BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 009803
(525 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 677 bits (1747), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 365/530 (68%), Positives = 427/530 (80%), Gaps = 16/530 (3%)
Query: 1 MTTVLDVEKLRLPSLEAHSNAVAANRQWTYFGAVGPSTEENLGTSLATETL-TSDEAVIA 59
+T++LDV KLRLPS + S+++ ++RQWTY GPSTE +LA+ETL TSDEAV+
Sbjct: 49 LTSMLDVAKLRLPSFDTDSDSLISDRQWTYTRPDGPSTEAKYLEALASETLLTSDEAVVV 108
Query: 60 AASAEAVALARAAVKVAKDAALMVNHHNSAKPKSKPAISSSADTNTSMWAQLTERERASI 119
AA+AEAVALARAAVKVAKDA L N +N+ ++SS S W Q TE+ERA I
Sbjct: 109 AAAAEAVALARAAVKVAKDATLFKNSNNTN------LLTSSTADKRSKWDQFTEKERAGI 162
Query: 120 IG-----DSVIVEAAPEEEYSEQQPLNKSADLEPTHEELKLLEEQV-SQSIAVRSRRQTE 173
+G D+ IV S ++ + DLE +E L E+ S S+AVRS RQTE
Sbjct: 163 LGHLAVSDNGIVSDKITASASNKESI---GDLESEKQEEVELLEEQPSVSLAVRSTRQTE 219
Query: 174 RKARRTRAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEM 233
RKARR + EK A+ + SVK+GS+ ++KR QEVD++DPLRYLR TTSSS+LLT EE
Sbjct: 220 RKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 234 QLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITS 293
+LSAGIQDLLKLE L+ L+ER G PTFAQWA+AAGVDQ+ LR+R+++G LCKDKMI S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 294 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKS 353
NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA+KGFKFSTYAHWWIKQAVRKS
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKS 399
Query: 354 LSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPK 413
LSDQSR IRLPFHMVEATYRVKEARKQLYSE G+HP NEE+AEATGLSMKRL AVLLSPK
Sbjct: 400 LSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPK 459
Query: 414 APRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWR 473
PRSLDQKIG+NQNLKPSEVIADPEA T+ED+LIK+FM++DL+KVLD+L RE+QV+RWR
Sbjct: 460 PPRSLDQKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSLGTREKQVIRWR 519
Query: 474 FGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQYAI 523
FG+EDGRMKTLQEIGE+MGVSRER+RQIESSAFRKLKNKKR HL QY +
Sbjct: 520 FGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>sp|P26683|RPOD_NOSS1 RNA polymerase sigma factor RpoD OS=Nostoc sp. (strain PCC 7120 /
UTEX 2576) GN=rpoD PE=3 SV=1
Length = 390
Score = 297 bits (761), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 156/331 (47%), Positives = 220/331 (66%), Gaps = 3/331 (0%)
Query: 193 KSG--STSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE 250
KSG + SRR+ S ++ D +R RLL A+EE++L+ I DLL+LE +RE
Sbjct: 59 KSGKAAKSRRRTQSKKKHYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRE 118
Query: 251 VLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGM 310
LSE+ P ++WA A + R RL+ G KDKM+ SN+RLV+SIAK Y G+
Sbjct: 119 RLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGL 178
Query: 311 NLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEA 370
+ QDL+QEG GL+R AEKFD KG+KFSTYA WWI+QA+ ++++DQSRTIRLP H+ E
Sbjct: 179 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 238
Query: 371 TYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKP 430
R+K+ K L E GR P EE+A +++++L + S + P SL+ IG ++ +
Sbjct: 239 ISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRL 298
Query: 431 SEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGEL 490
+ I + + ET ED + K ++EDLEKVLD+L+PRER V+R R+GL+DGRMKTL+EIG++
Sbjct: 299 GDFI-ESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQI 357
Query: 491 MGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
V+RERIRQIE+ A RKL++ R L +Y
Sbjct: 358 FNVTRERIRQIEAKALRKLRHPNRNSVLKEY 388
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 286 bits (731), Expect = 3e-76, Method: Compositional matrix adjust.
Identities = 151/310 (48%), Positives = 207/310 (66%), Gaps = 1/310 (0%)
Query: 212 DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGV 271
D +R RLL A+EE++L+ I DLL LE +R+ L E+ P+ A+WAAA
Sbjct: 89 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 148
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
E RRRL G KDKM+ SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 208
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
KG+KFSTYA WWI+QA+ ++++DQSRTIRLP H+ E R+K+ K L E GR P
Sbjct: 209 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 268
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFM 451
EE+A +++++L + S + P SL+ IG ++ + + I + + ET ED + K +
Sbjct: 269 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFI-EADGETPEDEVAKNLL 327
Query: 452 KEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKN 511
+EDLE VL TL+PRER V+R R+GL+DGRMKTL+EIG+L V+RERIRQIE+ A RKL++
Sbjct: 328 REDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLRH 387
Query: 512 KKRTKHLMQY 521
R L +Y
Sbjct: 388 PNRNSILKEY 397
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 267 bits (682), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 147/349 (42%), Positives = 205/349 (58%), Gaps = 40/349 (11%)
Query: 212 DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE--------------VLSERCG 257
D +R RLL A EE++L+ I DLLKLE +RE L ER
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 258 G-------------------------SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMIT 292
+P +W A + +RRL +G K+KM+
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 293 SNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 352
SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD KG+KFSTYA WWI+QA+ +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 353 SLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSP 412
+++DQSRTIRLP H+ E R+K+ K L E R P EE+A +++++L + S
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 413 KAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRW 472
+ P SL+ IG ++ + + I + + ET ED + K ++EDLE VLDTL+PRER V+R
Sbjct: 307 QLPISLETPIGKEEDSRLGDFI-EADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 473 RFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
R+GL+DGRMKTL+EIG++ V+RERIRQIE+ A RKL++ R L +Y
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEY 414
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 259 bits (663), Expect = 3e-68, Method: Compositional matrix adjust.
