BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]
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= TM0127b.1
(509 letters)
Database: sprot
164,201 sequences; 59,974,054 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
RPOD_ANASP (P26683) RNA polymerase sigma factor rpoD (Sigma-A) 179 2e-44
RPOD_STRPN (O08388) RNA polymerase sigma factor rpoD 167 6e-41
RPSB_ANASP (Q03065) RNA polymerase sigma-B factor 166 1e-40
RPOD_STRMU (O33662) RNA polymerase sigma factor rpoD (Sigma-42) 166 1e-40
RPOD_BACSP (P52328) RNA polymerase sigma factor rpoD (Sigma-A) 166 2e-40
RPOD_CLOAB (P33656) RNA polymerase sigma factor rpoD (Sigma-A) (... 162 1e-39
RPOD_ENTFA (P52329) RNA polymerase sigma factor rpoD (Sigma-42) 162 2e-39
RPOD_LACLC (P58290) RNA polymerase sigma factor rpoD (Sigma-42) ... 161 3e-39
RPOD_LACLA (Q04506) RNA polymerase sigma factor rpoD (Sigma-42) 161 4e-39
HRDA_STRCO (P18182) RNA polymerase principal sigma factor hrdA 161 4e-39
RPOD_LISMO (P52331) RNA polymerase sigma factor rpoD (Sigma-43) 160 7e-39
RPOD_LISIN (Q92BQ6) RNA polymerase sigma factor rpoD (Sigma-43) 160 7e-39
RPSC_SYNY3 (Q59996) Probable RNA polymerase sigma-C factor 160 9e-39
RPSC_ANASP (Q03066) RNA polymerase sigma-C factor 160 9e-39
RPOD_STAEP (Q8CP24) RNA polymerase sigma factor rpoD 160 9e-39
RPOD_STAAN (Q99TT5) RNA polymerase sigma factor rpoD 159 2e-38
RPOD_STAAM (P26766) RNA polymerase sigma factor rpoD 158 3e-38
RPOD_BACHD (O66381) RNA polymerase sigma factor rpoD (Sigma-A) (... 158 3e-38
RPOD_SYNP7 (P38023) RNA polymerase sigma factor rpoD1 158 4e-38
RPOD_MICAE (P52322) RNA polymerase sigma factor rpoD1 158 4e-38
>RPOD_ANASP (P26683) RNA polymerase sigma factor rpoD (Sigma-A)
Length = 390
Score = 179 bits (454), Expect = 2e-44
Identities = 109/304 (35%), Positives = 176/304 (57%), Gaps = 9/304 (2%)
Query: 197 YVKGVVSEQLLSHAEVVKLSEKIKVGLSLDEHKSRLKEKLGCEPSDDQIAASLKISRSEL 256
Y++ + +LL E ++L+ KI L L+ + RL EKL +P D + A ++++
Sbjct: 85 YLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAF 144
Query: 257 RAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGF 316
R + A++++ SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+
Sbjct: 145 RYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 204
Query: 317 KISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLSLI-RTAKFRLEERGITPTIDRIAK 375
K STY WWIRQ ++RA+ + SRT+RLP HL+E +S I +T K +E G PT + IA
Sbjct: 205 KFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIAT 264
Query: 376 SLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTL 435
+ M+ +K+R ++ SL+ + GD +I + P V + L
Sbjct: 265 RMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGD----FIESD--GETPEDQVSKNLL 318
Query: 436 KDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 494
++++ K+++ +L RER+++RL YGLD T E+I + ++RER+RQ+ AL KL+
Sbjct: 319 REDLEKVLD-SLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
Query: 495 HAAR 498
H R
Sbjct: 378 HPNR 381
>RPOD_STRPN (O08388) RNA polymerase sigma factor rpoD
Length = 369
Score = 167 bits (423), Expect = 6e-41
Identities = 106/313 (33%), Positives = 185/313 (58%), Gaps = 24/313 (7%)
Query: 199 KGVVSEQLLSHAEVVKLSEKIKVGLSL----DEHKSRLKEKLGCEP---SDDQIAASLKI 251
+G S ++LS+ E +LS++ +G + D + LKE +G P ++++ +L +
Sbjct: 66 EGNPSARVLSNEEEPELSDEDLIGSTSAKVNDPVRMYLKE-IGVVPLLTNEEEKELALAV 124
Query: 252 SRSELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFD 311
++ AK +RLA +N+RLV+SIA+RY G + DL+Q G +GL++ ++KFD
Sbjct: 125 EAGDIEAK--------QRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFD 176
Query: 312 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTI 370
