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= 010521
(508 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O24629|SIGA_ARATH RNA polymerase sigma factor sigA OS=Arabidopsis thaliana GN=SIGA
PE=1 SV=1
Length = 502
Score = 752 bits (1942), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 378/519 (72%), Positives = 434/519 (83%), Gaps = 29/519 (5%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 171 bits (433), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 112/338 (33%), Positives = 192/338 (56%), Gaps = 9/338 (2%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLR 230
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTE 297
Query: 231 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
L ER G +P+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G +
Sbjct: 298 LTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMN 357
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 LQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEAT 417
Query: 351 GLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
++ A+ +L E G P + IAE +S K++ + SLD++ + N P
Sbjct: 418 YRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPS 477
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWE 468
E IAD + + ++ ++ +++K ++ +LG RE+++IR +G+ D T +
Sbjct: 478 EV----IADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKTLQ 531
Query: 469 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
+I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 532 EIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 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 = 170 bits (431), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 167 bits (424), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 188/315 (59%), Gaps = 13/315 (4%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
G+EKFD SKG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L ++ + L ++
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQL 184
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G + + +AE L + ++VR + + SLD + G +T + ++ ++
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLDVKV-----GDSQDTELQELLEDE-QS 238
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
+P V+ +L+ ++ L + L +++ +I L YGLD+ + L+ + +R+ +SRERVR
Sbjct: 239 SPSDYVEQESLRRDLRNL-MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVR 297
Query: 483 QVGLVALEKLKHAAR 497
++ A++ L+ +R
Sbjct: 298 KLERQAMDHLRRRSR 312
>sp|Q03065|RPSB_NOSS1 RNA polymerase sigma-B factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigB PE=3 SV=1
Length = 332
Score = 167 bits (422), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 98/292 (33%), Positives = 171/292 (58%), Gaps = 11/292 (3%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL+H + + +++++ + + K L E+L EP++++ A +++ L L + +
Sbjct: 37 LLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVLLQQLSQGQI 96
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+K STY YWW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G V IA+ LN+ ++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLEPSQI 216
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + + SLD G +T + D+ + +P + L +++ L
Sbjct: 217 REYLQLVRQPVSLDMRI-----GFEQDTQLQDLLKDDGM--SPERYAERELLYQDIHNL- 268
Query: 443 IVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLK 493
+ L +++E++ L +GL C LT IS+R+G+SRERVRQV AL L+
Sbjct: 269 LAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQALTLLR 320
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 165 bits (418), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 175/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 327
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 328 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 373
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 374 IRQIEAKALRKLRHPNR 390
>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 = 164 bits (416), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KM 501
++
Sbjct: 364 QL 365
>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 = 162 bits (411), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 162 bits (411), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 162 bits (411), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 183/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 68
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 69 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 126
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 127 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAE 186
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L ++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 187 EVAVHLELTPERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 238
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L+ E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 239 SAAFFLRCEHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 298
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 299 TLNKLRDHAFADQLRGYL 316
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 161 bits (408), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 179/309 (57%), Gaps = 16/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 131
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ + +L ++ G T ++
Sbjct: 132 TKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTATLP 191
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWH 427
+A L+++ +VR+ E SLD G+ + + D +E + P
Sbjct: 192 ELAAALDLTPAQVRDYLEKARHPLSLDLRV--------GDNQDTELGDL-LETDCTTPEE 242
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+++ ++++L + L E++R++I L YGL D + +T I R+ +SRERVRQ+
Sbjct: 243 FTLQASMRRDIDRL-LDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLER 301
Query: 487 VALEKLKHA 495
AL L+ A
Sbjct: 302 EALHTLRQA 310