Identities = 138/357 (38%), Positives = 214/357 (59%), Gaps = 1/357 (0%)
Query: 166 VRSRRQTERKARRTRAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSR 225
VRS+RQ ER+A+ RA + + TS +K+ Q D D L+ + +
Sbjct: 188 VRSKRQLERRAKNRRAPKSNDVDDEGYVPQKTSAKKKYK-QGADNDDALQLFLWGPETKQ 246
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LLTA EE +L + IQ LLKLE ++ L + G PT +WA A G+ L+ ++ G
Sbjct: 247 LLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRS 306
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
++K+IT+N+RLV+ IAK YQ G+N QDL+QEG GL++ EKF G +F+TYA+WW
Sbjct: 307 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 366
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+Q++RKS+ SRTIRLP ++ +V EARK E P+ EE+A G+S ++L
Sbjct: 367 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTEKL 426
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+L + + P S+ Q I +Q+ E+ D ET + K+ M+ + +L+ L+P+
Sbjct: 427 DKLLYNTRTPLSMQQPIWSDQDTTFQEITPDSGIETPTMSVGKQLMRNHVRNLLNVLSPK 486
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQYA 522
ER++++ RFG++ G+ ++L EIGE+ G+S+ER+RQ+ES A +LK + L YA
Sbjct: 487 ERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQNMNSHGLHAYA 543
>sp|P74565|RPOD_SYNY3 RNA polymerase sigma factor RpoD OS=Synechocystis sp. (strain PCC
6803 / Kazusa) GN=rpoD PE=3 SV=1
Length = 425
Score = 253 bits (647), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 121/236 (51%), Positives = 168/236 (71%), Gaps = 1/236 (0%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
KDKM+ SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD KG+KFSTYA WW
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQSRTIRLP H+ E R+K+ K L E R P EE+AE +++++L
Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKL 308
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+ S + P SL+ IG ++ + + I + + ET ED + K ++EDLE VLDTL+PR
Sbjct: 309 RFIAKSAQLPISLETPIGKEEDSRLGDFI-EADGETPEDEVSKNLLREDLENVLDTLSPR 367
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
ER V+R R+GL+DGRMKTL+EIG++ V+RERIRQIE+ A RKL++ R L +Y
Sbjct: 368 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEY 423
Score = 34.7 bits (78), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 201 KRPSVQEVDYS-DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGS 259
++ +V++ Y+ D +R RLL A EE++L+ I DLL+LE +R+ L+ +
Sbjct: 59 RKDAVKKKPYTEDSIRIYLQEIGRIRLLRAEEEIELARQIADLLELELIRDNLTLQLERQ 118
Query: 260 PTFAQWA 266
P+ +W
Sbjct: 119 PSELEWG 125
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 233 bits (593), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/248 (46%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD S
Sbjct: 119 ELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFS 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 35984 / RP62A) GN=rpoD PE=3 SV=1
Length = 368
Score = 233 bits (593), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/248 (46%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD S
Sbjct: 119 ELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFS 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 232 bits (592), Expect = 5e-60, Method: Compositional matrix adjust.
Identities = 115/248 (46%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ VL + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|P0A0I8|RPOD_STAAM RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
Mu50 / ATCC 700699) GN=rpoD PE=1 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 231 bits (590), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 165/248 (66%), Gaps = 1/248 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKE 453
+ E L +++ +L + P SL+ IG + + I D EA++ D + +KE
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKE 298
Query: 454 DLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKK 513
LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++
Sbjct: 299 QLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 358
Query: 514 RTKHLMQY 521
R+K L +
Sbjct: 359 RSKRLKDF 366
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 231 bits (590), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 124/309 (40%), Positives = 198/309 (64%), Gaps = 4/309 (1%)
Query: 207 EVDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVL-SERCGGSPTFAQ 264
E SD +R YLR LLT EE+ L +Q +KL+ LR+ L SE P+ +
Sbjct: 5 ETPTSDLVRTYLREIGRVP-LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLE 63
Query: 265 WAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 324
WAAAAG+ ELR++ + G K KMI +N+RLV+S+AK Y M+L DL+QEG G+
Sbjct: 64 WAAAAGLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQ 123
Query: 325 RGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSE 384
RG EKFD +KG++FSTYA+WWI+QA+ +++++++RTIRLP H+ E ++K+ ++QL +
Sbjct: 124 RGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQ 183
Query: 385 NGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAED 444
GR E+A A L+ ++ L + P SLD ++G NQ+ + +++ + + T E+
Sbjct: 184 LGRTATLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLL-ETDCTTPEE 242
Query: 445 LLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESS 504
++ M+ D++++LD L ++RQV+ R+GLEDG++ TL IG+ + +SRER+RQ+E
Sbjct: 243 FTLQASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLERE 302
Query: 505 AFRKLKNKK 513
A L+ +
Sbjct: 303 ALHTLRQAR 311
>sp|P77994|RPOD_THEMA RNA polymerase sigma factor RpoD OS=Thermotoga maritima (strain
ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN=rpoD PE=1
SV=3
Length = 399
Score = 231 bits (589), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 114/247 (46%), Positives = 171/247 (69%), Gaps = 1/247 (0%)
Query: 273 QRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
+REL RR G K+K+ITSN+RLV+SIAK Y G G++ QDL+QEG GL++ EKFD
Sbjct: 141 ERELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFD 200
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
KG+KFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ R++ Y ++G P+
Sbjct: 201 WRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSI 260