SKGFK STY WWIRQ ++RA+ + +RT+R+P H+ E ++ L+R + L+E G PT
Sbjct: 177 YSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTP 236
Query: 371 DRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGV 430
++IA+ ++M+ KVR + + SL+ + GD +I D +EN P
Sbjct: 237 EQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGD----FIEDEVIEN-PVDYT 291
Query: 431 DEWTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 489
L+++++++++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ A
Sbjct: 292 TRIVLREQLDEILD-TLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKA 350
Query: 490 LEKLKHAARKREM 502
L KL+ +R + +
Sbjct: 351 LRKLRQPSRSKPL 363
>RPSB_ANASP (Q03065) RNA polymerase sigma-B factor
Length = 332
Score = 166 bits (421), Expect = 1e-40
Identities = 99/301 (32%), Positives = 172/301 (56%), Gaps = 11/301 (3%)
Query: 197 YVKGVVSEQLLSHAEVVKLSEKIKVGLSLDEHKSRLKEKLGCEPSDDQIAASLKISRSEL 256
Y+ + LLSH + + +++++ + + K L EKL EP+ + A +++ L
Sbjct: 28 YLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVL 87
Query: 257 RAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGF 316
+ + +A++++ +N+RLV+SIA++Y E DL+Q G +GL RG+EKFD + G+
Sbjct: 88 LQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGY 147
Query: 317 KISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLSLIRTAKFRLEER-GITPTIDRIAK 375
K STY YWWIRQG++RA+ + SRT+RLP H+ ++L+ I+ + L ++ G + IA+
Sbjct: 148 KFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQ 207
Query: 376 SLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTH-HCYIADNRLENIPWHGVDEWT 434
+LN+ ++R + + + SLD G DT + D+ + P +
Sbjct: 208 ALNLEPSQIREYLQLVRQPVSLDMRI-----GFEQDTQLQDLLKDDGMS--PERYAEREL 260
Query: 435 LKDEVNKLINVTLVEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKL 493
L +++ L+ L +++E++ L +GL C LT IS+R+G+SRERVRQV AL L
Sbjct: 261 LYQDIHNLL-AKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQALTLL 319
Query: 494 K 494
+
Sbjct: 320 R 320
>RPOD_STRMU (O33662) RNA polymerase sigma factor rpoD (Sigma-42)
Length = 371
Score = 166 bits (421), Expect = 1e-40
Identities = 91/239 (38%), Positives = 153/239 (63%), Gaps = 8/239 (3%)
Query: 266 ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325
A++RLA +N+RLV+SIA+RY G + DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 326 IRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKKV 384
IRQ ++RA+ + +RT+R+P H+ E ++ L+R + L+E G PT ++IA+ ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 385 RNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLIN 444
R + + SL+ + GD +I D +EN P L+++++++++
Sbjct: 253 REILKIAQEPVSLETPIGEEDDSHLGD----FIEDEVIEN-PVDYTTRVVLREQLDEVLD 307
Query: 445 VTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R +++
Sbjct: 308 -TLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSKQL 365
>RPOD_BACSP (P52328) RNA polymerase sigma factor rpoD (Sigma-A)
Length = 377
Score = 166 bits (419), Expect = 2e-40
Identities = 99/290 (34%), Positives = 166/290 (57%), Gaps = 19/290 (6%)
Query: 222 GLSLDEHKSRLKEKLGCEP---SDDQIAASLKISRSELRAKTIECTLARERLAMSNVRLV 278
G+ +++ +++G P +DD++ + +I + AK RLA +N+RLV
Sbjct: 101 GIKINDPVRMYLKEIGRVPLLSADDEVELAKRIMNGDEEAK--------RRLAEANLRLV 152
Query: 279 MSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 338
+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +
Sbjct: 153 VSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWWIRQAITRAIADQA 212
Query: 339 RTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKKVRNATEAISKVFSL 397
RT+R+P H+ E ++ LIR ++ L+E G PT + IA + +S +KVR + + SL
Sbjct: 213 RTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKVREIMKIAQEPVSL 272
Query: 398 DREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLINVTLVEREREIIRL 457
+ G D+H +++ P LK+++ +++ TL ERE ++RL
Sbjct: 273 ETPI-----GEEDDSHLGDFIEDQEALTPADAAAYELLKEQLEDVLD-TLTEREENVLRL 326
Query: 458 YYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREMEAML 506
+GLD T E++ K G++RER+RQ+ AL KL+H +R + ++ L
Sbjct: 327 RFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 376
>RPOD_CLOAB (P33656) RNA polymerase sigma factor rpoD (Sigma-A)
(Major vegetative sigma factor)
Length = 378
Score = 162 bits (411), Expect = 1e-39
Identities = 121/383 (31%), Positives = 201/383 (51%), Gaps = 31/383 (8%)
Query: 138 QEKSSKKVAVTCSGVSARQRRINTKRKIP-GKTGSAM---QACDAMQMRSLISPELLQN- 192
++K+SKKV+ S ++ K I GK ++ + D +Q L PE ++
Sbjct: 12 EKKNSKKVSKEESAKEKNEKMKIVKNLIDKGKKSGSLTYKEIMDELQEVDL-GPEQIEKI 70
Query: 193 ----RSKGYVKGVVSEQLLSHAEVVKLSEKIKVGLSLDEHKSRLKEKLGCEP---SDDQI 245
S G VV + E L I G+++D+ +++G P +++I
Sbjct: 71 YEVLESVGV--DVVGDMHEIEVEEEDLDLTIPEGIAIDDPVRMYLKEIGKVPLLSPEEEI 128
Query: 246 AASLKISRSELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLR 305
+ +I + A R++LA +N+RLV+SIA+RY G DL+Q G +GL++
Sbjct: 129 DLAQRIKNGDRSA--------RKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 180
Query: 306 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEER 364
+EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E ++ LIR ++ L+E
Sbjct: 181 AVEKFDFKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 240
Query: 365 GITPTIDRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLEN 424
G P + IAK ++M KVR + + SL+ + GD +I D+
Sbjct: 241 GREPQPEEIAKIMDMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGD----FIPDDEAP- 295
Query: 425 IPWHGVDEWTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 483
P LK+++ K++N TL RE +++RL +GLD T E++ K ++RER+R
Sbjct: 296 APADAAAFRMLKEQLLKILN-TLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIR 354
Query: 484 QVGLVALEKLKHAARKREMEAML 506
Q+ AL KL+H +R ++++ L
Sbjct: 355 QIEAKALRKLRHPSRSKKLKDYL 377
>RPOD_ENTFA (P52329) RNA polymerase sigma factor rpoD (Sigma-42)
Length = 368
Score = 162 bits (409), Expect = 2e-39
Identities = 94/266 (35%), Positives = 156/266 (58%), Gaps = 16/266 (6%)
Query: 243 DQIAASLKISRSELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIG 302
+++ +LKI + AK +RLA +N+RLV+SIA+RY G + DL+Q G +G
Sbjct: 116 EEVELALKIEEGDQEAK--------QRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMG 167
Query: 303 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRL 361
L++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E ++ LIR + L
Sbjct: 168 LMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLL 227
Query: 362 EERGITPTIDRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNR 421
++ G PT + I +++ +KVR + + SL+ + GD +I D
Sbjct: 228 QDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGD----FIEDQD 283
Query: 422 LENIPWHGVDEWTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRE 480
+ H E LK+++ +++ TL +RE ++RL +GLD T E++ K G++RE
Sbjct: 284 ATSPAEHAAYE-LLKEQLEDVLD-TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRE 341
Query: 481 RVRQVGLVALEKLKHAARKREMEAML 506
R+RQ+ AL KL+H +R ++++ L
Sbjct: 342 RIRQIEAKALRKLRHPSRSKQLKDFL 367
>RPOD_LACLC (P58290) RNA polymerase sigma factor rpoD (Sigma-42)
(Fragment)
Length = 364
Score = 161 bits (408), Expect = 3e-39
Identities = 87/239 (36%), Positives = 152/239 (63%), Gaps = 8/239 (3%)
Query: 266 ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325
A++ LA +N+RLV+SIA+RY G + DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 128 AKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWW 187