>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 = 160 bits (406), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ AE V L+++++ GL + E+L C P ++ A
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL----- 147
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 148 -DLDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 206
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 207 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQE 266
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ A E +G+V L +E SL+ GE + D + + V+
Sbjct: 267 VAAHLDL-------APERVGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 318
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 319 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKT 378
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 379 LSKLRDHAYADQLRGYL 395
>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 = 159 bits (402), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDGV------TPEEMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 = 158 bits (400), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 152/244 (62%), Gaps = 15/244 (6%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 213
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 273
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
AE L M+ ++VR + + SL+ + G+ + + D +E + D+
Sbjct: 274 AEELGMTPEQVREVLTQVPRSVSLELKV--------GQDKDTELMD-LLETDTQSPEDEL 324
Query: 433 ---ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
AL++++ + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ A
Sbjct: 325 MREALQNDMQE-ILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKA 383
Query: 489 LEKL 492
L+KL
Sbjct: 384 LQKL 387
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 158 bits (399), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 173/304 (56%), Gaps = 8/304 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 235 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 294
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 295 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 354
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDR 371
G + +TY YWWIRQ + +++ +NSRT+RLP +++ LG + A K ++E PS +
Sbjct: 355 SGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEE 414
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A ++ +S +K+ S+ + + + T D+ +E P V
Sbjct: 415 LAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDT----TFQEITPDSGIE-TPTMSVGK 469
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALE 490
+++ V L+ V L +ER II+L +G+D + + +I + GLS+ERVRQ+ AL
Sbjct: 470 QLMRNHVRNLLNV-LSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALY 528
Query: 491 KLKH 494
+LK
Sbjct: 529 RLKQ 532
>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 = 157 bits (397), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDALAPSDAAAYELLKEQLE 305
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 306 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 364
Query: 499 KKMEAML 505
K+++ L
Sbjct: 365 KRLKDFL 371
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 157 bits (397), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 157 bits (397), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA + +S +KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKV 259
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D + D A LK+++
Sbjct: 260 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIEDQEALTPADAAAYELLKEQLED 311
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 312 -VLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 370
Query: 500 KMEAML 505
+++ L
Sbjct: 371 RLKDFL 376
>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 = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 207 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 266
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 267 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 318
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 319 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 377
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 378 RSKPLRDFM 386
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 149/245 (60%), Gaps = 14/245 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 185 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 244
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 245 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 296
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 297 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 355
Query: 497 RKKKM 501
R K +
Sbjct: 356 RSKPL 360
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 156 bits (394), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR +V + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EVLKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 155 bits (393), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 439
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 590 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 640
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 641 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 699
Query: 499 KKMEAML 505
K++ + +
Sbjct: 700 KRLRSFV 706
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 155 bits (393), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 98/294 (33%), Positives = 170/294 (57%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +L+I + + A+++L +N+RL
Sbjct: 91 TGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGDQE--------AKQRLAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED-VLDTLTDREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>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 = 155 bits (391), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 101/297 (34%), Positives = 173/297 (58%), Gaps = 27/297 (9%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + RI +++ A+ +L +N+