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFM 451
EE+A+ G +++ +L + K SL+ IG +++ + +AD + + ++ M
Sbjct: 261 EELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLM 320
Query: 452 KEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKN 511
+E+LEKVL TL+PRE V+R R+GL DG+ KTL+E+G+ V+RERIRQIE A RKL++
Sbjct: 321 REELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 380
Query: 512 KKRTKHL 518
R+K+L
Sbjct: 381 PSRSKYL 387
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 231 bits (589), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 117/251 (46%), Positives = 166/251 (66%), Gaps = 1/251 (0%)
Query: 272 DQRELRRRLNYGIL-CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKF 330
D+ EL +R+ G K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKF
Sbjct: 125 DEVELAKRIMNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKF 184
Query: 331 DASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPN 390
D +KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ +QL E GR P
Sbjct: 185 DHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPT 244
Query: 391 NEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKF 450
EE+A LS++++ ++ + P SL+ IG + + I D EA T D +
Sbjct: 245 PEEIAAEMELSVEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTPADAAAYEL 304
Query: 451 MKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLK 510
+KE LE VLDTL RE V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL+
Sbjct: 305 LKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 364
Query: 511 NKKRTKHLMQY 521
+ R+K L +
Sbjct: 365 HPSRSKRLKDF 375
>sp|O66381|RPOD_BACHD RNA polymerase sigma factor RpoD OS=Bacillus halodurans (strain
ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
GN=sigA PE=3 SV=2
Length = 372
Score = 229 bits (584), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 111/236 (47%), Positives = 159/236 (67%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +KGFKFSTYA WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P+ EEVAE L+ +++
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+L + P SL+ IG + + I D +A D + +KE LE VLDTL R
Sbjct: 255 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTDR 314
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++ R+K L +
Sbjct: 315 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDF 370
>sp|P33118|RPSB_CORDI RNA polymerase sigma factor SigB OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=sigB PE=3 SV=2
Length = 329
Score = 228 bits (581), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 109/250 (43%), Positives = 160/250 (64%)
Query: 273 QRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA 332
+R+L+ + G + ++ +N+RLV+S+AK Y G GM L DL+QEG GL+R EKFD
Sbjct: 79 KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDY 138
Query: 333 SKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNE 392
SKGFKFSTYA WWI+QA+ + ++DQSRTIRLP H+VE ++ ++++Y + GR NE
Sbjct: 139 SKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNE 198
Query: 393 EVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMK 452
E+AE +G+ ++ +L + P SLD +G ++ + I D EA AE ++
Sbjct: 199 ELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDAESAVVASLRH 258
Query: 453 EDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNK 512
D+ VLDTL RE+ V+R R+GL+DG +TL +IG G+SRER+RQIE KL++
Sbjct: 259 SDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMSKLRDG 318
Query: 513 KRTKHLMQYA 522
R + L YA
Sbjct: 319 ARAEKLRAYA 328
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 228 bits (581), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 122/296 (41%), Positives = 181/296 (61%), Gaps = 9/296 (3%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LL A EE++L+ I+ L L LSER P +R++ G
Sbjct: 240 LLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP---------AAQRRDMMWICRDGDR 290
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD +KG+KFSTYA WW
Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ +++L + GR P EE+A+ ++ +++
Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+ + P SLDQ IG + + + I D EA A D + +++ L+ VLDTL+ R
Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E VVR RFGL DG+ +TL EIG++ GV+RERIRQIES KL++ R++ L Y
Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 526
>sp|P0A603|RPOD_MYCBO RNA polymerase sigma factor RpoD OS=Mycobacterium bovis (strain
ATCC BAA-935 / AF2122/97) GN=rpoD PE=3 SV=1
Length = 528
Score = 228 bits (581), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 122/296 (41%), Positives = 181/296 (61%), Gaps = 9/296 (3%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LL A EE++L+ I+ L L LSER P +R++ G
Sbjct: 240 LLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP---------AAQRRDMMWICRDGDR 290
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD +KG+KFSTYA WW
Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ +++L + GR P EE+A+ ++ +++
Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+ + P SLDQ IG + + + I D EA A D + +++ L+ VLDTL+ R
Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E VVR RFGL DG+ +TL EIG++ GV+RERIRQIES KL++ R++ L Y
Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 526
>sp|P52331|RPOD_LISMO RNA polymerase sigma factor RpoD OS=Listeria monocytogenes serovar
1/2a (strain ATCC BAA-679 / EGD-e) GN=rpoD PE=3 SV=1
Length = 374
Score = 228 bits (580), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 112/247 (45%), Positives = 162/247 (65%), Gaps = 1/247 (0%)
Query: 276 LRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASK 334
L +R+ G I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +K
Sbjct: 126 LAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNK 185
Query: 335 GFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEV 394
GFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L + GR P+ EE+
Sbjct: 186 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEI 245
Query: 395 AEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKED 454
E L +++ +L + P SL+ IG + + I D +A + D + +KE