Query: 326 IRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKKV 384
IRQ ++RA+ + +RT+R+P H+ E ++ LIR + L+E G P+ + I K L+M+ KV
Sbjct: 188 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKV 247
Query: 385 RNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLIN 444
R + + SL+ + GD +I D+ +E+ P + L+++++++++
Sbjct: 248 REVLKIAQEPVSLETPIGEEDDSHLGD----FIEDDVIES-PVDYTNRILLREQLDEVMD 302
Query: 445 VTLVEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H R + +
Sbjct: 303 -TLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPL 360
>RPOD_LACLA (Q04506) RNA polymerase sigma factor rpoD (Sigma-42)
Length = 386
Score = 161 bits (407), Expect = 4e-39
Identities = 87/239 (36%), Positives = 152/239 (63%), Gaps = 8/239 (3%)
Query: 266 ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325
A++ LA +N+RLV+SIA+RY G + DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 150 AKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWW 209
Query: 326 IRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKKV 384
IRQ ++RA+ + +RT+R+P H+ E ++ LIR + L+E G P+ + I K L+M+ KV
Sbjct: 210 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKV 269
Query: 385 RNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLIN 444
R + + SL+ + GD +I D+ +E+ P + L+++++++++
Sbjct: 270 REVLKIAQEPVSLETPIGEEDDSHLGD----FIEDDVIES-PVDYTNRILLREQLDEVMD 324
Query: 445 VTLVEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H R + +
Sbjct: 325 -TLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPL 382
>HRDA_STRCO (P18182) RNA polymerase principal sigma factor hrdA
Length = 396
Score = 161 bits (407), Expect = 4e-39
Identities = 107/313 (34%), Positives = 173/313 (55%), Gaps = 23/313 (7%)
Query: 197 YVKGVVSEQLLSHAEVVKLSEKIKVGLSLDEHKSRLKEKLGCEPS-DDQIAASLKISRSE 255
Y++ + LLS AE V L+ +++ GL +E KL C P DD++A +
Sbjct: 103 YLREIGRIPLLSAAEEVDLARRVEAGLFAEE-------KLRCSPGLDDRLAL-------D 148
Query: 256 LRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKG 315
L + LA+ RL +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G
Sbjct: 149 LDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARG 208
Query: 316 FKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIA 374
+K STY WWIRQ +SRAL + +RT+R+P H+ E ++ ++R + L+ERG PT +A
Sbjct: 209 YKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVA 268
Query: 375 KSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWT 434
L+++ ++V + SL + GD A + +E+ +
Sbjct: 269 AHLDLAPERVGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAF-----LL 323
Query: 435 LKDEVNKLINVTLVEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 493
L+ + +++ TL ERER++++L YGL D T E+I + G++RER+RQ+ L KL
Sbjct: 324 LRQHLEAVLS-TLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKL 382
Query: 494 KHAARKREMEAML 506
+ A ++ L
Sbjct: 383 RDHAYADQLRGYL 395
>RPOD_LISMO (P52331) RNA polymerase sigma factor rpoD (Sigma-43)
Length = 374
Score = 160 bits (405), Expect = 7e-39
Identities = 93/268 (34%), Positives = 159/268 (58%), Gaps = 16/268 (5%)
Query: 241 SDDQIAASLKISRSELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGL 300
+D++IA + +I ++ AK RLA +N+RLV+SIA+RY G DL+Q G
Sbjct: 120 ADEEIALAKRIEAGDIEAKG--------RLAEANLRLVVSIAKRYVGRGMLFLDLIQEGN 171
Query: 301 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKF 359
+GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E ++ LIR +
Sbjct: 172 MGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRS 231
Query: 360 RLEERGITPTIDRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIAD 419
L++ G P+ + I + +++ +KVR + + SL+ + GD +I D
Sbjct: 232 LLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGD----FIED 287
Query: 420 NRLENIPWHGVDEWTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLS 478
+ H E LK+++ +++ TL +RE ++RL +GLD T E++ + G++
Sbjct: 288 QDATSPSDHAAYE-LLKEQLEDVLD-TLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVT 345
Query: 479 RERVRQVGLVALEKLKHAARKREMEAML 506
RER+RQ+ AL KL+H +R ++++ L
Sbjct: 346 RERIRQIEAKALRKLRHPSRSKQLKDFL 373
>RPOD_LISIN (Q92BQ6) RNA polymerase sigma factor rpoD (Sigma-43)
Length = 374
Score = 160 bits (405), Expect = 7e-39
Identities = 93/268 (34%), Positives = 159/268 (58%), Gaps = 16/268 (5%)
Query: 241 SDDQIAASLKISRSELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGL 300
+D++IA + +I ++ AK RLA +N+RLV+SIA+RY G DL+Q G
Sbjct: 120 ADEEIALAKRIEAGDIEAKG--------RLAEANLRLVVSIAKRYVGRGMLFLDLIQEGN 171
Query: 301 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKF 359
+GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E ++ LIR +
Sbjct: 172 MGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRS 231
Query: 360 RLEERGITPTIDRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIAD 419
L++ G P+ + I + +++ +KVR + + SL+ + GD +I D
Sbjct: 232 LLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGD----FIED 287
Query: 420 NRLENIPWHGVDEWTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLS 478
+ H E LK+++ +++ TL +RE ++RL +GLD T E++ + G++
Sbjct: 288 QDATSPSDHAAYE-LLKEQLEDVLD-TLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVT 345
Query: 479 RERVRQVGLVALEKLKHAARKREMEAML 506
RER+RQ+ AL KL+H +R ++++ L
Sbjct: 346 RERIRQIEAKALRKLRHPSRSKQLKDFL 373
>RPSC_SYNY3 (Q59996) Probable RNA polymerase sigma-C factor
Length = 404
Score = 160 bits (404), Expect = 9e-39
Identities = 87/236 (36%), Positives = 148/236 (61%), Gaps = 9/236 (3%)
Query: 266 ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325
A+ + +N+RLV+S+A++Y N G E+ DL+Q G +GL R +EKFD +KG++ STY YWW
Sbjct: 165 AKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWW 224
Query: 326 IRQGVSRALVENSRTLRLPTHLHERLSLIRTAKFRL-EERGITPTIDRIAKSLNMSQKKV 384
IRQG++RA+ SR +RLP H+ E+L+ I+ A+ ++ +E+G TP ID +A+ L M+ ++V
Sbjct: 225 IRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEVAEELGMTPEQV 284
Query: 385 RNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLIN 444
R + + SL+ + G DT + + ++ P + L++++ +++
Sbjct: 285 REVLTQVPRSVSLELKV-----GQDKDTELMDLLETDTQS-PEDELMREALQNDMQEIL- 337
Query: 445 VTLVEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 499
+ L RE+E+I L +G D + +I + + LSRERVRQ+ AL+KL+H R+
Sbjct: 338 LDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKLRHPRRR 393
>RPSC_ANASP (Q03066) RNA polymerase sigma-C factor
Length = 416
Score = 160 bits (404), Expect = 9e-39
Identities = 106/315 (33%), Positives = 179/315 (56%), Gaps = 32/315 (10%)
Query: 210 AEVVKLSEKIKVG-LSLDEHKSRLKEKLGCEPSDDQIAASLKISRSELR----------A 258
A VK +++ L L E + RL +LG PS ++ AA+ I+ +L+ A
Sbjct: 98 ANAVKQGDEVATPYLHLIEVQERLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWA 157
Query: 259 KTIECTL------------ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRG 306
+ + T+ ++E + +N+RLV+S+A++Y N G E+ DLVQ G +GL R
Sbjct: 158 EIAKMTVEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERA 217
Query: 307 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLSLIRTAKFRL-EERG 365
+EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L+ I+ A+ ++ +E+G
Sbjct: 218 VEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKG 277
Query: 366 ITPTIDRIAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENI 425
TPT++ +A L+M+ +VR + + SL+ + G DT + +
Sbjct: 278 RTPTLEDLAIELDMTPTQVREVLLRVPRSVSLETKV-----GKDKDTELGELLETD-GVT 331
