQIVY----FNSYVVLSP 113
Query: 156 ------TFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
T+ +L ++ EI+ YS + E+ GA A+ L D+ L
Sbjct: 114 GNAETLTYKQLLSEDQWLEIEDQIYSED--------SLLQGVEVGIGAEALLRLLADISL 165
Query: 209 RIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFI 257
E+ N E G+++ L++R+ + +FI
Sbjct: 166 ----------------EQEAENLREETANAKGQKRAKLIKRLRVIDNFI 198
>pir||T31435 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Vairimorpha necatrix
gb|AAD12604.1| (AF060234) largest subunit of RNA polymerase II; RPO21 [Vairimorpha
necatrix]
Length = 1605
Score = 142 bits (355), Expect = 1e-32
Identities = 99/310 (31%), Positives = 150/310 (47%), Gaps = 32/310 (10%)
Query: 262 EPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGE 321
+PEW++L +L V PP +RP I ++G D+ ++ N L PG
Sbjct: 201 KPEWLILTVLLVPPPSVRPSIVMEGMLRAEDDLTHKLADIVKANTYLKKY--ELEGAPGH 258
Query: 322 LVMCQEKLVQEAVDTLLDNGIRGQPMK-DGHNKVYKSFSDIIEGKEGRFRETLLGKRVDY 380
+V E+L+Q + T++DN I GQP + KS S ++GKEGR R L+GKRVD+
Sbjct: 259 VVRDYEQLLQFHIATMIDNDISGQPQALQKSGRPLKSISARLKGKEGRVRGNLMGKRVDF 318
Query: 381 SGRSVIVVGPSLSLHRCGLPREIA-----IELFQTFLIRSLIRKHFASN----------- 424
S RSVI P++S+ G+P EIA E+ F I L + SN
Sbjct: 319 SARSVITPDPNISVEEVGVPSEIAKIHTFPEIITPFNIDRLTK--LVSNGPNEYPGANYV 376
Query: 425 ---------IGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+ + I+ +E V E + + G +L NR P+LH++ + A ++EG
Sbjct: 377 IRNDGQRIDLNFNRGDIKLEEGYVVE--RHMQDGDVVLFNRQPSLHKMSMMAHFVRVMEG 434
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
+ L+ +NADFDGD+M +H+P S ++AE L +LSP P+ Q
Sbjct: 435 KTFRLNLSCVSPYNADFDGDEMNLHMPQSYNSKAELEELCLVSKQVLSPQSNKPVMGIVQ 494
Query: 536 DMLIGLYILT 545
D L L + T
Sbjct: 495 DSLTALRLFT 504
>gb|AAA97918.1| (U52342) DNA-dependent RNA polymerase [Synechococcus sp.]
Length = 204
Score = 142 bits (355), Expect = 1e-32
Identities = 90/227 (39%), Positives = 127/227 (55%), Gaps = 27/227 (11%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD P ++E +VY C + K
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPPADVEQIVYFNCYVVLDKGDHK 117
Query: 154 KPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
T+ +L L E E W FA + + GA A+++ L DLDL
Sbjct: 118 DLTYKQL--LTEDE---WLEIEDQIFAEDS-EIENEPMVGIGAEALKQLLEDLDLE---- 167
Query: 214 SSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
KE + R N ++ G+++ L++R+ + +FI TN
Sbjct: 168 ------KEAEQLREDINNSK------GQKRAKLIKRLRVIDNFIATN 202
>sp|P42079|RPOC_SYNP7 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S20588 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain -
Synechococcus sp. (strain PCC 7942) (fragment)
emb|CAA77506.1| (Z11155) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Synechococcus PCC6301]
Length = 203
Score = 142 bits (355), Expect = 1e-32
Identities = 89/227 (39%), Positives = 125/227 (54%), Gaps = 30/227 (13%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV HVWYLK +PSYIA LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY----FNSYVVLNP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
+ L+ + L + W +A E+ GA A+++ L DL+L
Sbjct: 114 GNHSELQYKQLLNED--QWMEIEDQIYAEE--SDLEGIEVGIGAEALQQLLQDLNL---- 165
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E S E + K G+++ L++R+ + +FI T
Sbjct: 166 -----------NEESEKLRQEIAESK-GQKRAKLIKRLRVIDNFIGT 200
>prf||1804349C DNA-dependent RNA polymerase [Prochlorothrix hollandica]
Length = 204
Score = 142 bits (354), Expect = 2e-32
Identities = 90/229 (39%), Positives = 125/229 (54%), Gaps = 33/229 (14%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNY--RVIGDKKDEPKFCEQCGVE 93
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y RV + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPAKDWFCHCGKYYKRV----RHRGIVCERCGVE 56
Query: 94 FVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVK 153
+SR+RR++MG+IKLA PVTHVWYLK +PSYI+ LLD PL+++E +VY F VV
Sbjct: 57 VTESRVRRHRMGFIKLAAPVTHVWYLKGIPSYISILLDMPLRDVEQIVY----FNSYVVL 112
Query: 154 KP---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRI 210
P L+ + L E QS + ++ T E+ GA A+ L DL+L
Sbjct: 113 DPGNHPELQTKQLLT-EDQSMELEDQIYAED---STLEGIEVGIGAEALERLLQDLEL-- 166
Query: 211 VIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E+ E + G+++ L++R+ + +F+ T
Sbjct: 167 --------------EQDAERLREEINSAKGQKRAKLIKRLRVVDNFVAT 201
>gb|AAC45874.1| (AF013609) RNA polymerase subunit [Synechococcus sp. CC9317]
Length = 204
Score = 141 bits (353), Expect = 2e-32
Identities = 89/228 (39%), Positives = 128/228 (56%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L + W +A D + GA A+++ L DL L V
Sbjct: 114 GDHKDLKYKQLLTED--EWLEIEDEIYAEDS-DIENEPMVGIGAEALKQLLEDLTLNEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE ++ G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEIASSK---------GQKRAKLIKRLRVIDNFIATN 202
>prf||1804349B DNA-dependent RNA polymerase [Prochlorococcus sp.]
Length = 205
Score = 141 bits (353), Expect = 2e-32
Identities = 91/228 (39%), Positives = 126/228 (54%), Gaps = 28/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNY--RVIGDKKDEPKFCEQCGVE 93
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y RV + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWFCHCGKYYKRV----RHRGIVCERCGVE 56
Query: 94 FVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY +
Sbjct: 57 VTESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGD 116
Query: 154 KPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNRE-ISSGAGAIREQLVDLDLRIVI 212
+ L E E W +A T N + GA A+++ L DL+L V
Sbjct: 117 HQDLKYKQLLTEDE---WLEIEDEIYAED--STIENEPVVGIGAEALKQLLEDLELPKVA 171
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ EL EE S+ G+++ L++R+ + +FI TN
Sbjct: 172 E-------ELREEISSSK---------GQKRAKLIKRLRVIDNFIATN 203
>prf||1804349A DNA-dependent RNA polymerase [Prochlorococcus sp.]
Length = 205
Score = 141 bits (352), Expect = 3e-32
Identities = 90/228 (39%), Positives = 126/228 (54%), Gaps = 28/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNY--RVIGDKKDEPKFCEQCGVE 93
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y RV + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWFCHCGKYYKRV----RHRGIVCERCGVE 56
Query: 94 FVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY + V
Sbjct: 57 VTESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDIPLRDVEQIVYFNCYVVLDVGD 116
Query: 154 KPTFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNRE-ISSGAGAIREQLVDLDLRIVI 212
+ L E E W +A T N + GA A+++ L DLDL +
Sbjct: 117 HKDLKYKQLLTEDE---WLEIEDEVYAED--STIENEPVVGIGAEALKQLLEDLDLNQIA 171
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ EL EE + G+++ L++R+ + +F+ TN
Sbjct: 172 E-------ELREEITNSK---------GQKRAKLIKRIRVIDNFLATN 203
>gb|AAK00310.1|AF315820_1 (AF315820) DNA-dependent RNA polymerase II largest subunit RPB1
[Glaucosphaera vacuolata]
Length = 1746
Score = 141 bits (351), Expect = 3e-32
Identities = 95/309 (30%), Positives = 154/309 (49%), Gaps = 30/309 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEW +L L PV PP +RP + +D D+ ++ NN L ++ T P
Sbjct: 217 PEWFILTLFPVPPPHIRPSVMMDASMRGEDDLTYKLGDIVRNNNALREMERTG--APAHR 274
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ Q ++Q + T+++N + G P K G + KS S ++GKEGR R L+GKRVD
Sbjct: 275 LNEQIHVLQAHIITIMNNDLPGMPRAHQKSG--RPIKSISQRLKGKEGRVRGNLMGKRVD 332
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSL-------------IR 418
+SGR+VI P+L L + G+P+ IA+ L F +R L I
Sbjct: 333 FSGRTVISPDPNLRLDQVGVPQTIAMNLTYPEVVTPFNVEKMRRLVMNGPNEYPGAKYIE 392
Query: 419 KHFASNIGVAKSKIREKEPI--VWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ S + +A K R + ++++ ++ G ++ NR P+LH++ I + ++
Sbjct: 393 RLDGSKVNLAFVKNRSDIHLNNGEKVIRHLLDGDYVIFNRQPSLHKMSIMGHRVKVMRYS 452
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
+ L+ +NADFDGD+M +HVP S +A+AE LM ++SP P+ QD
Sbjct: 453 SFRLNLSCTSPYNADFDGDEMNLHVPQSPQARAEVMQLMMVPRCIVSPQGNKPVMGIVQD 512
Query: 537 MLIGLYILT 545
L+G + T
Sbjct: 513 TLVGTMLFT 521
>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 = 141 bits (351), Expect = 3e-32
Identities = 108/357 (30%), Positives = 164/357 (45%), Gaps = 36/357 (10%)
Query: 219 WKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIE-----PEWMVLCLLPV 273
WK+ +R+T + +E E R + + + + K F PEWM+L LPV
Sbjct: 185 WKK---DRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPV 241
Query: 274 LPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEA 333
PP +RP I + + D+ ++ N +L L P + E L+Q
Sbjct: 242 PPPPVRPSISFNESQRGEDDLTFKLADILKANISLETL--EHNGAPHHAIEEAESLLQFH 299
Query: 334 VDTLLDNGIRGQPMK-DGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSL 392
V T +DN I GQP + KS ++GKEGR R L+GKRVD+S R+VI P+L
Sbjct: 300 VATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNL 359
Query: 393 SLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSKIREKEPIV----- 439
L + G+P+ IA L + + L+R + G AK IR+ +
Sbjct: 360 ELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPG-AKYVIRDSGDRIDLRYS 418
Query: 440 -----------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
W++ + +M P+L NR P+LH++ + A + ++ L+ V +
Sbjct: 419 KRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPY 478
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGD+M +HVP S E +AE L ++SP P QD L G+ LT
Sbjct: 479 NADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLT 535
>gb|AAA97916.1| (U52340) DNA-dependent RNA polymerase [Gloeobacter violaceus]
Length = 205
Score = 141 bits (351), Expect = 3e-32
Identities = 87/227 (38%), Positives = 123/227 (53%), Gaps = 28/227 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPSKDWECYCGKYKHV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+S++RR++MGYIKLA PVTHVWYLK +PSYI+ LLD PL+++E +VY F VV P
Sbjct: 58 ESKVRRHRMGYIKLAAPVTHVWYLKGIPSYISTLLDMPLRDVEQVVY----FNAYVVLNP 113
Query: 156 TFLRLRGLFEYEIQSWKYSIPL---FFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ ++ + I + FA GA AI E L +++
Sbjct: 114 G--NAENLYYKQLLTEDQYIEVEDQIFAEDSSLELPEGWAKMGAEAIHELLAAIEMESEA 171
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
+ +LGE + G+++ L++R+ + +FI T
Sbjct: 172 ERLRA---DLGESK-------------GQKRTKLIKRLRVLDNFIAT 202
>emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit [Saccharomyces
cerevisiae]
Length = 1726
Score = 141 bits (351), Expect = 3e-32
Identities = 108/357 (30%), Positives = 164/357 (45%), Gaps = 36/357 (10%)
Query: 219 WKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIE-----PEWMVLCLLPV 273
WK+ +R+T + +E E R + + + + K F PEWM+L LPV