Sbjct: 246 GEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQ 305
Query: 455 LEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKR 514
LE VLDTL RE V+R RFGL+DGR +TL+E+G + GV+RERIRQIE+ A RKL++ R
Sbjct: 306 LEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSR 365
Query: 515 TKHLMQY 521
+K L +
Sbjct: 366 SKQLKDF 372
>sp|Q92BQ6|RPOD_LISIN RNA polymerase sigma factor RpoD OS=Listeria innocua serovar 6a
(strain CLIP 11262) GN=rpoD PE=3 SV=1
Length = 374
Score = 228 bits (580), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 112/247 (45%), Positives = 162/247 (65%), Gaps = 1/247 (0%)
Query: 276 LRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASK 334
L +R+ G I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +K
Sbjct: 126 LAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNK 185
Query: 335 GFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEV 394
GFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L + GR P+ EE+
Sbjct: 186 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEI 245
Query: 395 AEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKED 454
E L +++ +L + P SL+ IG + + I D +A + D + +KE
Sbjct: 246 GEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQ 305
Query: 455 LEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKR 514
LE VLDTL RE V+R RFGL+DGR +TL+E+G + GV+RERIRQIE+ A RKL++ R
Sbjct: 306 LEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSR 365
Query: 515 TKHLMQY 521
+K L +
Sbjct: 366 SKQLKDF 372
>sp|P52329|RPOD_ENTFA RNA polymerase sigma factor RpoD OS=Enterococcus faecalis (strain
ATCC 700802 / V583) GN=rpoD PE=3 SV=2
Length = 368
Score = 228 bits (580), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 129/342 (37%), Positives = 188/342 (54%), Gaps = 52/342 (15%)
Query: 180 RAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEMQLSAGI 239
+ AEKA A +S +G V +DP+R +LLTA EE++L+ I
Sbjct: 77 KEAEKAQAEDLSAPTG------------VKINDPVRMYLKEIGRVQLLTAAEEVELALKI 124
Query: 240 QDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVI 299
+ EG +E K ++ +N+RLV+
Sbjct: 125 E-----EGDQE-----------------------------------AKQRLAEANLRLVV 144
Query: 300 SIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 359
SIAK Y G GM DL+QEG GL++ EKFD KGFKFSTYA WWI+QA+ ++++DQ+R
Sbjct: 145 SIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQAR 204
Query: 360 TIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLD 419
TIR+P HMVE ++ ++QL + GR P EE+ L +++ +L + P SL+
Sbjct: 205 TIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLE 264
Query: 420 QKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDG 479
IG + + I D +A + + + +KE LE VLDTL RE V+R RFGL+DG
Sbjct: 265 TPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDG 324
Query: 480 RMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
R +TL+E+G++ GV+RERIRQIE+ A RKL++ R+K L +
Sbjct: 325 RTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDF 366
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 227 bits (579), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 110/236 (46%), Positives = 158/236 (66%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD KG+KFSTYA WW
Sbjct: 134 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 193
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE+AE L+ +++
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 253
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
+L + P SL+ IG + + I D EA + D + +KE LE VLDTL R
Sbjct: 254 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 313
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E V+R RFGL+DGR +TL+E+G++ GV+RERIRQIE+ A RKL++ R+K L +
Sbjct: 314 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDF 369
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 223 bits (569), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 116/298 (38%), Positives = 189/298 (63%), Gaps = 3/298 (1%)
Query: 225 RLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGI 284
RLLTA EE+ +Q L+ L + L +R G P+ +WAAA ++ +L R++ G
Sbjct: 24 RLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDLNLEDLDRQIEQGQ 83
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
K KMI +N+RLV+SIAK YQ M DL+QEG GL RG EKFD SKG+KFSTYA+W
Sbjct: 84 RAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYW 143
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ ++++ QSRTIRLP H+ E ++K+ +++L + GR E+AE L +++
Sbjct: 144 WIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEVLELPLEQ 203
Query: 405 LHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNP 464
+ + + P SLD K+G +Q+ + E++ D E + D + ++ ++ DL ++ L P
Sbjct: 204 VREYIQMNRQPVSLDVKVGDSQDTELQELLED-EQSSPSDYVEQESLRRDLRNLMAELTP 262
Query: 465 RERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQYA 522
+++ V+ R+GL++G +L ++GE + +SRER+R++E A L ++R++ L +YA
Sbjct: 263 QQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHL--RRRSRLLAEYA 318
>sp|O33662|RPOD_STRMU RNA polymerase sigma factor RpoD OS=Streptococcus mutans serotype c
(strain ATCC 700610 / UA159) GN=rpoD PE=3 SV=1
Length = 371
Score = 220 bits (560), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 104/242 (42%), Positives = 158/242 (65%)
Query: 281 NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFST 340
N + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD SKGFKFST
Sbjct: 128 NGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFST 187
Query: 341 YAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGL 400
YA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E G+ P E++AE +
Sbjct: 188 YATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDM 247
Query: 401 SMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLD 460
+ ++ +L + P SL+ IG + + I D E D + ++E L++VLD
Sbjct: 248 TPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLD 307
Query: 461 TLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQ 520
TL RE V+R RFGL+DG+M+TL+++G++ V+RERIRQIE+ A RKL++ R+K L