Query: 426 PWHGVDEWTLKDEVNKLINVTLVEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 484
P + +L+ ++ L+ L RER++I + +GL D + +I + + LSRERVRQ
Sbjct: 332 PEEMLMRESLQRDLQHLL-ADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQ 390
Query: 485 VGLVALEKLKHAARK 499
+ AL+KL+ R+
Sbjct: 391 IESKALQKLRQPKRR 405
>RPOD_STAEP (Q8CP24) RNA polymerase sigma factor rpoD
Length = 368
Score = 160 bits (404), Expect = 9e-39
Identities = 89/241 (36%), Positives = 147/241 (60%), Gaps = 8/241 (3%)
Query: 265 LARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 324
+A+ RLA +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 325 WIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKK 383
WIRQ ++RA+ + +RT+R+P H+ E ++ LIR + L++ G P + I + +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 384 VRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLI 443
VR + + SL+ + GD +I D ++ H E LK+++ ++
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGD----FIEDQEAQSPSDHAAYE-LLKEQLEDVL 304
Query: 444 NVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
+ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R + +
Sbjct: 305 D-TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRL 363
Query: 503 E 503
+
Sbjct: 364 K 364
>RPOD_STAAN (Q99TT5) RNA polymerase sigma factor rpoD
Length = 368
Score = 159 bits (401), Expect = 2e-38
Identities = 88/241 (36%), Positives = 147/241 (60%), Gaps = 8/241 (3%)
Query: 265 LARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 324
+A+ RLA +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 325 WIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKK 383
WIRQ ++RA+ + +RT+R+P H+ E ++ LIR + L++ G P + I + +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 384 VRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLI 443
VR + + SL+ + GD +I D ++ H E LK+++ ++
Sbjct: 250 VREVLKIAQEPVSLETPIGEEDDSHLGD----FIEDQEAQSPSDHAAYE-LLKEQLEDVL 304
Query: 444 NVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
+ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R + +
Sbjct: 305 D-TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRL 363
Query: 503 E 503
+
Sbjct: 364 K 364
>RPOD_STAAM (P26766) RNA polymerase sigma factor rpoD
Length = 368
Score = 158 bits (400), Expect = 3e-38
Identities = 88/241 (36%), Positives = 147/241 (60%), Gaps = 8/241 (3%)
Query: 265 LARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 324
+A+ RLA +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 325 WIRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKK 383
WIRQ ++RA+ + +RT+R+P H+ E ++ LIR + L++ G P + I + +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 384 VRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLI 443
VR + + SL+ + GD +I D ++ H E LK+++ ++
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGD----FIEDQEAQSPSDHAAYE-LLKEQLEDVL 304
Query: 444 NVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREM 502
+ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R + +
Sbjct: 305 D-TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRL 363
Query: 503 E 503
+
Sbjct: 364 K 364
>RPOD_BACHD (O66381) RNA polymerase sigma factor rpoD (Sigma-A)
(Sigma-43)
Length = 372
Score = 158 bits (400), Expect = 3e-38
Identities = 87/243 (35%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 266 ARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325
A+ RLA +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 326 IRQGVSRALVENSRTLRLPTHLHERLS-LIRTAKFRLEERGITPTIDRIAKSLNMSQKKV 384
IRQ ++RA+ + +RT+R+P H+ E ++ LIR + L++ G P+ + +A+ ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 385 RNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLIN 444