Sbjct: 185 WKK---DRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPV 241
Query: 274 LPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEA 333
PP +RP I + + D+ ++ N +L L P + E L+Q
Sbjct: 242 PPPPVRPSISFNESQRGEDDLTFKLADILKANISLETL--EHNGAPHHAIEEAESLLQFH 299
Query: 334 VDTLLDNGIRGQPMK-DGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSL 392
V T +DN I GQP + KS ++GKEGR R L+GKRVD+S R+VI P+L
Sbjct: 300 VATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNL 359
Query: 393 SLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSKIREKEPIV----- 439
L + G+P+ IA L + + L+R + G AK IR+ +
Sbjct: 360 ELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPG-AKYVIRDSGDRIDLRYS 418
Query: 440 -----------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGF 488
W++ + +M P+L NR P+LH++ + A + ++ L+ V +
Sbjct: 419 KRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPY 478
Query: 489 NADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
NADFDGD+M +HVP S E +AE L ++SP P QD L G+ LT
Sbjct: 479 NADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLT 535
>gb|AAG48696.1|AF323594_1 (AF323594) DNA-dependent RNA polymerase [Synechococcus sp. WH8020]
Length = 204
Score = 140 bits (350), Expect = 5e-32
Identities = 87/228 (38%), Positives = 128/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHK 117
Query: 154 KPTFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
+ +L E+ EI+ Y+ + + GA A+++ L DL+L V
Sbjct: 118 DLKYKQLLTEDEWLEIEDEIYA-------EDSEIENEPVVGIGAEALKQLLEDLELNAVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEIAGSK---------GQKRAKLIKRLRVIDNFIATN 202
>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 = 140 bits (350), Expect = 5e-32
Identities = 94/308 (30%), Positives = 151/308 (48%), Gaps = 28/308 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEW++L LLPV PP++RP + + GG D+ ++ NNTL +L T
Sbjct: 139 PEWLILTLLPVPPPQVRPSV-MRGGLRNEDDLTNKLGDIVKNNNTLRNLEATG--AVAHA 195
Query: 323 VMCQEKLVQEAVDTLLDNGIRG--QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDY 380
+ Q LVQ V T ++N + G G ++ KS +GKEGR R L+GKRVD+
Sbjct: 196 IREQIDLVQYHVATYMNNELPGIMPATVRGGSRAIKSIGQRFKGKEGRVRGNLMGKRVDF 255
Query: 381 SGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRS--------LIRK------------- 419
S R+VI P+L LH G+P IA L ++ S L+
Sbjct: 256 SARTVITPDPNLRLHEVGVPFSIARNLTYPEIVTSYNIDEMQKLVENGPDEYPGAKYIER 315
Query: 420 --HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRA 477
F N+ +++ + + +++++ + G +L NR P+LH++ I + ++
Sbjct: 316 EDGFKVNLAYVRNRSELQLELGYKVIRHIRDGDYVLFNRQPSLHKMSIMGHRIRVLPYST 375
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
L+ V +NADFDGD+M +HVP + + +AE + LM ++SP P+ QD
Sbjct: 376 FRLNLSVTSPYNADFDGDEMNLHVPQTHQTRAEVQELMLVPHCIVSPQGNKPVMGIVQDT 435
Query: 538 LIGLYILT 545
L+G + T
Sbjct: 436 LLGCMLFT 443
>gb|AAA97922.1| (U52346) DNA-dependent RNA polymerase [Porphyra purpurea]
Length = 209
Score = 140 bits (350), Expect = 5e-32
Identities = 89/228 (39%), Positives = 129/228 (56%), Gaps = 20/228 (8%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
E+TKP T +Y+T KPE DGLFCE+IFGP+K C CG Y+ K CE+CGVE
Sbjct: 1 EITKPETINYRTLKPEMDGLFCEKIFGPVKDWECHCGKYKRFRYKGI---VCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++M YI+LA PVTHVWYLK SYIA LD +KE+E +VY S+ +
Sbjct: 58 ESRVRRHRMAYIELASPVTHVWYLKGSTSYIALALDLKVKEVEKIVYF-HSYVVTQSSEE 116
Query: 156 TFLRLRGLFE-YEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDS 214
T L+ + L E YE +S + I D E+ GA AI++ L DLDL + ++
Sbjct: 117 TNLKYKQLLEGYEWKSLEEEI-----YQNQDENNQIEVGIGAEAIQKLLKDLDLEYIAET 171
Query: 215 SLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIE 262
+E +T+ ++ + + N ++R+ L ++FI T +
Sbjct: 172 LRLE--------ATNPPKSFKTPSL--KFNKKMKRLRLIENFIATGAD 209
>gb|AAA97920.1| (U52344) DNA-dependent RNA polymerase [Synechocystis sp.]
Length = 203
Score = 140 bits (349), Expect = 6e-32
Identities = 87/227 (38%), Positives = 119/227 (52%), Gaps = 30/227 (13%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVT P T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTTPETINYRTQKPEMDGLFCEKIFGPSKDWECWCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA PVTHVWYLK +PSY++ LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGYIKLAAPVTHVWYLKGIPSYLSILLDMPLRDVEQVVY----FNSHVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
T L R L + W +A E+ GA A+ L ++ L
Sbjct: 114 GNATNLSYRQLLSED--QWIEIEEQIYAED--SQLEGIEVGIGAEAVERLLQEIQL---- 165
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
E E + G+++ L++R+ L +FI T
Sbjct: 166 ------------EEEAEKLREEIVKSKGQKRAKLIKRLRLIDNFIAT 200
>gb|AAA97917.1| (U52341) DNA-dependent RNA polymerase [Dermocarpa sp.]
Length = 203
Score = 140 bits (349), Expect = 6e-32
Identities = 64/107 (59%), Positives = 81/107 (74%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+SR+RR++MGYIKLA PVTHVWYLK +PSY++ LLD PL+++E +VY
Sbjct: 58 ESRVRRHRMGYIKLAAPVTHVWYLKGIPSYLSILLDMPLRDVEQVVY 104
>gb|AAC45872.1| (AF013607) RNA polymerase subunit [Synechococcus sp. CC9311]
gb|AAF73277.1|AF154562_1 (AF154562) RNA polymerase subunit [Synechococcus sp. CC9617]
Length = 204
Score = 139 bits (348), Expect = 8e-32
Identities = 87/228 (38%), Positives = 127/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHK 117
Query: 154 KPTFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
+ +L E+ EI+ Y+ + + GA A+++ L DL L V
Sbjct: 118 DLKYKQLLTEDEWLEIEDEIYA-------EDSEIENEPVVGIGAEALKQLLEDLQLNAVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEIAGSK---------GQKRAKLIKRLRVIDNFIATN 202
>gb|AAF24183.1| (AF159371) RpoC1 [Cylindrospermopsis raciborskii]
Length = 203
Score = 139 bits (346), Expect = 1e-31
Identities = 64/107 (59%), Positives = 80/107 (73%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+SR+RR++MG+IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 ESRVRRHRMGFIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 104
>gb|AAC45875.1| (AF013610) RNA polymerase subunit [Synechococcus sp. CC9305-3]
Length = 204
Score = 138 bits (345), Expect = 2e-31
Identities = 86/228 (37%), Positives = 128/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHK 117
Query: 154 KPTFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
+ +L E+ EI+ Y+ + + GA A+++ L DL L V
Sbjct: 118 DLKYKQLLTEDEWLEIEDEIYA-------EDSEIENEPVVGIGAEALKQLLEDLTLNEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L E+ ++ G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREDIASSK---------GQKRAKLIKRLRVIDNFIATN 202
>gb|AAF73275.1|AF154560_1 (AF154560) RNA polymerase subunit [Synechococcus sp. CC9605]
gb|AAF73278.1|AF154563_1 (AF154563) RNA polymerase subunit [Synechococcus sp. SS9401]
gb|AAF73287.1|AF155131_1 (AF155131) RNA polymerase subunit [Synechococcus sp. CC9701]
Length = 204
Score = 138 bits (344), Expect = 2e-31
Identities = 88/228 (38%), Positives = 127/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L + W +A + + GA A+++ L DL L V
Sbjct: 114 GDHKDLKYKQLLTED--EWLEIEDEIYAEDS-EIENEPVVGIGAEALKQLLEDLTLDEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEINGSK---------GQKRAKLIKRLRVIDNFIATN 202
>gb|AAA92726.1| (L34062) RNA polymerase [Synechococcus sp.]
Length = 204
Score = 138 bits (344), Expect = 2e-31
Identities = 88/228 (38%), Positives = 127/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L + W +A + + GA A+++ L DL L V
Sbjct: 114 GDHKDLKYKQLLTED--EWLEIEDEIYAEDS-EIENEPVVGIGAEALKQLLEDLTLDEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEIAGSK---------GQKRAKLIKRLRVIDNFIATN 202
>gb|AAC45873.1| (AF013608) RNA polymerase subunit [Synechococcus sp. CC9318]
Length = 204
Score = 138 bits (343), Expect = 3e-31
Identities = 87/228 (38%), Positives = 126/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVK 153
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K
Sbjct: 58 ESRVRRHRMGFIKLASPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHK 117
Query: 154 KPTFLRLRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
+ +L E+ EI+ Y+ + + GA A+++ L DL L
Sbjct: 118 DLKYKQLLTEDEWLEIEDEIYA-------EDSEIENEPVVGIGAEALKQLLEDLTL---- 166
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
E+GE+ E G+++ L++R+ + +FI TN
Sbjct: 167 -------NEVGEQL-----REDIASSKGQKRAKLIKRLRVIDNFIATN 202
>sp|Q55085|RPOC_SYNP2 DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
gb|AAA97921.1| (U52345) DNA-dependent RNA polymerase [Synechocystis sp.]
Length = 203
Score = 138 bits (343), Expect = 3e-31
Identities = 91/231 (39%), Positives = 124/231 (53%), Gaps = 38/231 (16%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MGYIKLA VTHVWYLK +PSY++ LLD L+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGYIKLAAAVTHVWYLKGIPSYLSILLDMALRDVEQIVY----FNAYVVLDP 113
Query: 156 ---TFLRLRGLFE----YEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
T L + L EI+ YS + E+ GA AI L +L+L
Sbjct: 114 GNATNLSYKQLLTEDQWLEIEEQLYSED--------SQLEDVEVGIGAEAIERLLQELEL 165
Query: 209 RIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRT 259
V + EL E + G+++ L++R+ + +FI T
Sbjct: 166 EAVAE-------ELREGIANSK---------GQKRAKLIKRLRVIDNFIAT 200
>sp|Q55348|RPOC_SYNPZ DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
gb|AAA92727.1| (L34063) RNA polymerase [Synechococcus sp.]
gb|AAF19005.1|AF153332_1 (AF153332) RNA polymerase subunit [Synechococcus sp. CC9301]
gb|AAF19006.1|AF153333_1 (AF153333) RNA polymerase subunit [Synechococcus sp. WH8112]
gb|AAF19007.1|AF153334_1 (AF153334) RNA polymerase subunit [Synechococcus sp. WH8011]
gb|AAF19009.1|AF153336_1 (AF153336) RNA polymerase subunit [Synechococcus sp. WH8102]
gb|AAF19011.1|AF153338_1 (AF153338) RNA polymerase subunit [Synechococcus sp. CC9703]
gb|AAF19012.1|AF153339_1 (AF153339) RNA polymerase subunit [Synechococcus sp. C129]
Length = 204
Score = 138 bits (343), Expect = 3e-31
Identities = 86/228 (37%), Positives = 128/228 (55%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L + W +A + + GA A+++ L DL+L V
Sbjct: 114 GDHKELKYKQLLTED--EWLEIEDEIYAEES-EIENEPVVGIGAEALKQLLEDLNLEEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +F+ T+
Sbjct: 171 E-------QLREEINGSK---------GQKRAKLIKRLRVIDNFVATS 202
>sp|P42078|RPOC_PROSC DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
pir||S20586 DNA-directed RNA polymerase (EC 2.7.7.6) gamma chain - Prochloron
sp. (fragment)
emb|CAA77512.1| (Z11161) Fragment of DNA-dependent RNA polymerase rpoC1 subunit
[Prochloron sp.]