Sbjct: 308 TLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSKQLRD 367
Query: 521 YA 522
+
Sbjct: 368 FV 369
>sp|P0A4J0|RPOD_STRR6 RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
(strain ATCC BAA-255 / R6) GN=rpoD PE=3 SV=1
Length = 369
Score = 218 bits (556), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 103/238 (43%), Positives = 156/238 (65%)
Query: 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAH 343
I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD SKGFKFSTYA
Sbjct: 129 IEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYAT 188
Query: 344 WWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMK 403
WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E G+ P E++AE ++
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPD 248
Query: 404 RLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLN 463
++ +L + P SL+ IG + + I D E D + ++E L+++LDTL
Sbjct: 249 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLT 308
Query: 464 PRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE V+R RFGL+DG+M+TL+++G++ V+RERIRQIE+ A RKL+ R+K L +
Sbjct: 309 DREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPLRDF 366
>sp|P0A4I9|RPOD_STRPN RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rpoD PE=3
SV=1
Length = 369
Score = 218 bits (556), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 103/238 (43%), Positives = 156/238 (65%)
Query: 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAH 343
I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD SKGFKFSTYA
Sbjct: 129 IEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYAT 188
Query: 344 WWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMK 403
WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E G+ P E++AE ++
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPD 248
Query: 404 RLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLN 463
++ +L + P SL+ IG + + I D E D + ++E L+++LDTL
Sbjct: 249 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLT 308
Query: 464 PRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE V+R RFGL+DG+M+TL+++G++ V+RERIRQIE+ A RKL+ R+K L +
Sbjct: 309 DREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPLRDF 366
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 215 bits (548), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 123/296 (41%), Positives = 176/296 (59%), Gaps = 13/296 (4%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LLTA EE+ L+ ++ L E E+ GG+ A +L R + G +
Sbjct: 33 LLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV------DLDRLVVMGRM 79
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++I SN+RLV+S+AK Y G G+ + DLVQEG GL+R EKFD ++G+KFSTYA WW
Sbjct: 80 AKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 139
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++L+DQ+RTIR+P H+VE RV ++++ E G P EEVA L+ +R+
Sbjct: 140 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTPERV 199
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
VL + P SL +G ++ ++I D +A + + E LE VL TL R
Sbjct: 200 LEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLRCEHLEAVLSTLGER 259
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
ER+VV+ R+GL DGR +TL+EIG + GV+RERIRQIES KL++ L Y
Sbjct: 260 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGY 315
>sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor HrdB OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdB
PE=3 SV=2
Length = 511
Score = 215 bits (547), Expect = 9e-55, Method: Compositional matrix adjust.
Identities = 108/249 (43%), Positives = 160/249 (64%)
Query: 273 QRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA 332
+REL G K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD
Sbjct: 261 KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDY 320
Query: 333 SKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNE 392
+KG+KFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++Q+ + GR P E
Sbjct: 321 TKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPE 380
Query: 393 EVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMK 452
E+A+ ++ +++ V + P SL +G + + + ++I D EA D + ++
Sbjct: 381 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 440
Query: 453 EDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNK 512
E L VLDTL+ RE VV RFGL DG+ KTL EIG++ GV+RERIRQIES KL++
Sbjct: 441 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 500
Query: 513 KRTKHLMQY 521
R++ L Y
Sbjct: 501 SRSQVLRDY 509
>sp|Q03066|RPSC_NOSS1 RNA polymerase sigma-C factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigC PE=3 SV=2
Length = 416
Score = 214 bits (546), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 122/331 (36%), Positives = 193/331 (58%), Gaps = 32/331 (9%)
Query: 215 RYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQ- 273
RYL+ R++ AN Q L L ++E L+ G P+ +WAA AG++
Sbjct: 89 RYLKL-----RIVLANAVKQGDEVATPYLHLIEVQERLASELGHRPSLERWAATAGINLC 143
Query: 274 ---------------------RELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNL 312
EL + + G+ K+ MI +N+RLV+S+AK YQ G+ L
Sbjct: 144 DLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLEL 203
Query: 313 QDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATY 372
DLVQEG GL R EKFD +KG++FSTYA+WWI+Q + ++++ SRTIRLP H+ E
Sbjct: 204 LDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLN 263
Query: 373 RVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPR--SLDQKIGINQNLKP 430
++K+A++++ E GR P E++A ++ ++ VLL + PR SL+ K+G +++ +
Sbjct: 264 KIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREVLL--RVPRSVSLETKVGKDKDTEL 321
Query: 431 SEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGEL 490
E++ + + T E++L+++ ++ DL+ +L L RER V+ RFGL DG +L EIG
Sbjct: 322 GELL-ETDGVTPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRA 380
Query: 491 MGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
+ +SRER+RQIES A +KL+ KR + Y
Sbjct: 381 LDLSRERVRQIESKALQKLRQPKRRNLIRDY 411
>sp|Q04506|RPOD_LACLA RNA polymerase sigma factor RpoD OS=Lactococcus lactis subsp.