Sbjct: 95 VPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIE--------AKGRLAEANL 146
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+
Sbjct: 147 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIA 206
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 393
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR ++
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVR-------EI 259
Query: 394 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGER 449
+ +E SL GE S++ D +E+ D A LK+++ ++ TL +R
Sbjct: 260 LKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLED-VLDTLTDR 316
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 317 EENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 373
>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 = 155 bits (391), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/297 (34%), Positives = 173/297 (58%), Gaps = 27/297 (9%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + RI +++ A+ +L +N+
Sbjct: 95 VPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIE--------AKGRLAEANL 146
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+
Sbjct: 147 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIA 206
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 393
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR ++
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVR-------EI 259
Query: 394 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGER 449
+ +E SL GE S++ D +E+ D A LK+++ ++ TL +R
Sbjct: 260 LKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLED-VLDTLTDR 316
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 317 EENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 373
>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 = 154 bits (389), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 89/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EKL+ SN+RLV+SIA+RY G DL+Q G IGLL+ +EKFD KG+K STY WW
Sbjct: 155 AKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWW 214
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L R + ++ G PS++ +A+ + +K+
Sbjct: 215 IRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEELAKMMGKPPEKI 274
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDEVN 439
+ EA + SL+ GE S ++AD+ + +P +++E+
Sbjct: 275 KEILEAAKETISLESPI--------GEDEDSSIEDFVADDSI-ASPKKEAMRMLMREELE 325
Query: 440 KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL RE ++R+ YG LD + T E++ + ++RER+RQ+ + AL KL+H +R
Sbjct: 326 K-VLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRS 384
Query: 499 KKMEAML 505
K ++++L
Sbjct: 385 KYLKSLL 391
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 154 bits (388), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 100/297 (33%), Positives = 173/297 (58%), Gaps = 27/297 (9%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + +I + +S + +L +N+
Sbjct: 92 VPPGVKINDPVRMYLKEIGRVNLLSAKEEIAYAQKIEEGDEES--------KRRLAEANL 143
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++RA+
Sbjct: 144 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIA 203
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 393
+ +RT+R+P H+ E + LIR + L++ G P+ + IAE ++++ +KVR ++
Sbjct: 204 DQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKVR-------EI 256
Query: 394 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGER 449
+ +E SL GE S++ D +E+ D A LK+++ ++ TL +R
Sbjct: 257 LKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEATSPSDHAAYELLKEQLED-VLDTLTDR 313
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 370
>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 = 154 bits (388), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/244 (38%), Positives = 139/244 (56%), Gaps = 27/244 (11%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP HL+E + I + KL +E P+ + IAE + M+ +K+
Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKL 308
Query: 384 RNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK-- 440
R F P SL G+ S + D + D +DEV+K
Sbjct: 309 R---------FIAKSAQLPISLETPIGKEEDSRLGD-------FIEADGETPEDEVSKNL 352
Query: 441 ------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 493
++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+
Sbjct: 353 LREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 412
Query: 494 HAAR 497
H R
Sbjct: 413 HPNR 416
>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 = 153 bits (387), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E++ +IR +L ++E G P+ + IAE L
Sbjct: 403 ATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWP 462
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN 439
+KV+ + SL+ + G+ +I D VE P + L +++
Sbjct: 463 VQKVKMVKNVAREPISLEIPVGSEEDSELGD----FIPDTEVE-TPVNAAASSILAEQIR 517
Query: 440 KLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL RE+++IR+ +GLD T E++ + ++RER+RQ+ AL +L+H +R
Sbjct: 518 Q-VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRS 576
Query: 499 KKM 501
KK+
Sbjct: 577 KKL 579
>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 = 153 bits (387), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E++ +IR +L ++E G P+ + IAE L
Sbjct: 403 ATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWP 462
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN 439
+KV+ + SL+ + G+ +I D VE P + L +++
Sbjct: 463 VQKVKMVKNVAREPISLEIPVGSEEDSELGD----FIPDTEVE-TPVNAAASSILAEQIR 517
Query: 440 KLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL RE+++IR+ +GLD T E++ + ++RER+RQ+ AL +L+H +R
Sbjct: 518 Q-VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRS 576
Query: 499 KKM 501
KK+
Sbjct: 577 KKL 579
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 153 bits (387), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 89/276 (32%), Positives = 157/276 (56%), Gaps = 19/276 (6%)