Length = 203
Score = 138 bits (343), Expect = 3e-31
Identities = 63/107 (58%), Positives = 81/107 (74%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + K CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRVRYKGI---VCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+S++RR++MGYIKLA PVTHVWYLK +PSY++ +LD PL+++E +VY
Sbjct: 58 ESKVRRHRMGYIKLAAPVTHVWYLKGIPSYMSIILDMPLRDVEQIVY 104
>gb|AAF73276.1|AF154561_1 (AF154561) RNA polymerase subunit [Synechococcus sp. CC9616]
Length = 204
Score = 137 bits (342), Expect = 4e-31
Identities = 62/107 (57%), Positives = 81/107 (74%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY 104
>gb|AAF24185.1| (AF159373) RpoC1 [Anabaena circinalis]
Length = 203
Score = 137 bits (342), Expect = 4e-31
Identities = 64/107 (59%), Positives = 79/107 (73%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+SR+RR +MG+IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 ESRVRRRRMGFIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 104
>gb|AAF19008.1|AF153335_1 (AF153335) RNA polymerase subunit [Synechococcus sp. WH8113]
gb|AAF19010.1|AF153337_1 (AF153337) RNA polymerase subunit [Synechococcus sp. CC9702]
Length = 204
Score = 137 bits (342), Expect = 4e-31
Identities = 62/107 (57%), Positives = 81/107 (74%), Gaps = 3/107 (2%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY 104
>gb|AAC14137.1| (AF058710) RNA polymerase II largest subunit [Dictyostelium
discoideum]
Length = 757
Score = 137 bits (341), Expect = 5e-31
Identities = 107/382 (28%), Positives = 173/382 (45%), Gaps = 46/382 (12%)
Query: 195 GAGAIREQLVDLDLRIVI------DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVR 248
G G + ++ DL+I++ D S+ + L ER + +D R
Sbjct: 100 GCGNVLPKITKEDLKIIVEFKDVTDGSIEKKSVLSAERVLNILKRIKDEDS--------R 151
Query: 249 RMELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTL 308
M + + R +WM+ +LPV PP +RP I +D D+ ++ N L
Sbjct: 152 AMGINPDWARA----DWMIATVLPVPPPPVRPSIMMDTSTRGEDDLTHKLADIVKANREL 207
Query: 309 IDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHN-KVYKSFSDIIEGKEG 367
P ++ + +Q V T +DN I G P + + KS ++GKEG
Sbjct: 208 --QRQEKNGAPAHIIAEAIQFLQFHVATYVDNEIPGLPQAQQRSGRPLKSIRQRLKGKEG 265
Query: 368 RFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRK 419
R R L+GKRVD+S R+VI P+LS+ + G+PR IA+ L F +R LIR
Sbjct: 266 RIRGNLMGKRVDFSARTVITADPNLSIDQVGVPRSIALNLTYPETVTPFNIDKMRELIRN 325
Query: 420 HFASNIGVAKSKIREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRL 463
+ + G AK IRE +++ + + G ++ NR P+LH++
Sbjct: 326 GPSEHPG-AKYIIREDGTRFDLRFVKKVSDTHLECGYKVERHINDGDVVIFNRQPSLHKM 384
Query: 464 GIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLS 523
+ + ++ L+ V +NADFDGD+M +HVP +LE +AE +M ++S
Sbjct: 385 SMMGHRIKVMPYSTFRLNLSVTSPYNADFDGDEMNLHVPQTLETRAEVIEIMMVPRQIVS 444
Query: 524 PAIGDPIAVPTQDMLIGLYILT 545
P P+ QD L+G + T
Sbjct: 445 PQSNRPVMGIVQDTLLGSRLFT 466
>pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Arabidopsis thaliana
Length = 1834
Score = 135 bits (337), Expect = 2e-30
Identities = 90/306 (29%), Positives = 145/306 (46%), Gaps = 27/306 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM+L +LP+ PP +RP + +D D+ +I N L P +
Sbjct: 243 PDWMILEVLPIPPPPVRPSVMMDATSRSEDDLTHQLAMIIRHNENL--KRQEKNGAPAHI 300
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ +L+Q + T DN + GQP K G + KS ++ KEGR R L+GKRVD
Sbjct: 301 ISEFTQLLQFHIATYFDNELPGQPRATQKSG--RPIKSICSRLKAKEGRIRGNLMGKRVD 358
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL-----FQTFLIRSLIRKHFAS----------- 423
+S R+VI P++++ G+P IA+ L + I L+R F S
Sbjct: 359 FSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLVRLVFISFSETKYIIRDD 418
Query: 424 ----NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
++ K + + +++ + + G +L NR P+LH++ I + ++
Sbjct: 419 GQRLDLRYLKKSSDQHLELGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFR 478
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
L+ V +NADFDGD+M +HVP S E +AE LM ++SP P+ QD L+
Sbjct: 479 LNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLL 538
Query: 540 GLYILT 545
G +T
Sbjct: 539 GCRKIT 544
>emb|CAA37130.1| (X52954) RNA polymerase II [Arabidopsis thaliana]
Length = 1841
Score = 135 bits (337), Expect = 2e-30
Identities = 90/306 (29%), Positives = 145/306 (46%), Gaps = 27/306 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM+L +LP+ PP +RP + +D D+ +I N L P +
Sbjct: 243 PDWMILEVLPIPPPPVRPSVMMDATSRSEDDLTHQLAMIIRHNENL--KRQEKNGAPAHI 300
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ +L+Q + T DN + GQP K G + KS ++ KEGR R L+GKRVD
Sbjct: 301 ISEFTQLLQFHIATYFDNELPGQPRATQKSG--RPIKSICSRLKAKEGRIRGNLMGKRVD 358
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL-----FQTFLIRSLIRKHFAS----------- 423
+S R+VI P++++ G+P IA+ L + I L+R F S
Sbjct: 359 FSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLVRLVFISFSETKYIIRDD 418
Query: 424 ----NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
++ K + + +++ + + G +L NR P+LH++ I + ++
Sbjct: 419 GQRSDLRYLKKSSDQHLELGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFR 478
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
L+ V +NADFDGD+M +HVP S E +AE LM ++SP P+ QD L+
Sbjct: 479 LNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLL 538
Query: 540 GLYILT 545
G +T
Sbjct: 539 GCRKIT 544
>pir||S59956 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Staphylococcus aureus (fragment)
emb|CAA45513.1| (X64172) DNA-directed RNA polymerase beta' chain [Staphylococcus
aureus]
prf||2107219C RNA polymerase:SUBUNIT=beta' [Staphylococcus aureus]
prf||2113202C RNA polymerase:SUBUNIT=beta' [Staphylococcus aureus]
Length = 155
Score = 134 bits (334), Expect = 3e-30
Identities = 69/155 (44%), Positives = 96/155 (61%), Gaps = 16/155 (10%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
MID ++IG SP++I +W+ GEV KP T +Y+T KPEKDGLFCERI
Sbjct: 1 MIDVNNFHYMKIGLASPEKIRSWS---------FGEVKKPETINYRTLKPEKDGLFCERI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP K C+CG Y+ + + + C++CGVE S++RR +MG+I+LA PV+H+WY K
Sbjct: 52 FGPTKDWECSCGKYKRV---RYKGMVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+PS + LLD + LE ++Y FA VV P
Sbjct: 109 GIPSRMGLLLDMSPRALEEVIY----FASYVVVDP 139
>sp|Q55346|RPOC_SYNPW DNA-DIRECTED RNA POLYMERASE GAMMA CHAIN
gb|AAA92725.1| (L34061) RNA polymerase [Synechococcus sp.]
Length = 204
Score = 134 bits (334), Expect = 3e-30
Identities = 87/228 (38%), Positives = 125/228 (54%), Gaps = 29/228 (12%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFV 95
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVT 57
Query: 96 DSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP 155
+SR+RR++MG+IKLA PV+HVWYLK +PSY+A LLD P ++E +VY F VV P
Sbjct: 58 ESRVRRHRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPPADVEQIVY----FNCYVVLDP 113
Query: 156 ---TFLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVI 212
L+ + L + W +A + + GA A+++ L DL L V
Sbjct: 114 GDHKDLKYKQLLTED--EWLEIEDEIYAEDS-EIENEPVVGIGAEALKQLLEDLTLDEVA 170
Query: 213 DSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTN 260
+ +L EE + G+++ L++R+ + +FI TN
Sbjct: 171 E-------QLREEIAGSK---------GQKRAKLIKRLRVIDNFIATN 202
>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 = 133 bits (332), Expect = 6e-30
Identities = 98/306 (32%), Positives = 151/306 (49%), Gaps = 28/306 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ LLPV P +RP I D+ + ++ +NN I L + P
Sbjct: 145 PEWMMITLLPVPPMTVRPSIAFGSVGRAEDDLTKQLSTIV-KNNAQIRKLKLDGAAP--- 200
Query: 323 VMCQEKL--VQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDY 380
+ Q+ L +Q V DN + N+ KS S+ + GKEGR R L+GKRVD+
Sbjct: 201 INIQDTLDVLQINVACFFDNSVPSLEKAKNGNRPIKSLSERLRGKEGRVRGQLMGKRVDF 260
Query: 381 SGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSKI 432
S RSVI P+L+L+ G+PR +A L + +L+R + G AK I
Sbjct: 261 SARSVITPDPTLALNELGVPRTVASNLTVPEMVSPLNIHRLAALVRNGPGTYPG-AKYVI 319
Query: 433 REKE-----------PIV--WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
R+ PIV + I + +M G ++ NR P+LH++ + Q ++ +
Sbjct: 320 RDDGARIALTSRGDMPIVPGYIIERHLMDGDHVVFNRQPSLHKMSMMGHQVRVLPYSSFR 379
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
L+ V +NADFDGD+M +HVP SLEA +E + LM +++P P QD L+
Sbjct: 380 LNLSVTTPYNADFDGDEMNMHVPNSLEAISEVKNLMAVPFQIVTPQKNSPCMGVVQDSLL 439
Query: 540 GLYILT 545
G +++
Sbjct: 440 GCSLIS 445
>prf||1804349D DNA-dependent RNA polymerase [Prochloron sp.]