lactis (strain IL1403) GN=rpoD PE=3 SV=2
Length = 386
Score = 214 bits (545), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 102/237 (43%), Positives = 155/237 (65%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
K + +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD +KGFKFSTYA W
Sbjct: 149 FAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATW 208
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E GR P+ EE+ + ++ +
Sbjct: 209 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAPDK 268
Query: 405 LHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNP 464
+ VL + P SL+ IG + + I D E+ D + ++E L++V+DTL
Sbjct: 269 VREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTD 328
Query: 465 RERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE V+R RFGL+DGRM TL+++G+ V+RERIRQIE+ A +KL++ +R+K L +
Sbjct: 329 REENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDF 385
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 214 bits (545), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 102/237 (43%), Positives = 155/237 (65%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
K + +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD +KGFKFSTYA W
Sbjct: 127 FAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATW 186
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E GR P+ EE+ + ++ +
Sbjct: 187 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAPDK 246
Query: 405 LHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNP 464
+ VL + P SL+ IG + + I D E+ D + ++E L++V+DTL
Sbjct: 247 VREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTD 306
Query: 465 RERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE V+R RFGL+DGRM TL+++G+ V+RERIRQIE+ A +KL++ +R+K L +
Sbjct: 307 REENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDF 363
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 214 bits (545), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 108/249 (43%), Positives = 160/249 (64%)
Query: 273 QRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA 332
+REL G K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD
Sbjct: 264 KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDY 323
Query: 333 SKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNE 392
+KG+KFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++Q+ + GR P E
Sbjct: 324 TKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPE 383
Query: 393 EVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMK 452
E+A+ ++ +++ V + P SL +G + + + ++I D EA D + ++
Sbjct: 384 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 443
Query: 453 EDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNK 512
E L VLDTL+ RE VV RFGL DG+ KTL EIG++ GV+RERIRQIES KL++
Sbjct: 444 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 503
Query: 513 KRTKHLMQY 521
R++ L Y
Sbjct: 504 SRSQVLRDY 512
>sp|P18182|HRDA_STRCO RNA polymerase principal sigma factor HrdA OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdA
PE=3 SV=2
Length = 396
Score = 214 bits (544), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 107/239 (44%), Positives = 155/239 (64%)
Query: 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 342
G L K ++I +N+RLV+S+AK Y G G+ + DLVQEG GL+R EKFD ++G+KFSTYA
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 215
Query: 343 HWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSM 402
WWI+QA+ ++L+DQ+RTIR+P H+VE RV ++++ E G P +EVA L+
Sbjct: 216 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAP 275
Query: 403 KRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTL 462
+R+ VL + P SL +G ++ ++I D +A + + +++ LE VL TL
Sbjct: 276 ERVGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTL 335
Query: 463 NPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RER+VV+ R+GL DGR +TL+EIG L GV+RERIRQIES KL++ L Y
Sbjct: 336 GERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAYADQLRGY 394
>sp|P55993|RPOD_HELPY RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
ATCC 700392 / 26695) GN=rpoD PE=3 SV=1
Length = 671
Score = 211 bits (537), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 103/237 (43%), Positives = 160/237 (67%), Gaps = 1/237 (0%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+KM SN+RLV+SIAK + G+ DL+QEG GL++ +KF+ KGFKFSTYA WW
Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
IKQA+ ++++DQ+RTIR+P HM++ R+ + ++ ENG+ P+ E VAE GLS+ ++
Sbjct: 492 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKV 551
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
V+ K P SL+ +G + + K + + D ++ D ++++ +K +E VLD LN R
Sbjct: 552 KNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNER 611
Query: 466 ERQVVRWRFG-LEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E+ V+R RFG L+D +TL+EIG+ + V+RER+RQIESSA +KL++ + + L Y
Sbjct: 612 EKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLRSPQYGRILRNY 668
>sp|P59117|RPOD_LEPIN RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
GN=rpoD PE=3 SV=1
Length = 585
Score = 211 bits (536), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 102/236 (43%), Positives = 154/236 (65%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K +++ +N+RLV+SIAK Y GM+ DL+QEG GL++ +KF+ KG+KFSTYA WW
Sbjct: 347 AKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWW 406
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ +++SDQ+RTIR+P HM+E +V + E GR PNNEE+AE G ++++
Sbjct: 407 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKV 466
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
V + P SL+ +G ++ + + I D E ET + + E + +VL TL R
Sbjct: 467 KMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAR 526
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E++V+R RFGL+DG +TL+E+G V+RERIRQIE+ A R+L++ R+K L Y
Sbjct: 527 EQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDY 582
>sp|P61540|RPOD_LEPIC RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar copenhageni
(strain Fiocruz L1-130) GN=rpoD PE=3 SV=1
Length = 585