Query: 241 MEQLAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
++ LA IS E + I+ E +A++++V +N+RLV+SIA++Y N G D
Sbjct: 415 IQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLD 474
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-L 352
L+Q G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + +
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKI 534
Query: 353 IRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH 412
+R ++ L E G P+ + +AE L M +KVR KV + +E SL G+
Sbjct: 535 VRTSRQMLHEIGREPTPEELAEKLAMPLEKVR-------KVLKIAKEPI-SLETPVGDEE 586
Query: 413 HSYIADNRVENNPWHGVDDWALKD--EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWED 469
S++ D + N +D + E ++ +L RE ++R+ +G+ T E+
Sbjct: 587 DSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 646
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ ++ ++RER+RQ+ AL KLKH +R +K+ + L
Sbjct: 647 VGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>sp|P33452|RPOD_AGRT5 RNA polymerase sigma factor RpoD OS=Agrobacterium tumefaciens
(strain C58 / ATCC 33970) GN=rpoD PE=3 SV=2
Length = 684
Score = 152 bits (385), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 83/249 (33%), Positives = 147/249 (59%), Gaps = 12/249 (4%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 442 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 501
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 502 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 561
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD--E 437
+KVR KV + +E SL G+ S++ D + N +D + E
Sbjct: 562 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRE 613
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +
Sbjct: 614 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPS 673
Query: 497 RKKKMEAML 505
R +K+ + L
Sbjct: 674 RSRKLRSFL 682
>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 = 152 bits (384), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 83/249 (33%), Positives = 147/249 (59%), Gaps = 12/249 (4%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 443 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 502
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 503 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 562
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD--E 437
+KVR KV + +E SL G+ S++ D + N +D + E
Sbjct: 563 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRE 614
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +
Sbjct: 615 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPS 674
Query: 497 RKKKMEAML 505
R +K+ + L
Sbjct: 675 RSRKLRSFL 683
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 151 bits (382), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 177/316 (56%), Gaps = 27/316 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTP 367
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P
Sbjct: 337 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREP 394
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ + +A+ ++++ +KV + + SLD+ G+ S + D ++
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVV 446
Query: 428 GVDDWA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
VD + L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ
Sbjct: 447 AVDAVSFTLLQDQLQS-VLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQ 505
Query: 484 VGLVALEKLKHAARKK 499
+ + KL+H +R +
Sbjct: 506 IESKTMSKLRHPSRSQ 521
>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 = 151 bits (382), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 177/316 (56%), Gaps = 27/316 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTP 367
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P
Sbjct: 337 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREP 394
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ + +A+ ++++ +KV + + SLD+ G+ S + D ++
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVV 446
Query: 428 GVDDWA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
VD + L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ
Sbjct: 447 AVDAVSFTLLQDQLQS-VLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQ 505
Query: 484 VGLVALEKLKHAARKK 499
+ + KL+H +R +
Sbjct: 506 IESKTMSKLRHPSRSQ 521
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/239 (38%), Positives = 140/239 (58%), Gaps = 17/239 (7%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+ + IA + M+ +K+
Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299
Query: 384 RNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
R F P SL G+ S + D +E + P V L++++
Sbjct: 300 R---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGETPEDEVSKNLLREDLE 349
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 350 N-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 407
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 150 bits (379), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/268 (33%), Positives = 155/268 (57%), Gaps = 12/268 (4%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
+ E G P+ + +AE L ++ +VR + SL E G+ ++ D
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGD----FLED 467
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLS 477
VE +P LKD++ K ++ TL +RER ++ +G LD + T E++ ++
Sbjct: 468 TAVE-SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVT 525
Query: 478 RERVRQVGLVALEKLKHAARKKKMEAML 505
RER+RQ+ AL K++H R K++ A L
Sbjct: 526 RERIRQIEAKALRKMRHPIRSKQLRAFL 553
>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 = 150 bits (378), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 104/313 (33%), Positives = 178/313 (56%), Gaps = 29/313 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 215 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANSDKLA--PKLKR--------- 262
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 263 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ +
Sbjct: 322 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L+M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 382 LAKELDMTPEKVI-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 432
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+
Sbjct: 433 AVSFTLLQEQLHS-VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIES 491
Query: 487 VALEKLKHAARKK 499
+ KL+H +R +
Sbjct: 492 KTMSKLRHPSRSQ 504
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 150 bits (378), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 92/269 (34%), Positives = 154/269 (57%), Gaps = 14/269 (5%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH-SYIA 417
+ E G P+ + + E L + +VR + SL E G GE+ ++
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEV-----GDSGESSFGDFLE 466
Query: 418 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGL 476
D VE +P LKD++ K ++ TL +RER ++ +G LD T E++ +
Sbjct: 467 DTAVE-SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNV 524
Query: 477 SRERVRQVGLVALEKLKHAARKKKMEAML 505
+RER+RQ+ AL K++H R K++ A L
Sbjct: 525 TRERIRQIEAKALRKMRHPIRSKQLRAFL 553
>sp|P18333|RPOD_CHLTR RNA polymerase sigma factor RpoD OS=Chlamydia trachomatis (strain
D/UW-3/Cx) GN=rpoD PE=3 SV=2
Length = 571
Score = 149 bits (377), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 92/269 (34%), Positives = 154/269 (57%), Gaps = 14/269 (5%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH-SYIA 417
+ E G P+ + + E L + +VR + SL E G GE+ ++
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEV-----GDGGESSFGDFLE 466
Query: 418 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGL 476
D VE +P LKD++ K ++ TL +RER ++ +G LD T E++ +
Sbjct: 467 DTAVE-SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNV 524
Query: 477 SRERVRQVGLVALEKLKHAARKKKMEAML 505
+RER+RQ+ AL K++H R K++ A L
Sbjct: 525 TRERIRQIEAKALRKMRHPIRSKQLRAFL 553
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 149 bits (376), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 104/313 (33%), Positives = 178/313 (56%), Gaps = 29/313 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 218 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANADKLA--PKLKR--------- 265
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 266 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 324
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ +
Sbjct: 325 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 384
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L+M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 385 LAKELDMTPEKVI-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 435
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+
Sbjct: 436 AVSFTLLQEQLHS-VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIES 494
Query: 487 VALEKLKHAARKK 499
+ KL+H +R +
Sbjct: 495 KTMSKLRHPSRSQ 507
>sp|P52324|RPOD_CAUCR RNA polymerase sigma factor RpoD OS=Caulobacter crescentus (strain
ATCC 19089 / CB15) GN=rpoD PE=3 SV=1
Length = 652
Score = 149 bits (376), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 83/249 (33%), Positives = 146/249 (58%), Gaps = 12/249 (4%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 410 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 469
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 470 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 529
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD--E 437
+KVR KV + +E SL G+ S++ D + N +D + E
Sbjct: 530 LEKVR-------KVLKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRE 581
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +
Sbjct: 582 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPS 641
Query: 497 RKKKMEAML 505
R +K+ + L
Sbjct: 642 RSRKLRSFL 650
>sp|P18249|HRDD_STRCO RNA polymerase principal sigma factor HrdD OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdD
PE=3 SV=2
Length = 332
Score = 149 bits (375), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 111/324 (34%), Positives = 164/324 (50%), Gaps = 29/324 (8%)
Query: 187 ELIQNRLKG-YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
EL L G Y+ + LL A+ V LS+ I+ G+ L E G + +
Sbjct: 29 ELADRDLVGMYLDEIARTPLLDAAKEVELSQTIEAGV-FARQVLEGYEETGADAT----- 82
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
R ELQ+++ E A++ + SN+RLV+++A+RY G + DL+Q G GL+R
Sbjct: 83 ------REELQALIDESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRA 136
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 364
+EKFD KGFK STY WWIRQ ++R++ + SRT+RLP HL E LG IR + E G
Sbjct: 137 VEKFDYRKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHG 196
Query: 365 VTPSVDRIAEYLNMSQKKVRN----ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
P IA L + ++V + A + + S+D E GET + ++
Sbjct: 197 REPEPAEIAAELGSTPERVTDVLDWARDPVSLNMSVDDE---------GETQFGDLLEDT 247
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRE 479
+P V +E++ L I L R II++ YG+D T ++ K GL+RE
Sbjct: 248 SAVSPEQSVLTLLRSEELDDL-IGRLDPRTASIIKMRYGIDDGRERTLTEVGKEHGLTRE 306
Query: 480 RVRQVGLVALEKLKHAARKKKMEA 503
R+RQ+ AL +LK AR EA
Sbjct: 307 RIRQIEKHALLELKKLARDTGFEA 330
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
0.315 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 176,018,777
Number of Sequences: 539616
Number of extensions: 7212325
Number of successful extensions: 23775
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 158
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 23280
Number of HSP's gapped (non-prelim): 283
length of query: 508
length of database: 191,569,459
effective HSP length: 122
effective length of query: 386
effective length of database: 125,736,307
effective search space: 48534214502
effective search space used: 48534214502
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: 63 (28.9 bits)