Length = 204
Score = 133 bits (332), Expect = 6e-30
Identities = 62/109 (56%), Positives = 81/109 (73%), Gaps = 6/109 (5%)
Query: 36 EVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPK--FCEQCGVE 93
EVTKP T +Y+T KPE DGLFCE+IFGP K C CG Y K+ K CE+CGVE
Sbjct: 1 EVTKPETINYRTLKPEMDGLFCEKIFGPAKDWFCHCGKYY----KRVRYKGIVCERCGVE 56
Query: 94 FVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
+S++RR++MG+IKLA PVTHVWYLK +PSY++ +LD PL+++E +VY
Sbjct: 57 VTESKVRRHRMGFIKLAAPVTHVWYLKGIPSYMSIILDMPLRDVEQIVY 105
>gb|AAF63343.1|AF245124_1 (AF245124) RNA polymerase subunit [Synechococcus sp. PS680]
Length = 188
Score = 133 bits (331), Expect = 8e-30
Identities = 73/173 (42%), Positives = 106/173 (61%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQLL 118
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ D ++ GA A+++ L DLDL ++ +
Sbjct: 119 TEDEWLEIEDQIYA-------EDSDIENEPQVGIGAEALKQLLEDLDLPVIAE 164
>gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acanthamoeba
castellanii]
Length = 1569
Score = 132 bits (330), Expect = 1e-29
Identities = 97/356 (27%), Positives = 163/356 (45%), Gaps = 29/356 (8%)
Query: 216 LVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIEPEWMVLCLLPVLP 275
+ E+K +G++ + + KV + LA F P+WM++ ++P+ P
Sbjct: 112 MAEFKNVGDDPNVEKKQLLTAEKVHAILKLISDEDCLAMGFDPKWARPDWMIITIMPIPP 171
Query: 276 PELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVD 335
P +RP I +D D+ +I N L + ++ ++L+Q +
Sbjct: 172 PPVRPSITMDSAARGEDDLTHKLADIIKANANLRK--QEANGAAAHIISQFQELLQYHIA 229
Query: 336 TLLDNGIRGQPMKD--GHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLS 393
T +DN I G P ++ KS + GKEGR R L+GKRVD+S R+VI P++S
Sbjct: 230 TFIDNEIPGFPQATVRSGSRALKSLKQRLRGKEGRIRGNLMGKRVDFSARTVITGDPNIS 289
Query: 394 LHRCGLPREIAIELFQTFLIR--------SLIRKHFASNIGVAKSKIREKEPIV------ 439
+ G+PR IA+ L L+ LIR + G AK IR+ +
Sbjct: 290 IDEVGVPRSIALNLTYPELVTPFNIDKMYELIRNGPTEHPG-AKYIIRDDGQRLDLRFAR 348
Query: 440 ----------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFN 489
+++ + + G I+ NR P+LH++ + + ++ L+ V +N
Sbjct: 349 KASDLHLEYGYKVERHIQDGDVIIFNRQPSLHKMSMMGHKVKIMPYSTFRLNLSVTTPYN 408
Query: 490 ADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
ADFDGD+M +HVP + A+AE LM +++ P+ QD L+G +LT
Sbjct: 409 ADFDGDEMNMHVPQTPGARAEVIELMMVPKQIVTAQSNKPVIGIVQDTLLGGCLLT 464
>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 = 132 bits (330), Expect = 1e-29
Identities = 93/309 (30%), Positives = 150/309 (48%), Gaps = 30/309 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEW++L LLPV PP +R I +D + D+ VI +NNT + L P
Sbjct: 157 PEWLILTLLPVPPPHVRTSIMMDATQRGEDDLTHNLA-VIVKNNTALRNLE-GHGAPAHR 214
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ Q L+Q V T ++N + G P K G + KS S ++GKEGR R L+GKRVD
Sbjct: 215 LAEQIFLLQFHVATYMNNDLPGMPRAAQKSG--RPLKSISQRLKGKEGRLRGNLMGKRVD 272
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIA--------IELFQTFLIRSLIRK------------ 419
+S R+VI P+L L + G+P IA + + ++ L+
Sbjct: 273 FSARTVITPDPNLRLDQVGVPFSIAKNLTFPETVTAYNIEEMQQLVENGPDEYPDAKYIQ 332
Query: 420 ---HFASNIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+ N+ +++ + I +++++ + G I+ NR P+LH++ I + ++
Sbjct: 333 RDDGYQVNLAYVRNRADVQLEIGYKVVRHITNGDFIVFNRQPSLHKMSIMGHRIKVMPYS 392
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ V +NADFDGD+M +HVP + +AE LM ++SP P+ QD
Sbjct: 393 TFRLNLSVTSPYNADFDGDEMNLHVPQTHATRAEVMELMMVPRCIVSPQGNKPVMGIVQD 452
Query: 537 MLIGLYILT 545
L+G + T
Sbjct: 453 TLLGCMLFT 461
>gb|AAK00309.1|AF315819_1 (AF315819) DNA-dependent RNA polymerase II largest subunit RPB1
[Botryocladia uvarioides]
Length = 1712
Score = 132 bits (329), Expect = 1e-29
Identities = 94/310 (30%), Positives = 148/310 (47%), Gaps = 28/310 (9%)
Query: 261 IEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPG 320
+ PE ++L +LPV P ++RP + + GG D+ ++ NN L D+ ++ T
Sbjct: 138 VRPENLILTVLPVPPLQVRPSV-MHGGLRNEDDLTNKLGDIVKNNNMLRDM--EAQGTVA 194
Query: 321 ELVMCQEKLVQEAVDTLLDNGIRG--QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRV 378
L+ Q LVQ V T ++N I G Q G ++ KS +GKEGR R L+GKRV
Sbjct: 195 HLLREQLDLVQYHVATYMNNEIPGVSQATVRGGSRAIKSIGQRFKGKEGRVRGNLMGKRV 254
Query: 379 DYSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFAS------- 423
D+S R+VI P+L LH G+P IA L + +R L+
Sbjct: 255 DFSARTVITPDPNLLLHEVGVPYSIAKNLTFPETVTSYNYAEMRKLVENGPTEYPGAKYI 314
Query: 424 --------NIGVAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
N+ + I +++++ + G +L NR P+LH++ I + ++
Sbjct: 315 ERDDGQKVNLSYVADRTSTNLEIGFKVIRHIKDGDYVLFNRQPSLHKMSIMGHRIRVLPY 374
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +HVP S +AE + LM ++SP P+ Q
Sbjct: 375 STFRLNLSVTSPYNADFDGDEMNLHVPQSHGTRAEVQELMLVPHCIVSPQGNKPVMGIVQ 434
Query: 536 DMLIGLYILT 545
D L+G + T
Sbjct: 435 DTLLGCMLFT 444
>gb|AAF63355.1|AF245136_1 (AF245136) RNA polymerase subunit [Synechococcus sp. PS677]
Length = 192
Score = 132 bits (328), Expect = 2e-29
Identities = 81/214 (37%), Positives = 122/214 (56%), Gaps = 29/214 (13%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 5 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 61
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 62 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQLL 121
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWK 220
E+ EI+ Y+ + + GA A+++ L DLDL +V +
Sbjct: 122 TEDEWLEIEDQIYA-------EDSEIENEPTVGIGAEALKQLLEDLDLPVVAE------- 167
Query: 221 ELGEERSTHNENEWEDRKVGRRKNFLVRRMELAK 254
EL EE + G+++ L++R+ ++K
Sbjct: 168 ELREEIAGSK---------GQKRAKLIKRLRVSK 192
>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 = 132 bits (328), Expect = 2e-29
Identities = 100/353 (28%), Positives = 169/353 (47%), Gaps = 45/353 (12%)
Query: 219 WKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHFIRTNIE---------------- 262
+ E +R H E E E+ K+ + + + +L +R +E
Sbjct: 138 YAEARRDRCPHCEEEQEEIKLDKPVSIVEGDYKLTPSEVRERLERITDNDSLLLGVNPEV 197
Query: 263 --PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPG 320
PEWMVL +LPV P +RP I ++ G+ D+ ++ N L + + P
Sbjct: 198 ARPEWMVLTVLPVPPVTVRPSITLETGERSEDDLTHKLVDILRINQRLKENMEAG--APQ 255
Query: 321 ELVMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+V +L+Q V T DN G P + + K+ + ++GKEGRFR L GKRV+
Sbjct: 256 LIVEDLWELLQYHVTTYFDNEASGVPPARHRSGRPLKTLAQRLKGKEGRFRSNLSGKRVN 315
Query: 380 YSGRSVIVVGPSLSLHRCGLP----REIAIELFQTFLIRSLIRKHFASNIGVAKS----- 430
+S R+V+ P++S++ G+P +E+ + ++ T +++H + V
Sbjct: 316 FSARTVVSPDPNVSVNEVGVPELIAKEVTVPVYVTEWNIDRMKEHIENGPDVHPGANYVI 375
Query: 431 -----KIR---EKEPIVWEILQ-------EVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
KIR E + +V E L+ + G +L NR P+LHR+ + A + ++
Sbjct: 376 RPDGRKIRAYNETKDVVLENLKPGYIVERHLKDGDIVLFNRQPSLHRMSMMAHEVRVLPY 435
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGD 528
+ L+ VC +NADFDGD+M +HV + E++AEA+ LM ++LSP D
Sbjct: 436 KTFRLNLCVCPPYNADFDGDEMNMHVFQTEESRAEAKTLMRVQDHILSPRFRD 488
>gb|AAK00313.1|AF315823_1 (AF315823) DNA-dependent RNA polymerase II largest subunit RPB1
[Stylonychia mytilus]
Length = 1678
Score = 131 bits (327), Expect = 2e-29
Identities = 91/309 (29%), Positives = 153/309 (49%), Gaps = 30/309 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLT--TSRSTPG 320
PE M++ L V PP +RP + + D+ Y++++ N TL + + + +T
Sbjct: 132 PENMIIKNLAVAPPPVRPSVSMSNTMRSEDDLTYCYQKILQTNITLQNQINRGANMTTIN 191
Query: 321 ELVMCQEKLVQEAVDTLLDNGIRGQP-MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
EL +Q V T++DN I+GQP K K K+ + GKEGR R L+GKRVD
Sbjct: 192 EL----RTNLQYYVATVMDNEIQGQPTQKHKSGKPLKAIRARLRGKEGRLRGNLMGKRVD 247
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLI--------RSLIR------------- 418
+S R+VI P+L L + G+P++IA+ L + R LI
Sbjct: 248 FSARTVITPDPNLQLDQLGVPQQIALNLTVPETVTNENIDEMRKLIERGPNIWPGAKYII 307
Query: 419 KHFASNIGVAKSKIREKEPI--VWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGR 476
+H I +++ + R + I +++ + + ++ NR P+LH++ + + ++
Sbjct: 308 RHDDRQIDLSQMRNRSEATIHPGFKVERHLRDNDYVIFNRQPSLHKMSLMGHRVKVLPFS 367
Query: 477 AICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQD 536
L+ V +NADFDGD+M +HVP S E AE + +M ++SP P+ QD
Sbjct: 368 TFRLNLSVTTPYNADFDGDEMNMHVPQSYETMAEIKEIMAVPNQIVSPQSNKPVMGIVQD 427
Query: 537 MLIGLYILT 545
L+G+ + T
Sbjct: 428 SLLGVMLFT 436
>gb|AAF63351.1|AF245132_1 (AF245132) RNA polymerase subunit [Synechococcus sp. PS724]
Length = 193
Score = 131 bits (326), Expect = 3e-29
Identities = 72/173 (41%), Positives = 106/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 7 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 63
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 64 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQLL 123
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L D+DL +V +
Sbjct: 124 TEDEWLEIEDQIYA-------EDSEIENEPQVGIGAEALKQLLEDIDLPVVAE 169
>dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cricetulus griseus]
Length = 1970
Score = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus musculus]
Length = 1966
Score = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>pir||I38186 RNA polymerase II largest subunit - human
emb|CAA52862.1| (X74874) RNA polymerase II largest subunit [Homo sapiens]
Length = 1970
Score = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RPB1)
Length = 1970
Score = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>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 = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>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 = 131 bits (326), Expect = 3e-29
Identities = 90/303 (29%), Positives = 147/303 (47%), Gaps = 32/303 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM++ +LPV P +RP + + G D+ ++ NN L +
Sbjct: 245 PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQL--RRNEQNGAAAHV 302
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ KL+Q V T++DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 303 IAEDVKLLQFHVATMVDNELPGLPRAMQKSG--RPLKSLKQRLKGKEGRVRGNLMGKRVD 360
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+LS+ + G+PR IA + F ++ L+R+ + G AK
Sbjct: 361 FSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPG-AKYI 419
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ + +++ + + G ++ NR PTLH++ + + ++
Sbjct: 420 IRDNGDRIDLRFHPKPSDLHLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPW 479
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE + L +++P P+ Q
Sbjct: 480 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQ 539
Query: 536 DML 538
D L
Sbjct: 540 DTL 542
>gb|AAF63370.1|AF245151_1 (AF245151) RNA polymerase subunit [Synechococcus sp. PS718]
Length = 191
Score = 131 bits (325), Expect = 4e-29
Identities = 74/175 (42%), Positives = 105/175 (59%), Gaps = 13/175 (7%)
Query: 42 TFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRR 101
T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR
Sbjct: 3 TINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRR 59
Query: 102 YQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLR 159
++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +
Sbjct: 60 HRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQ 119
Query: 160 LRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
L E+ EI+ Y+ + + GA A+++ L DLDL +V +
Sbjct: 120 LLTEDEWLEIEDEIYA-------EDSEIENEPTVGIGAEALKQLLEDLDLPVVAE 167
>gb|AAF63360.1|AF245141_1 (AF245141) RNA polymerase subunit [Synechococcus sp. PS719]
Length = 185
Score = 130 bits (324), Expect = 5e-29
Identities = 73/173 (42%), Positives = 105/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPVVAE 163
>gb|AAF63357.1|AF245138_1 (AF245138) RNA polymerase subunit [Synechococcus sp. PS726]
Length = 186
Score = 130 bits (324), Expect = 5e-29
Identities = 73/173 (42%), Positives = 105/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPVVAE 163
>gb|AAF63347.1|AF245128_1 (AF245128) RNA polymerase subunit [Synechococcus sp. PS723]
Length = 187
Score = 130 bits (324), Expect = 5e-29
Identities = 73/173 (42%), Positives = 105/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPVVAE 163
>gb|AAF63345.1|AF245126_1 (AF245126) RNA polymerase subunit [Synechococcus sp. PS717]
gb|AAF63346.1|AF245127_1 (AF245127) RNA polymerase subunit [Synechococcus sp. PS721]
Length = 187
Score = 130 bits (324), Expect = 5e-29
Identities = 73/173 (42%), Positives = 105/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPVVAE 163
>sp|P41185|RPOC_BUCAP DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
pir||S32681 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Buchnera
aphidicola (fragment)
emb|CAA77971.1| (Z11913) beta'subunit of RNA polymerase [Buchnera aphidicola]
Length = 209
Score = 130 bits (323), Expect = 7e-29