Score = 211 bits (536), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 102/236 (43%), Positives = 154/236 (65%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K +++ +N+RLV+SIAK Y GM+ DL+QEG GL++ +KF+ KG+KFSTYA WW
Sbjct: 347 AKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWW 406
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ +++SDQ+RTIR+P HM+E +V + E GR PNNEE+AE G ++++
Sbjct: 407 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKV 466
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
V + P SL+ +G ++ + + I D E ET + + E + +VL TL R
Sbjct: 467 KMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAR 526
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E++V+R RFGL+DG +TL+E+G V+RERIRQIE+ A R+L++ R+K L Y
Sbjct: 527 EQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDY 582
>sp|Q59996|RPSC_SYNY3 Probable RNA polymerase sigma-C factor OS=Synechocystis sp. (strain
PCC 6803 / Kazusa) GN=sigC PE=3 SV=1
Length = 404
Score = 210 bits (535), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 101/247 (40%), Positives = 165/247 (66%), Gaps = 5/247 (2%)
Query: 265 WAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 324
WA AG+ EL GI K MI +N+RLV+S+AK YQ G+ L DL+QEG GL
Sbjct: 144 WAELAGLTVEELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 203
Query: 325 RGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSE 384
R EKFD +KG++FSTY++WWI+Q + ++++ QSR IRLP H+ E ++K A++++ E
Sbjct: 204 RAVEKFDPTKGYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQE 263
Query: 385 NGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEV--IADPEAETA 442
G P +EVAE G++ +++ VL + PRS+ ++ + Q+ K +E+ + + + ++
Sbjct: 264 KGHTPKIDEVAEELGMTPEQVREVL--TQVPRSVSLELKVGQD-KDTELMDLLETDTQSP 320
Query: 443 EDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIE 502
ED L+++ ++ D++++L L PRE++V+ RFG +DG +L EIG ++ +SRER+RQIE
Sbjct: 321 EDELMREALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIE 380
Query: 503 SSAFRKL 509
+ A +KL
Sbjct: 381 AKALQKL 387
>sp|O24621|SIGC_ARATH RNA polymerase sigma factor sigC OS=Arabidopsis thaliana GN=SIGC
PE=2 SV=1
Length = 571
Score = 209 bits (532), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 104/291 (35%), Positives = 187/291 (64%), Gaps = 1/291 (0%)
Query: 232 EMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMI 291
E ++S G++ + +E +R L E G + + WAAAAG++++ L R L+YG C+D+++
Sbjct: 278 ETEMSTGVKIVADMERIRTQLEEESGKVASLSCWAAAAGMNEKLLMRNLHYGWYCRDELV 337
Query: 292 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 351
S LV+ +A+NY+G G+ +DL+Q G G+++GAE+FD ++G+KFSTY +WI++++
Sbjct: 338 KSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKSMS 397
Query: 352 KSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENG-RHPNNEEVAEATGLSMKRLHAVLL 410
+S +R + +P ++ +++ARK L + +G ++ +EE+A+ TG S+K++ A
Sbjct: 398 TMVSRHARGVHIPSSIIRTINHIQKARKTLKTSHGIKYAADEEIAKLTGHSVKKIRAANQ 457
Query: 411 SPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVV 470
K S+D+K+G K E D E+ E+ ++++ + D+ +L+ L PRE+QV+
Sbjct: 458 CLKVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHDLLEGLEPREKQVM 517
Query: 471 RWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
R+GL+D R K+L+EIG+L+ VS+E IR+IE A KL+++ + L Y
Sbjct: 518 VLRYGLQDYRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRDQPNAEDLRYY 568
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 208 bits (530), Expect = 7e-53, Method: Compositional matrix adjust.
Identities = 102/237 (43%), Positives = 159/237 (67%), Gaps = 1/237 (0%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+KM SN+RLV+SIAK + G+ DL+QEG GL++ +KF+ KGFKFSTYA WW
Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
IKQA+ ++++DQ+RTIR+P HM++ R+ + ++ E G+ P+ E VAE GLS+ ++
Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGLSLDKV 561
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
V+ K P SL+ +G + + K + + D ++ D ++++ +K +E VLD LN R
Sbjct: 562 KNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNER 621
Query: 466 ERQVVRWRFG-LEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E+ V+R RFG L+D +TL+EIG+ + V+RER+RQIESSA +KL++ + + L Y
Sbjct: 622 EKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLRSPQYGRILRNY 678
>sp|D5AQI9|RPOD_RHOCB RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus (strain
ATCC BAA-309 / NBRC 16581 / SB1003) GN=rpoD PE=3 SV=1
Length = 674
Score = 206 bits (524), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 108/267 (40%), Positives = 162/267 (60%), Gaps = 7/267 (2%)
Query: 262 FAQWAAAAGVDQRELRRRLNY-------GILCKDKMITSNIRLVISIAKNYQGAGMNLQD 314
AQ GVD E RR +N K +M+ +N+RLVISIAK Y G+ D
Sbjct: 405 MAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD 464
Query: 315 LVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRV 374
L+QEG GL++ +KF+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+P HM+E ++
Sbjct: 465 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 524
Query: 375 KEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVI 434
+Q+ E GR P EE+AE + ++++ V+ K P SL+ IG ++ + + I
Sbjct: 525 VRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFI 584
Query: 435 ADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVS 494
D A D I++ +KE +VL +L PRE +V+R RFG+ TL+E+G+ V+
Sbjct: 585 EDKNAILPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT 644
Query: 495 RERIRQIESSAFRKLKNKKRTKHLMQY 521
RERIRQIE+ A RKLK+ R++ L +
Sbjct: 645 RERIRQIEAKALRKLKHPSRSRKLRSF 671
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 206 bits (523), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 108/267 (40%), Positives = 162/267 (60%), Gaps = 7/267 (2%)
Query: 262 FAQWAAAAGVDQRELRRRLNY-------GILCKDKMITSNIRLVISIAKNYQGAGMNLQD 314
AQ GVD E RR +N K +M+ +N+RLVISIAK Y G+ D
Sbjct: 405 MAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD 464
Query: 315 LVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRV 374
L+QEG GL++ +KF+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+P HM+E ++
Sbjct: 465 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 524
Query: 375 KEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVI 434
+Q+ E GR P EE+AE + ++++ V+ K P SL+ IG ++ + + I