R + + SL+ G D+H +++ P LK+++ +++
Sbjct: 255 REILKIAQEPVSLETPI-----GEEDDSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLD 309
Query: 445 VTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKREME 503
TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R + ++
Sbjct: 310 -TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLK 368
Query: 504 AML 506
L
Sbjct: 369 DFL 371
>RPOD_SYNP7 (P38023) RNA polymerase sigma factor rpoD1
Length = 384
Score = 158 bits (399), Expect = 4e-38
Identities = 94/247 (38%), Positives = 144/247 (58%), Gaps = 9/247 (3%)
Query: 254 SELRAKTIECTLARERLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSS 313
+E R + A++++ SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD
Sbjct: 136 TEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHE 195
Query: 314 KGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLSLI-RTAKFRLEERGITPTIDR 372
KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E +S I +T K +E G PT +
Sbjct: 196 KGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLVSQEMGRKPTEEE 255
Query: 373 IAKSLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDE 432
IA + M+ +K+R ++ SL+ + GD AD P V +
Sbjct: 256 IATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE---ADG---ETPEDEVAK 309
Query: 433 WTLKDEVNKLINVTLVEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 491
L++++ +++ TL RER+++RL YGLD T E+I + ++RER+RQ+ AL
Sbjct: 310 NLLREDLEGVLS-TLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALR 368
Query: 492 KLKHAAR 498
KL+H R
Sbjct: 369 KLRHPNR 375
>RPOD_MICAE (P52322) RNA polymerase sigma factor rpoD1
Length = 416
Score = 158 bits (399), Expect = 4e-38
Identities = 107/289 (37%), Positives = 159/289 (54%), Gaps = 14/289 (4%)
Query: 217 EKIKVGLSLDEHK-SRLKEKLG----CEPSDDQIAASLKISRSELRAKTIECTLARERLA 271
EKI V S E K S +K LG P ++ A K S + + A+E++
Sbjct: 126 EKIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMV 185
Query: 272 MSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 331
SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWIRQ ++
Sbjct: 186 QSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAIT 245
Query: 332 RALVENSRTLRLPTHLHERLSLI-RTAKFRLEERGITPTIDRIAKSLNMSQKKVRNATEA 390
RA+ + SRT+RLP HL+E +S I +T K +E PT + IA + M+ +K+R ++
Sbjct: 246 RAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKS 305
Query: 391 ISKVFSLDREAFPSLNGLPGDTHHCYIADNRLENIPWHGVDEWTLKDEVNKLINVTLVER 450
SL+ + GD AD P V + L++++ +++ TL R
Sbjct: 306 AQLPISLETPIGKEEDSRLGDFIE---ADG---ETPEDEVSKNLLREDLENVLD-TLSPR 358
Query: 451 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 498
ER+++RL YGLD T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 407
Database: sprot
Posted date: Nov 25, 2004 10:54 AM
Number of letters in database: 59,974,054
Number of sequences in database: 164,201
Lambda K H
0.316 0.131 0.368
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,932,753
Number of Sequences: 164201
Number of extensions: 2107555
Number of successful extensions: 6523
Number of sequences better than 10.0: 141
Number of HSP's better than 10.0 without gapping: 118
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 6178
Number of HSP's gapped (non-prelim): 171
length of query: 509
length of database: 59,974,054
effective HSP length: 115
effective length of query: 394
effective length of database: 41,090,939
effective search space: 16189829966
effective search space used: 16189829966
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 68 (30.8 bits)
Lotus: description of TM0127b.1