Identities = 61/133 (45%), Positives = 85/133 (63%), Gaps = 12/133 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKISLASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE S++RR +MG+I+L+ P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQSKVRRERMGHIELSSPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVY 142
LD PL+++E ++Y
Sbjct: 128 LDMPLRDIERVLY 140
>gb|AAA24582.1| (M38293) RNA polymerase beta subunit (rpoC) (gtg start codon) (EC
2.7.7.6) [Escherichia coli]
emb|CAA23628.1| (V00340) coding sequence [Escherichia coli]
prf||0705170B polymerase beta',RNA [Escherichia coli]
Length = 176
Score = 130 bits (323), Expect = 7e-29
Identities = 61/133 (45%), Positives = 85/133 (63%), Gaps = 12/133 (9%)
Query: 10 LRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGIC 69
++I SP I +W+ GEV KP T +Y+T KPE+DGLFC RIFGP+K C
Sbjct: 20 IKIALASPDMIRSWS---------FGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 70 TCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANL 129
CG Y+ + K CE+CGVE +++RR +MG+I+LA P H+W+LK LPS I L
Sbjct: 71 LCGKYKRL---KHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL 127
Query: 130 LDKPLKELEGLVY 142
LD PL+++E ++Y
Sbjct: 128 LDMPLRDIERVLY 140
>gb|AAF63367.1|AF245148_1 (AF245148) RNA polymerase subunit [Synechococcus sp. PS675]
Length = 190
Score = 129 bits (321), Expect = 1e-28
Identities = 73/173 (42%), Positives = 104/173 (59%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 5 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 61
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 62 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 121
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + + GA A+++ L DLDL +V +
Sbjct: 122 TEDEWLEIEDEIYA-------EDSEIENEPTVGIGAEALKQLLEDLDLPVVAE 167
>gb|AAF63354.1|AF245135_1 (AF245135) RNA polymerase subunit [Synechococcus sp. PS676]
Length = 187
Score = 129 bits (321), Expect = 1e-28
Identities = 73/173 (42%), Positives = 104/173 (59%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + + GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPTVGIGAEALKQLLEDLDLPVVAE 163
>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 = 129 bits (320), Expect = 1e-28
Identities = 90/313 (28%), Positives = 148/313 (46%), Gaps = 35/313 (11%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM+L +LP+ PP +RP + +D D+ +I N L P +
Sbjct: 243 PDWMILEVLPIPPPPVRPSVMMDATSRSEDDLTHQLAMIIRHNENL--KRQEKNGAPAHI 300
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ +L+Q + T DN + GQP K G + KS ++ KEGR R L+GKRVD
Sbjct: 301 ISEFTQLLQFHIATYFDNELPGQPRATQKSG--RPIKSICSRLKAKEGRIRGNLMGKRVD 358
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLI------------RK 419
+S R+VI P++++ G+P IA+ L + ++ L+ K
Sbjct: 359 FSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLKELVDYGPHPPPGKTGAK 418
Query: 420 HFASNIG-------VAKSKIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPIL 472
+ + G + KS + E + +++ + + G +L NR P+LH++ I + +
Sbjct: 419 YIIRDDGQRLDLRYLKKSSDQHLE-LGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRI 477
Query: 473 VEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAV 532
+ L+ V +NADFDGD+M +HVP S E +AE LM ++SP P+
Sbjct: 478 MPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMG 537
Query: 533 PTQDMLIGLYILT 545
QD L+G +T
Sbjct: 538 IVQDTLLGCRKIT 550
>gb|AAA21417.1| (L27989) RNA polymerase beta'-subunit [Mycobacterium tuberculosis]
Length = 148
Score = 129 bits (320), Expect = 1e-28
Identities = 64/142 (45%), Positives = 88/142 (61%), Gaps = 12/142 (8%)
Query: 1 MIDQYKHQQLRIGSVSPQQISAWATKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60
M+D +LRIG + + I W+ GEV KP T +Y+T KPEKDGLFCE+I
Sbjct: 1 MLDVNFFDELRIGLATAEDIRQWS---------YGEVKKPETINYRTLKPEKDGLFCEKI 51
Query: 61 FGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLK 120
FGP + C CG Y+ + K CE+CGVE +++RR +MG+I+LA PVTH+WY K
Sbjct: 52 FGPTRDWECYCGKYKRVRFKGI---ICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFK 108
Query: 121 RLPSYIANLLDKPLKELEGLVY 142
+PS + LLD K+LE ++Y
Sbjct: 109 GVPSRLGYLLDLAPKDLEKIIY 130
>gb|AAF63364.1|AF245145_1 (AF245145) RNA polymerase subunit [Synechococcus sp. PS716]
Length = 187
Score = 128 bits (319), Expect = 2e-28
Identities = 72/170 (42%), Positives = 103/170 (60%), Gaps = 13/170 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRI 210
E+ EI+ Y+ + ++ GA A+++ L DLDL +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPV 160
>gb|AAF63363.1|AF245144_1 (AF245144) RNA polymerase subunit [Synechococcus sp. PS714]
Length = 187
Score = 128 bits (319), Expect = 2e-28
Identities = 73/170 (42%), Positives = 102/170 (59%), Gaps = 13/170 (7%)
Query: 42 TFHYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRR 101
T +Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR
Sbjct: 1 TINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRR 57
Query: 102 YQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLR 159
++MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +
Sbjct: 58 HRMGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQ 117
Query: 160 LRGLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
L E+ EI+ Y+ D + GA A+++ L DL+L
Sbjct: 118 LLTEDEWLEIEDQIYA-------EDSDIENEPVVGIGAEALKQLLEDLEL 160
>gb|AAF63359.1|AF245140_1 (AF245140) RNA polymerase subunit [Synechococcus sp. PS683]
Length = 187
Score = 128 bits (319), Expect = 2e-28
Identities = 72/168 (42%), Positives = 103/168 (60%), Gaps = 13/168 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLEKGDHKDLTYKQLL 118
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
E+ EI+ Y+ + + GA A+++ LVDL+L
Sbjct: 119 TEDEWLEIEDQIYA-------EDSEIENEPIVGIGAEALKQLLVDLNL 159
>gb|AAF63356.1|AF245137_1 (AF245137) RNA polymerase subunit [Synechococcus sp. PS678]
Length = 191
Score = 128 bits (319), Expect = 2e-28
Identities = 72/173 (41%), Positives = 104/173 (59%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 5 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 61
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K + +L
Sbjct: 62 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLAYKQLL 121
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + ++ GA A+++ L DLDL +V +
Sbjct: 122 TEDEWLEIEDEIYA-------EDSEIENEPQVGIGAEALKQLLEDLDLPVVAE 167
>gb|AAF63349.1|AF245130_1 (AF245130) RNA polymerase subunit [Synechococcus sp. PS673]
Length = 189
Score = 128 bits (319), Expect = 2e-28
Identities = 72/173 (41%), Positives = 104/173 (59%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 5 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 61
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 62 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 121
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + + GA A+++ L DLD+ +V +
Sbjct: 122 TEDEWLEIEDEIYA-------EDSEIENEPTVGIGAEALKQLLEDLDMPVVAE 167
>gb|AAK00312.1|AF315822_1 (AF315822) DNA-dependent RNA polymerase II largest subunit RPB1
[Monoblepharis macrandra]
Length = 1603
Score = 128 bits (318), Expect = 3e-28
Identities = 93/311 (29%), Positives = 146/311 (46%), Gaps = 41/311 (13%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRST---- 318
PEWM++ +LPV PP++RP + DG L S D + Y+ L D+L + S
Sbjct: 166 PEWMIITVLPVPPPQVRPSVVGDGTGLRSQD------DLTYK---LADILKANASLKRHE 216
Query: 319 ----PGELVMCQEKLVQEAVDTLLDNGIRGQPM-KDGHNKVYKSFSDIIEGKEGRFRETL 373
P +V L+Q V T++DN I G P+ + + K ++GKEGR R L
Sbjct: 217 QDGGPTHVVNEFWDLLQYHVATMMDNQISGLPVAQQKGGRPIKGIRQRLKGKEGRLRGNL 276
Query: 374 LGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSK-- 431
+GKRVD+S R+VI P++S+ G+PR I L ++ R H + ++
Sbjct: 277 MGKRVDFSARTVITGDPNISIDEVGVPRSICRNLTFPEIVNDYNRDHLQKLVANGTNEYP 336
Query: 432 -----IREKEPIVW----------------EILQEVMRGHPILLNRAPTLHRLGIQAFQP 470
IR IV + + ++ G I+ NR P+LH++ + +
Sbjct: 337 GANRVIRANGDIVSLKHTAGSGETLLNIGDRVERHLVDGDYIIFNRQPSLHKMSMMGHKV 396
Query: 471 ILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPI 530
++ L+ V +NADFDGD+M +H P S E +AE +M ++SP P+
Sbjct: 397 RVMPFSTFRLNLSVTSPYNADFDGDEMNLHAPQSYETRAEIMEIMRVPRQIISPKHNQPV 456
Query: 531 AVPTQDMLIGL 541
QD L G+
Sbjct: 457 MGIVQDTLCGI 467
>gb|AAF63378.1|AF245159_1 (AF245159) RNA polymerase subunit [Synechococcus sp. PCC 7943]
Length = 186
Score = 128 bits (318), Expect = 3e-28
Identities = 73/168 (43%), Positives = 100/168 (59%), Gaps = 14/168 (8%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP---TFLRL 160
MG+IKLA PV HVWYLK +PSYIA LLD PL+++E +VY F VV P + L+
Sbjct: 58 MGFIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY----FNSYVVLNPGNHSELQY 113
Query: 161 RGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
+ L + W +A E+ GA A+++ L DL+L
Sbjct: 114 KQLLNED--QWMEIEDQIYAEE--SDLEGIEVGIGAEALQQLLQDLNL 157
>gb|AAF63376.1|AF245157_1 (AF245157) RNA polymerase subunit [Synechococcus sp. PCC 7918]
Length = 186
Score = 127 bits (317), Expect = 3e-28
Identities = 74/167 (44%), Positives = 101/167 (60%), Gaps = 11/167 (6%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQL- 117
Query: 162 GLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
L E E W FA + + GA A+++ L DLDL
Sbjct: 118 -LTEDE---WLEIEDQIFARDS-EIENEPMVGIGAEALKQLLEDLDL 159
>gb|AAF63374.1|AF245155_1 (AF245155) RNA polymerase subunit [Synechococcus sp. PCC 7009]
Length = 190
Score = 127 bits (317), Expect = 3e-28
Identities = 74/167 (44%), Positives = 101/167 (60%), Gaps = 11/167 (6%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQL- 117
Query: 162 GLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
L E E W FA + + GA A+++ L DLDL
Sbjct: 118 -LTEDE---WLEIEDQIFAEDS-EIENEPMVGIGAEALKQLLEDLDL 159
>gb|AAF63373.1|AF245154_1 (AF245154) RNA polymerase subunit [Synechococcus sp. PCC 6904]
Length = 188
Score = 127 bits (317), Expect = 3e-28
Identities = 74/167 (44%), Positives = 101/167 (60%), Gaps = 11/167 (6%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQL- 117
Query: 162 GLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
L E E W FA + + GA A+++ L DLDL
Sbjct: 118 -LTEDE---WLEIEDQIFAEDS-EIENEPMVGIGAEALKQLLEDLDL 159
>gb|AAF63353.1|AF245134_1 (AF245134) RNA polymerase subunit [Synechococcus sp. PS674]
Length = 187
Score = 127 bits (316), Expect = 4e-28
Identities = 71/173 (41%), Positives = 104/173 (60%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE++FGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKMFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDAGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + + GA A+++ L DLD+ +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPTVGIGAEALKQLLEDLDMPVVAE 163
>gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Trypanosoma brucei]
Length = 1765
Score = 127 bits (316), Expect = 4e-28
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 240 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 295
Query: 323 VMCQEKLVQEAVDTLLDNG-IRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 296 IDRSRALLQEHVATYFNNASTHYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 355
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 356 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTINKKRLTEFARRTVYPSANYIHHPNG 415
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 416 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRL 475
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 476 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 535
Query: 541 LYILT 545
Y LT
Sbjct: 536 SYRLT 540
>pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypanosoma brucei
Length = 1765
Score = 127 bits (316), Expect = 4e-28
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 240 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 295
Query: 323 VMCQEKLVQEAVDTLLDNG-IRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 296 IDRSRALLQEHVATYFNNASTHYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 355
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 356 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTINKKRLTEFARRTVYPSANYIHHPNG 415
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 416 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRL 475
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 476 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 535
Query: 541 LYILT 545
Y LT
Sbjct: 536 SYRLT 540
>gb|AAF63344.1|AF245125_1 (AF245125) RNA polymerase subunit [Synechococcus sp. PS715]
Length = 188
Score = 127 bits (315), Expect = 6e-28
Identities = 80/212 (37%), Positives = 119/212 (55%), Gaps = 27/212 (12%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQL- 117
Query: 162 GLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKE 221