Sbjct: 525 VRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGHEEDSQLGDFI 584
Query: 435 ADPEAETAEDLLIKKFMKEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVS 494
D A D I++ +KE +VL +L PRE +V+R RFG+ TL+E+G+ V+
Sbjct: 585 EDKNAILPLDSAIQENLKETTTRVLPSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT 644
Query: 495 RERIRQIESSAFRKLKNKKRTKHLMQY 521
RERIRQIE+ A RKLK+ R++ L +
Sbjct: 645 RERIRQIEAKALRKLKHPSRSRKLPSF 671
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 205 bits (521), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 105/250 (42%), Positives = 157/250 (62%)
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
D R L+R ++ K +M+ SN+RLVISIAK Y G++ DL+QEG GL++ EKF+
Sbjct: 303 DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 362
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
+G+KFSTYA WWI+QAV ++++DQ+RTIR+P HM+E +V K+L E G+ P
Sbjct: 363 YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP 422
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFM 451
EE+AE GL+ R+ + + P SL ++G + + D E+ + +
Sbjct: 423 EELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYSML 482
Query: 452 KEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKN 511
K+ +++VL TL RER V+ RFGL DG+ KTL+E+G V+RERIRQIE+ A RK+++
Sbjct: 483 KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRH 542
Query: 512 KKRTKHLMQY 521
R+K L +
Sbjct: 543 PIRSKQLRAF 552
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 204 bits (518), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 98/237 (41%), Positives = 151/237 (63%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
+ K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA W
Sbjct: 445 IAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 504
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + +++
Sbjct: 505 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEK 564
Query: 405 LHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNP 464
+ VL K P SL+ +G ++ + I D A D I+ ++E +VL +L P
Sbjct: 565 VRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTP 624
Query: 465 RERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE +V+R RFG+ TL+E+G+ V+RERIRQIE+ A RKLK+ R++ L +
Sbjct: 625 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 681
>sp|P52323|RPOD_BORBU RNA polymerase sigma factor RpoD OS=Borrelia burgdorferi (strain
ATCC 35210 / B31 / CIP 102532 / DSM 4680) GN=rpoD PE=3
SV=2
Length = 631
Score = 203 bits (517), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 103/236 (43%), Positives = 152/236 (64%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
KD++I +N+RLV+SIAK Y G++ DLVQEG GL++ EKF+ +GFKFSTYA WW
Sbjct: 391 AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEKFEYKRGFKFSTYATWW 450
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ +S+SDQ+RTIR+P HM+E R+ + L G+ P +EE+++ G +K++
Sbjct: 451 IRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKDPTDEELSDRLGWELKKV 510
Query: 406 HAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNPR 465
V + P SL+ IG ++ S+ I D + + +++ + +L TL R
Sbjct: 511 KTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSFVVLQDQIRAILGTLPER 570
Query: 466 ERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
E++VV+ RFGLEDG TL+E+G V+RERIRQIES A R+LKN K+T+ L Y
Sbjct: 571 EQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRRLKNPKKTQKLKDY 626
>sp|Q2K619|RPOD_RHIEC RNA polymerase sigma factor rpoD OS=Rhizobium etli (strain CFN 42 /
ATCC 51251) GN=sigA PE=1 SV=1
Length = 685
Score = 203 bits (516), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 98/237 (41%), Positives = 151/237 (63%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
+ K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA W
Sbjct: 446 IAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 505
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + +++
Sbjct: 506 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEK 565
Query: 405 LHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFMKEDLEKVLDTLNP 464
+ VL K P SL+ +G ++ + I D A D I+ ++E +VL +L P
Sbjct: 566 VRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTP 625
Query: 465 RERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKNKKRTKHLMQY 521
RE +V+R RFG+ TL+E+G+ V+RERIRQIE+ A RKLK+ R++ L +
Sbjct: 626 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 682
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 203 bits (516), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 104/250 (41%), Positives = 156/250 (62%)
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
D R L+R ++ K +M+ SN+RLVISIAK Y G++ DL+QEG GL++ EKF+
Sbjct: 303 DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 362
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
+G+KFSTYA WWI+QAV ++++DQ+RTIR+P HM+E +V K+L E G+ P
Sbjct: 363 YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP 422
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSEVIADPEAETAEDLLIKKFM 451
EE+ E G + R+ + + P SL ++G + + + D E+ + +
Sbjct: 423 EELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYSML 482
Query: 452 KEDLEKVLDTLNPRERQVVRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLKN 511
K+ +++VL TL RER V+ RFGL DGR KTL+E+G V+RERIRQIE+ A RK+++
Sbjct: 483 KDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKMRH 542
Query: 512 KKRTKHLMQY 521
R+K L +
Sbjct: 543 PIRSKQLRAF 552
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.313 0.126 0.343
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 172,063,109
Number of Sequences: 539616
Number of extensions: 6702684
Number of successful extensions: 22135
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 165
Number of HSP's successfully gapped in prelim test: 146
Number of HSP's that attempted gapping in prelim test: 21642
Number of HSP's gapped (non-prelim): 468
length of query: 525
length of database: 191,569,459
effective HSP length: 122
effective length of query: 403
effective length of database: 125,736,307
effective search space: 50671731721
effective search space used: 50671731721
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 64 (29.3 bits)