L E E W FA + + GA A+++ L D+DL KE
Sbjct: 118 -LTEDE---WLEIEDQIFAEDS-EIENEPIVGIGAEALKQLLEDIDLE----------KE 162
Query: 222 LGEERSTHNENEWEDRKVGRRKNFLVRRMELA 253
+ R N ++ G+++ L++R+ ++
Sbjct: 163 AEQLREDINNSK------GQKRAKLIKRLRVS 188
>gb|AAF63377.1|AF245158_1 (AF245158) RNA polymerase subunit [Synechococcus sp. PCC 7920]
Length = 186
Score = 126 bits (314), Expect = 8e-28
Identities = 73/167 (43%), Positives = 101/167 (59%), Gaps = 11/167 (6%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C + K T+ +L
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDKGDHKDLTYKQL- 117
Query: 162 GLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
L E E W FA + + GA A+++ L D+DL
Sbjct: 118 -LTEDE---WLEIEDQIFAEDS-EIENEPIVGIGAEALKQLLEDIDL 159
>gb|AAF63366.1|AF245147_1 (AF245147) RNA polymerase subunit [Synechococcus sp. PS729]
Length = 188
Score = 126 bits (314), Expect = 8e-28
Identities = 73/168 (43%), Positives = 101/168 (59%), Gaps = 13/168 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP---TFLRL 160
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV +P L+
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLEPGDHKGLKY 114
Query: 161 RGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
+ L + W FA + E+ GA A++ L DL+L
Sbjct: 115 KQLLTED--EWLEIEDEIFAEDS-EIENEPEVGIGAEALKRLLEDLNL 159
>gb|AAF63365.1|AF245146_1 (AF245146) RNA polymerase subunit [Synechococcus sp. PS720]
Length = 187
Score = 126 bits (314), Expect = 8e-28
Identities = 72/168 (42%), Positives = 101/168 (59%), Gaps = 13/168 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
E+ EI+ Y+ D + GA A+++ L DL+L
Sbjct: 118 TEDEWLEIEDQIYA-------EDSDIENEPVVGIGAEALKQLLEDLEL 158
>gb|AAF63362.1|AF245143_1 (AF245143) RNA polymerase subunit [Synechococcus sp. PS727]
Length = 188
Score = 126 bits (314), Expect = 8e-28
Identities = 73/168 (43%), Positives = 101/168 (59%), Gaps = 13/168 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 2 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 58
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP---TFLRL 160
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY F VV +P L+
Sbjct: 59 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY----FNCYVVLEPGDHKGLKY 114
Query: 161 RGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
+ L + W FA + E+ GA A++ L DL+L
Sbjct: 115 KQLLTED--EWLEIEDEIFAEDS-EIENEPEVGIGAEALKRLLEDLNL 159
>gb|AAF63352.1|AF245133_1 (AF245133) RNA polymerase subunit [Synechococcus sp. PS728]
gb|AAF63368.1|AF245149_1 (AF245149) RNA polymerase subunit [Synechococcus sp. PS679]
gb|AAF63369.1|AF245150_1 (AF245150) RNA polymerase subunit [Synechococcus sp. PS684]
Length = 191
Score = 126 bits (314), Expect = 8e-28
Identities = 72/168 (42%), Positives = 101/168 (59%), Gaps = 13/168 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 5 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 61
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 62 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQLL 121
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
E+ EI+ Y+ D + GA A+++ L DL+L
Sbjct: 122 TEDEWLEIEDQIYA-------EDSDIENEPVVGIGAEALKQLLEDLEL 162
>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 = 126 bits (314), Expect = 8e-28
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 241 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 296
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 297 IDRSRALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 356
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 357 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTINKKRLTEFARRTVYPSANYIHHPNG 416
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 417 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRL 476
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 477 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 536
Query: 541 LYILT 545
Y LT
Sbjct: 537 SYRLT 541
>gb|AAF63379.1|AF245160_1 (AF245160) RNA polymerase subunit [Synechococcus sp. PCC 9005]
Length = 187
Score = 126 bits (313), Expect = 1e-27
Identities = 56/99 (56%), Positives = 75/99 (75%), Gaps = 3/99 (3%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY 96
>gb|AAF63361.1|AF245142_1 (AF245142) RNA polymerase subunit [Synechococcus sp. PS725]
Length = 192
Score = 126 bits (313), Expect = 1e-27
Identities = 56/99 (56%), Positives = 75/99 (75%), Gaps = 3/99 (3%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 3 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 59
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY
Sbjct: 60 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY 98
>gb|AAF63358.1|AF245139_1 (AF245139) RNA polymerase subunit [Synechococcus sp. PS681]
Length = 187
Score = 126 bits (313), Expect = 1e-27
Identities = 56/99 (56%), Positives = 75/99 (75%), Gaps = 3/99 (3%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVY 96
>gb|AAF63350.1|AF245131_1 (AF245131) RNA polymerase subunit [Synechococcus sp. PS722]
Length = 188
Score = 126 bits (313), Expect = 1e-27
Identities = 73/171 (42%), Positives = 102/171 (58%), Gaps = 13/171 (7%)
Query: 46 KTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMG 105
+T KPE DGLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++MG
Sbjct: 4 RTLKPEMDGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMG 60
Query: 106 YIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLRGL 163
+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 61 FIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQLLTE 120
Query: 164 FEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ D + GA A+++ L DLDL+ + D
Sbjct: 121 DEWLEIEDQIYA-------EDSDIENEPVVGIGAEALKQLLEDLDLQEIGD 164
>gb|AAF63348.1|AF245129_1 (AF245129) RNA polymerase subunit [Synechococcus sp. PS672]
Length = 187
Score = 126 bits (313), Expect = 1e-27
Identities = 72/173 (41%), Positives = 103/173 (58%), Gaps = 13/173 (7%)
Query: 44 HYKTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQ 103
+Y+T KPE GLFCE+IFGP K C CG Y+ + + CE+CGVE +SR+RR++
Sbjct: 1 NYRTLKPEMGGLFCEKIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHR 57
Query: 104 MGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY--CDFSFARPVVKKPTFLRLR 161
MG+IKLA PV+HVWYLK +PSY+A LLD PL+++E +VY C K T+ +L
Sbjct: 58 MGFIKLAAPVSHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGDHKDLTYKQLL 117
Query: 162 GLFEY-EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVID 213
E+ EI+ Y+ + + GA A+++ L DLDL +V +
Sbjct: 118 TEDEWLEIEDEIYA-------EDSEIENEPAVGIGAEALKQLLEDLDLPVVAE 163
>gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Trypanosoma brucei]
Length = 1765
Score = 126 bits (313), Expect = 1e-27
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 240 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 295
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 296 IDRSRALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 355
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 356 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTVNKKRLTEFARRTVYPSANYIHHPNG 415
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 416 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRL 475
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 476 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 535
Query: 541 LYILT 545
Y LT
Sbjct: 536 SYRLT 540
>pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypanosoma brucei
Length = 1765
Score = 126 bits (313), Expect = 1e-27
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 240 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 295
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 296 IDRSRALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 355
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 356 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTVNKKRLTEFARRTVYPSANYIHHPNG 415
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 416 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRL 475
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 476 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 535
Query: 541 LYILT 545
Y LT
Sbjct: 536 SYRLT 540
>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 = 125 bits (312), Expect = 1e-27
Identities = 134/528 (25%), Positives = 225/528 (42%), Gaps = 86/528 (16%)
Query: 73 NYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDK 132
++R+ +KD P CE CG D + Y GYI L P HV Y + + + +
Sbjct: 57 DHRMGTSEKDRP--CETCGKNLADC-LGHY--GYIDLELPCFHVGYFRAVIGILQMICKT 111
Query: 133 ----PLKELEGLVYCDFSFARPVVKKP--TFLRLRGLFEYEIQSWKYSIPLFFATHGFDT 186
L + E + D+ +K+P T+L+ RGL + K S D
Sbjct: 112 CCHIMLSQEEKKQFLDY------LKRPGLTYLQKRGLKK------KIS----------DK 149
Query: 187 FRNREISSGAGAIREQLVDLDL-----------RIVIDSSLVEWKELGEERSTHNENEWE 235
R + I GA + L + V+D + + + E HN+
Sbjct: 150 CRKKNICHHCGAFNGTVKKCGLLKIIHEKYKTNKKVVDPIVSNFLQSFETAIEHNKEV-- 207
Query: 236 DRKVGRRKNFL--VRRMELAKHFIRTNI----------EPEWMVLCLLPVLPPELRPIIQ 283
+ +GR + L + + L K ++ +P ++L L V P RP +
Sbjct: 208 EPLLGRAQENLNPLVVLNLFKRIPAEDVPLLLMNPEAGKPSDLILTRLLVPPLCFRPSVV 267
Query: 284 ID-GGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGI 342
D D+ +I+ N+ + + T +++M +Q +++ +
Sbjct: 268 SDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISGAKT--QMIMEDWDFLQLQCALYINSEL 325
Query: 343 RGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPRE 402
G P+ K + F ++GK+GRFR L GKRVD+SGR+VI P+L + +P
Sbjct: 326 SGIPLNMAPKKWTRGFVQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNLRIDEVAVPVH 385
Query: 403 IA--------IELFQTFLIRSLIRK----HFASNIGVAKS-------KIREKEPIVWEIL 443
+A + +R L++ H +N + K +E + E+
Sbjct: 386 VAKILTFPEKVNKANINFLRKLVQNGPEVHPGANFIQQRHTQMKRFLKYGNREKMAQELK 445
Query: 444 ------QEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQM 497
+ ++ G +L NR P+LH+L I A + R + VC +NADFDGD+M
Sbjct: 446 YGDIVERHLIDGDVVLFNRQPSLHKLSIMAHLARVKPHRTFRFNECVCTPYNADFDGDEM 505
Query: 498 AIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
+H+P + EA+AEA +LM + NL++P G+P+ QD L G Y+LT
Sbjct: 506 NLHLPQTEEAKAEALVLMGTKANLVTPRNGEPLIAAIQDFLTGAYLLT 553
>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 = 125 bits (312), Expect = 1e-27
Identities = 91/305 (29%), Positives = 142/305 (45%), Gaps = 26/305 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P +VL +LPV PP++RP I GG ++ ++ RNN L S
Sbjct: 241 PRDLVLTVLPVPPPQVRPAISF-GGLRSDDELTHQIMSIVKRNN---QLRRDKESDVQAA 296
Query: 323 VMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
+ L+QE V T +N +P K K KS ++ ++GK GR R L+GKRVD+S
Sbjct: 297 IDRSRALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFS 356
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRK-----------------HFASN 424
R+VI P++ + G+P +A+ L + ++ +K H +
Sbjct: 357 ARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNTVNKKRLTEFARRTVYPSANYIHHPNG 416
Query: 425 IGVAKSKIREKEPIVWEI----LQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICL 480
+ +R++ + I + V+ G +L NR PTLHR+ + + ++ L
Sbjct: 417 TITKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYSTFRL 476
Query: 481 HPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIG 540
+ +NADFDGD+M +HVP SL +AE +M N +SP P QD L+G
Sbjct: 477 NLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLG 536
Query: 541 LYILT 545
Y LT
Sbjct: 537 SYRLT 541
>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 = 125 bits (311), Expect = 2e-27
Identities = 89/306 (29%), Positives = 142/306 (46%), Gaps = 28/306 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+ +LPV P +RP + G D+ +I N L + +
Sbjct: 239 PEWMICTVLPVPPLAVRPAVVTFGSAKNQDDLTHKLSDIIKTNQQL--QRNEANGAAAHV 296
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ +L+Q V TL+DN I G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 297 LTDDVRLLQFHVATLVDNCIPGLPTATQKGG--RPLKSIKQRLKGKEGRIRGNLMGKRVD 354
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + G+PR IA L F ++ L+ + G ++
Sbjct: 355 FSARTVITADPNLPIDTVGVPRTIAQNLTFPEIVTPFNVDKLQELVNRGDTQYPGAKENG 414
Query: 432 IR------------EKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
R +P + + + + G I+ NR PTLH++ + + ++
Sbjct: 415 ARVDLRYHPRAADLHLQP-GYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFR 473
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
++ V +NADFDGD+M +H+P SLE +AE + L++P P+ QD L
Sbjct: 474 MNLSVTSPYNADFDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLC 533
Query: 540 GLYILT 545
+ ++T
Sbjct: 534 AVRMMT 539
>pir||T34157 hypothetical protein C42D4.8 - Caenorhabditis elegans
gb|AAA83341.1| (U41991) coded for by C. elegans cDNA yk1b8.5; coded for by C.
elegans cDNA yk34b10.5; coded for by C. elegans cDNA
yk12b5.5; coded for by C. elegans cDNA yk2e2.5; coded
for by C. elegans cDNA CEESM18R; coded for by C. elegans
cDNA yk14f4.3; coded for >
Length = 1388
Score = 125 bits (311), Expect = 2e-27
Identities = 129/505 (25%), Positives = 219/505 (42%), Gaps = 71/505 (14%)
Query: 87 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 146
C CG+ D GY L PV H+ + K LL K ++
Sbjct: 70 CSTCGLGLTDCV---GHFGYFDLDVPVFHIGFFK----LTIQLLQCICKNCSSILLTPEQ 122
Query: 147 ---FARPVVKKPT-FLRLRGLFEYEIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQ 202
F+R V+ +L + L + + + K +T +N + GA+
Sbjct: 123 HRVFSRQVMNPNLDYLHRKALHKRIVAACKKG-----STCSHCGLKNGTVKKAVGAV--- 174
Query: 203 LVDLDLRIVIDSSLVEWKELGEERSTHNENEWEDRKVGRRKNFLVRRMELAKHF------ 256
L+I +S V ELG+ + + N+ V + K L+ + + K F
Sbjct: 175 -----LKIAF-ASPVSVDELGKFATMFSSNQEVGDHVRKMKFTLLNPLFVQKLFSNIKEG 228
Query: 257 ------IRTNIE--PEWMVLCLLPVLPPELRPII--QIDGGKLMSSDINELYRRVIYRNN 306
+R+ E P ++L +PV P +RP + ++ G D+ ++ N+
Sbjct: 229 DIPVLMVRSGEEKHPNDLLLTRMPVPPVCIRPSVVSEVKAGTT-EDDVTMKLMEIMLTND 287
Query: 307 TLIDLLTTSRSTPGELVMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKE 366
L P + + + +Q +++ + G P + ++F+ ++GK+
Sbjct: 288 VLKK--HKRDGAPSKTLFETWEHLQIQCALYINSEMSGLPPDMQPKRAMRAFTQRLKGKQ 345
Query: 367 GRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIEL-FQTFLIRSLIRK------ 419
GRFR L GKRVD+SGR+VI P+L + + G+P +A+ L F + S I K
Sbjct: 346 GRFRGNLCGKRVDFSGRTVISPDPNLRIDQVGVPIHVAMTLTFPEIVNASNIEKMRQLVI 405
Query: 420 -----HFASNIGVAKSKIREKEPIVW----EILQEVMRGHPI----------LLNRAPTL 460
H +N V K K K+ + + E+ + + G I L NR P+L
Sbjct: 406 NGSDVHPGANYLVEK-KTGNKKLLKYGKRDELAKNLRMGDTIERHLDDNDVVLFNRQPSL 464
Query: 461 HRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTN 520
H++ I + + ++ GR + C +NADFDGD+M +H+P + EA+AEA LM N
Sbjct: 465 HKISIMSHRAKVMPGRTFRFNECACTPYNADFDGDEMNLHLPQTYEAKAEASELMNVKNN 524
Query: 521 LLSPAIGDPIAVPTQDMLIGLYILT 545
L++P G+P+ QD + G Y+LT
Sbjct: 525 LITPRSGEPLVAAIQDFITGGYLLT 549
>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 = 125 bits (311), Expect = 2e-27
Identities = 89/306 (29%), Positives = 142/306 (46%), Gaps = 28/306 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PEWM+ +LPV P +RP + G D+ +I N L + +
Sbjct: 239 PEWMICTVLPVPPLAVRPAVVTFGSAKNQDDLTHKLSDIIKTNQQL--QRNEANGAAAHV 296
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ +L+Q V TL+DN I G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 297 LTDDVRLLQFHVATLVDNCIPGLPTATQKGG--RPLKSIKQRLKGKEGRIRGNLMGKRVD 354
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + G+PR IA L F ++ L+ + G ++
Sbjct: 355 FSARTVITADPNLPIDTVGVPRTIAQNLTFPEIVTPFNVDKLQELVNRGDTQYPGAKENG 414
Query: 432 IR------------EKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAIC 479
R +P + + + + G I+ NR PTLH++ + + ++
Sbjct: 415 ARVDLRYHPRAADLHLQP-GYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFR 473
Query: 480 LHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLI 539
++ V +NADFDGD+M +H+P SLE +AE + L++P P+ QD L
Sbjct: 474 MNLSVTSPYNADFDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLC 533
Query: 540 GLYILT 545
+ ++T
Sbjct: 534 AVRMMT 539
>gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melanogaster]
Length = 1887
Score = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 237 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 295 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 352
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 353 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 411
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 412 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 471
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 472 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 531
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 532 DTLTAVRKMT 541
>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 = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 237 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 295 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 352
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 353 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 411
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 412 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 471
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 472 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 531
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 532 DTLTAVRKMT 541
>emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase II complex
[Drosophila pseudoobscura]
Length = 1811
Score = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 159 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 216
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 217 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 274
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 275 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 333
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 334 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 393
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 394 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 453
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 454 DTLTAVRKMT 463
>emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase II complex
[Drosophila guanche]
Length = 1889
Score = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 237 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 295 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 352
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 353 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 411
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 412 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 471
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 472 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 531
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 532 DTLTAVRKMT 541
>emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase II complex
[Drosophila madeirensis]
Length = 1889
Score = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 237 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 295 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 352
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 353 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 411
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 412 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 471
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 472 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 531
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 532 DTLTAVRKMT 541
>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 = 125 bits (310), Expect = 2e-27
Identities = 86/310 (27%), Positives = 148/310 (47%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ +LPV P +RP + + G D+ +I NN L + +
Sbjct: 237 PDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRK--NEASGAAAHV 294
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V TL+DN + G P K G K K+ ++GKEGR R L+GKRVD
Sbjct: 295 IQENIKMLQFHVATLVDNDMPGMPRAMQKSG--KPLKAIKARLKGKEGRIRGNLMGKRVD 352
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA L F ++ L+R+ + G AK
Sbjct: 353 FSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPG-AKYI 411
Query: 432 IREKEPIV----------------WEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
+R+ + +++ + + ++ NR PTLH++ + + ++
Sbjct: 412 VRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPW 471
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
++ +NADFDGD+M +HVP S+E +AE + + +++P P+ Q
Sbjct: 472 STFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQ 531
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 532 DTLTAVRKMT 541
>dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II largest chain
[Arabidopsis thaliana]
Length = 1383
Score = 124 bits (308), Expect = 4e-27
Identities = 128/535 (23%), Positives = 227/535 (41%), Gaps = 74/535 (13%)
Query: 49 KPEKDGLFCERIFGPIKSGICTC--GNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
KP ++GL R+ P K ICT GN+ + C + GY
Sbjct: 55 KPYENGLLDPRMGPPNKKSICTTCEGNF-------------QNCPGHY----------GY 91
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKPTFLRLRGLFEY 166
+KL PV +V Y ++I ++L K ++ D ++K R+ L +
Sbjct: 92 LKLDLPVYNVGYF----NFILDILKCICKRCSNMLL-DEKLYEDHLRKMRNPRMEPLKKT 146
Query: 167 EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDLRIVIDSSLVEWKELGEER 226
E+ A+ T + +G +++ + I D S + E+ E +
Sbjct: 147 ELAKAVVKKCSTMASQRIITCKKCGYLNGM--VKKIAAQFGIGISHDRSKIHGGEIDECK 204
Query: 227 STHNENEWEDRKVGRRKNFLVRRMELAK---------HFIRTNIEPEWMVLCLLPVLPPE 277
S + + + L + L + PE +++ + V P
Sbjct: 205 SAISHTKQSTAAINPLTYVLDPNLVLGLFKRMSDKDCELLYIAYRPENLIITCMLVPPLS 264
Query: 278 LRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGELVMCQEKLVQEAVDTL 337
+RP + I G + +D+ +++I N +L +L+ S+P + + VQ V
Sbjct: 265 IRPSVMIGGIQSNENDLTARLKQIILGNASLHKILSQPTSSPKNMQVWDT--VQIEVARY 322
Query: 338 LDNGIRG---QPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSGRSVIVVGPSLSL 394
+++ +RG QP + + + + ++GK GRFR L GKRV+++GR+VI P+L +
Sbjct: 323 INSEVRGCQNQPEEHPLSGILQR----LKGKGGRFRANLSGKRVEFTGRTVISPDPNLKI 378
Query: 395 HRCGLPREIA-IELFQTFLIRSLIRK-----------------------HFASNIGVAKS 430
G+P +A I F + R I K + +G +
Sbjct: 379 TEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPGARNVRYPDGSSRTLVGDYRK 438
Query: 431 KIREKEPIVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNA 490
+I ++ I + + + G +L NR P+LHR+ I + ++ R + + VC +NA
Sbjct: 439 RIADELAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNA 498
Query: 491 DFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDMLIGLYILT 545
DFDGD+M +HVP + EA+ EA LM NL +P G+ + TQD L +++T
Sbjct: 499 DFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEILVASTQDFLTSSFLIT 553
>gb|AAG15526.1| (AF199432) DNA dependent RNA polymerase [Anabaena sp. ANA238C]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAG15523.1| (AF199429) DNA dependent RNA polymerase [Anabaena flos-aquae]
gb|AAG15524.1| (AF199430) DNA dependent RNA polymerase [Anabaena aphanizomeniodes]
gb|AAG15525.1| (AF199431) DNA dependent RNA polymerase [Aphanizomenon gracile]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAG15522.1| (AF199428) DNA dependent RNA polymerase [Anabaena pertubarta]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAG15520.1| (AF199426) DNA dependent RNA polymerase [Anabaena solitaria]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAG15519.1| (AF199425) DNA dependent RNA polymerase [Anabaena circinalis]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAG15517.1| (AF199423) DNA dependent RNA polymerase [Anabaena circinalis]
gb|AAG15518.1| (AF199424) DNA dependent RNA polymerase [Anabaena circinalis]
Length = 180
Score = 123 bits (307), Expect = 5e-27
Identities = 57/96 (59%), Positives = 71/96 (73%), Gaps = 3/96 (3%)
Query: 47 TNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGY 106
T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG+
Sbjct: 1 TLKPEMDGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGF 57
Query: 107 IKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
IKLA PV HVWYLK +PSYIA LLD PL+++E +VY
Sbjct: 58 IKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVY 93
>gb|AAF63375.1|AF245156_1 (AF245156) RNA polymerase subunit [Synechococcus sp. PCC 7902]
Length = 208
Score = 123 bits (307), Expect = 5e-27
Identities = 56/97 (57%), Positives = 72/97 (73%), Gaps = 3/97 (3%)
Query: 46 KTNKPEKDGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMG 105
+T KPE DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MG
Sbjct: 2 RTLKPEMDGLFCERIFGPSKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMG 58
Query: 106 YIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVY 142
YIKLA PV HVWYLK +PSY++ LLD PL+++E +VY
Sbjct: 59 YIKLAAPVVHVWYLKGIPSYLSILLDMPLRDVEQIVY 95
>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 = 123 bits (305), Expect = 9e-27
Identities = 89/308 (28%), Positives = 151/308 (48%), Gaps = 28/308 (9%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
PE ++ +P P +RP + +G D+ +I+ ++ + L S+ TP
Sbjct: 243 PENLLWRYVPAPPVCIRPSVAQEGATT-EDDLTVKITEIIWTSSLIRAAL--SKGTPISN 299
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQPMKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVDYSG 382
+M Q + +Q ++ +++ + G D +K + F ++GK+GRFR L GKRVD+SG
Sbjct: 300 LMEQWEFMQLSIAMYINSEMPGLRPSDMPSKPIRGFCQRLKGKQGRFRGNLSGKRVDFSG 359
Query: 383 RSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFAS------NIGVAKSKIREKE 436
R+VI P+L + + +P IA L + + +KH ++ + + ++E
Sbjct: 360 RTVISPDPNLRIDQVAVPYRIAKILTFPERVTTQNKKHLQDCIRNGPDVHPGANYVIDRE 419
Query: 437 PIVWEILQ--------------EVMRGH-----PILLNRAPTLHRLGIQAFQPILVEGRA 477
L+ +++ H +L NR P+LH+L I A + R
Sbjct: 420 SGFKRFLRFGNRNRIADDLKIGDIVERHLHDNDVVLFNRQPSLHKLSIMAHLVKVRPWRT 479
Query: 478 ICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDM 537
+ + VC +NADFDGD+M +HVP + EA+ EA LM NL+SP G+PI TQD
Sbjct: 480 LRFNECVCGPYNADFDGDEMNLHVPQTEEAKTEALELMGIKNNLVSPRNGEPIIAATQDF 539
Query: 538 LIGLYILT 545
+ Y+L+
Sbjct: 540 ITAAYLLS 547
>gb|AAK00311.1|AF315821_1 (AF315821) DNA-dependent RNA polymerase II largest subunit RPB1
[Monosiga brevicollis]
Length = 1743
Score = 122 bits (304), Expect = 1e-26
Identities = 85/300 (28%), Positives = 145/300 (48%), Gaps = 26/300 (8%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P++M++ +LPV P +RP +++ + D+ +I N +L + + +TP +
Sbjct: 164 PDFMIIEVLPVPPLAVRPSVELGESGHSADDLTYQLGDIIKTNISLQENIANG-ATPHMI 222
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQPMKDGHN-KVYKSFSDIIEGKEGRFRETLLGKRVDYS 381
C E +Q V TL+DN + P + + K+ S ++GKEGR R L+GKRVD+S
Sbjct: 223 EECVE-YIQFKVATLMDNNLPHMPQSQQRSGRPIKAISQRLKGKEGRVRGNLMGKRVDFS 281
Query: 382 GRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFASNIGVAKSKIREKEPIVWE 441
R+VI P+L++ + G+PR +A +L + + + ++ I+ E
Sbjct: 282 ARTVITPDPNLAIDQVGVPRTVAAKLTVPERVTNFNLNKMNQYVANGPTQHPGARYIIQE 341
Query: 442 ----ILQEVMRGHP-------------------ILLNRAPTLHRLGIQAFQPILVEGRAI 478
I + R H I+ NR PTLH++ + + ++
Sbjct: 342 DGTRIDLHIARSHSDRTLQPGFIVERHLQDNDVIIFNRQPTLHKMSMMGHRVKVLPWSTF 401
Query: 479 CLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQDML 538
++ V +NADFDGD+M +HVP SL ++AE +M H N+L+P P+ QD L
Sbjct: 402 RMNLSVTSPYNADFDGDEMNLHVPQSLGSRAEIEEIMMVHKNILTPQSNRPVMGIIQDTL 461
>gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Crassostrea gigas]
Length = 1340
Score = 122 bits (304), Expect = 1e-26
Identities = 89/310 (28%), Positives = 145/310 (46%), Gaps = 32/310 (10%)
Query: 263 PEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTSRSTPGEL 322
P+WM++ ++PV P +RP + + G D+ +I NN L +
Sbjct: 156 PDWMIVTVMPVPPLAVRPAVVMFGSARNQDDLTHKLADIIKANNQL--RRNEQNGAASHI 213
Query: 323 VMCQEKLVQEAVDTLLDNGIRGQP---MKDGHNKVYKSFSDIIEGKEGRFRETLLGKRVD 379
+ K++Q V T DN + G P K G + KS ++GKEGR R L+GKRVD
Sbjct: 214 ISEDMKMLQYHVATFTDNELPGLPKAVQKSG--RPLKSVKQRLKGKEGRVRGNLMGKRVD 271
Query: 380 YSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQTFLIRSLIRKHFASNIGVAKSK 431
+S R+VI P+L + + G+PR IA + F ++ L+R+ A+ AK
Sbjct: 272 FSARTVITPDPNLRIDQVGVPRSIAQNMTFPELVTPFNIDRMQELVRRG-ANQYPGAKYI 330
Query: 432 IREKEP----------------IVWEILQEVMRGHPILLNRAPTLHRLGIQAFQPILVEG 475
IR+ I +++ + + I+ NR PTLH++ + + ++
Sbjct: 331 IRDNGERIDLRFHPKASDLHLQIGYKVERHMQDNDYIVFNRQPTLHKMSMMCHKVKVLPW 390
Query: 476 RAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVPTQ 535
L+ V +NADFDGD+M +H+P SLE +AE L +++P P+ Q
Sbjct: 391 STFRLNLSVTTPYNADFDGDEMNLHLPQSLETKAEISNLALVPRMIITPQANRPVMGIVQ 450
Query: 536 DMLIGLYILT 545
D L + +T
Sbjct: 451 DTLTAVRKMT 460
>gb|AAF63372.1|AF245153_1 (AF245153) RNA polymerase subunit [Synechococcus sp. PCC 6717]
Length = 179
Score = 122 bits (303), Expect = 1e-26
Identities = 74/163 (45%), Positives = 96/163 (58%), Gaps = 22/163 (13%)
Query: 53 DGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACP 112
DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MGYIKLA P
Sbjct: 9 DGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGYIKLAAP 65
Query: 113 VTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP------TFLRLRGLFEY 166
VTHVWYLK +PSY+A LLD PL+++E +VY F VV P T+ +L ++
Sbjct: 66 VTHVWYLKGIPSYMAILLDIPLRDVEQIVY----FNSYVVLNPGNHPNLTYKQLLSEDQW 121
Query: 167 -EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
EI+ YS + E+ GA AI+ L DLDL
Sbjct: 122 QEIEEQIYSED--------SELEDIEVGIGAEAIQRLLQDLDL 156
>gb|AAF63371.1|AF245152_1 (AF245152) RNA polymerase subunit [Synechococcus sp. PCC 6716]
Length = 178
Score = 122 bits (303), Expect = 1e-26
Identities = 74/163 (45%), Positives = 96/163 (58%), Gaps = 22/163 (13%)
Query: 53 DGLFCERIFGPIKSGICTCGNYRVIGDKKDEPKFCEQCGVEFVDSRIRRYQMGYIKLACP 112
DGLFCERIFGP K C CG Y+ + + CE+CGVE +SR+RR++MGYIKLA P
Sbjct: 4 DGLFCERIFGPAKDWECHCGKYKRV---RHRGIVCERCGVEVTESRVRRHRMGYIKLAAP 60
Query: 113 VTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPVVKKP------TFLRLRGLFEY 166
VTHVWYLK +PSY+A LLD PL+++E +VY F VV P T+ +L ++
Sbjct: 61 VTHVWYLKGIPSYMAILLDIPLRDVEQIVY----FNSYVVLNPGNHPNLTYKQLLSEDQW 116
Query: 167 -EIQSWKYSIPLFFATHGFDTFRNREISSGAGAIREQLVDLDL 208
EI+ YS + E+ GA AI+ L DLDL
Sbjct: 117 QEIEEQIYSED--------SELEDIEVGIGAEAIQRLLQDLDL 151
>gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leishmania major]
Length = 1663
Score = 122 bits (303), Expect = 1e-26
Identities = 93/312 (29%), Positives = 148/312 (46%), Gaps = 26/312 (8%)
Query: 256 FIRTNIEPEWMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLIDLLTTS 315
F R P + L +LP+ PP++R I + GG + D+ ++ RN I L
Sbjct: 211 FDRRFCHPRDLDLTVLPIPPPQVRSSIYL-GGLMQVDDLTHQIMSIVKRN---IQLRKDK 266
Query: 316 RSTPGELVMCQEKLVQEAVDTLLDNGIRG-QPMKDGHNKVYKSFSDIIEGKEGRFRETLL 374
S V L+QE V T +N +P K G K KS ++ ++GK GR R L+
Sbjct: 267 ESGVKAAVDRSRALLQEHVATFFNNASTYYKPAKVGDTKKLKSLTERLKGKYGRLRGNLM 326
Query: 375 GKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFLIRSLIRKHFAS----------- 423
GKRVD+S R+VI P++ + G+P +A+ L + + +K
Sbjct: 327 GKRVDFSARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNVINKKRLTEFVQRTTYPSAN 386
Query: 424 -----NIGVAK-SKIREKEPI---VWEILQ-EVMRGHPILLNRAPTLHRLGIQAFQPILV 473
N V K + ++++ + V ++++ V+ G +L NR PTLHR+ + + ++
Sbjct: 387 YIIRPNGNVTKLALVKDRSAVHLDVGDVVERHVIDGDVVLFNRQPTLHRMSMMGHRVRVL 446
Query: 474 EGRAICLHPLVCKGFNADFDGDQMAIHVPLSLEAQAEARLLMFSHTNLLSPAIGDPIAVP 533
L+ +NADFDGD+M +HVP SL +AE +M N +SP P
Sbjct: 447 NYNTFRLNLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGI 506
Query: 534 TQDMLIGLYILT 545
QD ++G Y LT
Sbjct: 507 VQDSVLGSYKLT 518
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
0.324 0.141 0.433
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 286969477
Number of Sequences: 640428
Number of extensions: 12796657
Number of successful extensions: 24682
Number of sequences better than 10.0: 368
Number of HSP's better than 10.0 without gapping: 361
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 23517
Number of HSP's gapped (non-prelim): 550
length of query: 682
length of database: 201,912,487
effective HSP length: 53
effective length of query: 629
effective length of database: 167,969,803
effective search space: 105653006087
effective search space used: 105653006087
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (22.0 bits)
S2: 75 (33.6 bits)
Lotus japonicus(Cp)