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= 010308
(513 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9ZNX9|SIGE_ARATH RNA polymerase sigma factor sigE, chloroplastic/mitochondrial
OS=Arabidopsis thaliana GN=SIGE PE=1 SV=1
Length = 517
Score = 678 bits (1750), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 347/524 (66%), Positives = 416/524 (79%), Gaps = 18/524 (3%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALF-SPQEQIPLPIET 57
MGVV+ISSS ARSP+GL ++HRS+ K+P IVAFKAD S+N AL P+EQ+ +P E
Sbjct: 1 MGVVSISSSAARSPLGLGNDLLTHRSSLKKPSIVAFKADDSSNSALIIPPREQVLIPAE- 59
Query: 58 PKRHQKRRENSRKRLERVK----GVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTT-S 112
K ++K+RE +R++ + + + A C+L VDYNEAAA+LE+IYKLSPA TT
Sbjct: 60 -KHNEKKREVTRRKPCKTPKKPLSLEHNSAPSCSLGVDYNEAAARLESIYKLSPATTTLV 118
Query: 113 EVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEK 172
E DG K RR++ +K K VVRN VK+ KR+SLDKRI L++N EK
Sbjct: 119 EDDVEDGGSKAKVSRRRK-----RKESGEEKKVVVRNNVKKEKRMSLDKRIALKRNVQEK 173
Query: 173 VVTKT---RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQ 229
V + + T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVLSSTEH WLFKLMQ
Sbjct: 174 PVVASVDKKVTKRQQEEEKIERLVRDYSASNDIVSLDWKKMKIPPVLSSTEHAWLFKLMQ 233
Query: 230 PMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLF 289
PMK ++VK+ LQK LGREP + E+A NM+A +VKK +E+GRAARNKLIKHNLRLVLF
Sbjct: 234 PMKALLEVKDVLQKSLGREPREAEIAGEINMTAGEVKKKIEIGRAARNKLIKHNLRLVLF 293
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
V+ KYF +F NGP+FQDLCQAG++GLITAIDRFEPKR+FRLSTYGLFWIRHAIIRSMT S
Sbjct: 294 VMNKYFHEFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTYGLFWIRHAIIRSMTTS 353
Query: 350 SFTRVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 409
+FTRVPFGLESVR EI +AK EL FE+ R PT++E+++ + I+PERYREV++A+KP+LSL
Sbjct: 354 NFTRVPFGLESVRVEIYKAKTELWFEMGRPPTEDEVVERLKITPERYREVLRAAKPVLSL 413
Query: 410 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 469
+S+H VTQEEFINGITDVDGV N RQPALLRLALDDVLDSLKPKESLVIRQR+GLDGK
Sbjct: 414 NSKHSVTQEEFINGITDVDGVGANNSRQPALLRLALDDVLDSLKPKESLVIRQRYGLDGK 473
Query: 470 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 513
GDRTLGEIAGNLNISREMVRKHEVK LMKLKH RVDYLRQ++V
Sbjct: 474 GDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQYIV 517
>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 = 178 bits (452), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 119/359 (33%), Positives = 196/359 (54%), Gaps = 19/359 (5%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDEFLEPQTDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+E+L + L R+P D E AEA + + L +GR
Sbjct: 94 LLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISP 393
+WIR AI R++ S T R+P L I++ L E+ R PT+EEI + ++
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 394 ERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLK 453
E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ VLDSL
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKVLDSLS 330
Query: 454 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 331 PRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 389
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 160 bits (406), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 178/317 (56%), Gaps = 4/317 (1%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+Y+ D + L +++ +L + E L + + + +++++L + L R P+D E A
Sbjct: 85 TYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAA 144
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A + + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 145 AVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLI 201
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFE 375
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L I++ L E
Sbjct: 202 RAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQE 261
Query: 376 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQ 435
+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 262 MGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDE 321
Query: 436 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 495
LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+ E K
Sbjct: 322 VAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKA 381
Query: 496 LMKLKHPTRVDYLRQHM 512
L KL+HP R L++++
Sbjct: 382 LRKLRHPNRNSILKEYI 398
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 154 bits (389), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 91/251 (36%), Positives = 147/251 (58%), Gaps = 4/251 (1%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPT 381
+ ++ ++ STY +WIR AI R++ S T R+P L I++ L E++R PT
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 284
Query: 382 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALL 441
+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++ LL
Sbjct: 285 EEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVSKNLL 344
Query: 442 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 501
R L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+H
Sbjct: 345 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
Query: 502 PTRVDYLRQHM 512
P R L++++
Sbjct: 405 PNRNSILKEYI 415
>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 = 153 bits (387), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 87/239 (36%), Positives = 143/239 (59%), Gaps = 4/239 (1%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 245
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISP 393
+WIR AI R++ S T R+P L I++ L E++R PT+EEI + + ++
Sbjct: 246 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTI 305
Query: 394 ERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLK 453
E+ R + K+++ +SL + G ++ + + DG E++ LLR L++VLD+L
Sbjct: 306 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVSKNLLREDLENVLDTLS 365
Query: 454 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 366 PRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 424
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 149 bits (375), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 99/295 (33%), Positives = 161/295 (54%), Gaps = 24/295 (8%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKAS 403
S+ + T R+P + +I R ++L E+ R PT EE+ + + + E+ R+V+K +
Sbjct: 513 SIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIA 572
Query: 404 KPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKES 457
K +SL + G ++ + D +E++N P A LR VL SL P+E
Sbjct: 573 KEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREE 627
Query: 458 LVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 628 RVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 149 bits (375), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 93/281 (33%), Positives = 154/281 (54%), Gaps = 9/281 (3%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ +L GR+PT + A A + +++ + G ++K+IK N+RLV+ + K Y
Sbjct: 292 ERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNY 351
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTR 353
G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +S++ S R
Sbjct: 352 ---QGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIR 408
Query: 354 VPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 413
+PF + ++ A+ +L E + P +EEI + +S +R V+ + KP SL +
Sbjct: 409 LPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKI 468
Query: 414 GVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 472
G+ Q + I D + V +E+ +R LD VLDSL +E VIR RFG++ +
Sbjct: 469 GMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGMEDGRMK 528
Query: 473 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 513
TL EI + +SRE VR+ E KLK+ R ++L+Q++V
Sbjct: 529 TLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>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 = 148 bits (373), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 162/307 (52%), Gaps = 4/307 (1%)
Query: 195 EYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL 254
E+SY+ D VS+ K+ P+LS + + + +Q M V KE+L + L REPT E
Sbjct: 17 EFSYTADAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEW 76
Query: 255 AEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKG 314
A+ + + + L G+ A+ K+I+ NLRLV+ + KKY + F DL Q G G
Sbjct: 77 ADKMQLKEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQK---RNLEFLDLIQEGALG 133
Query: 315 LITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELL 373
L +++F+P ++ STY +WIR I R++ S T R+P + +I+ + EL
Sbjct: 134 LERGVEKFDPTLGYKFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELS 193
Query: 374 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 433
+L + EI Q +N+ P + RE ++ + +SL R G Q+ + + DG+ E
Sbjct: 194 QKLGYIAGVTEIAQALNLEPSQIREYLQLVRQPVSLDMRIGFEQDTQLQDLLKDDGMSPE 253
Query: 434 NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 493
+ LL + ++L L P++ V+ RFGL G + TL +I+ + ISRE VR+ E
Sbjct: 254 RYAERELLYQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEK 313
Query: 494 KGLMKLK 500
+ L L+
Sbjct: 314 QALTLLR 320
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 148 bits (373), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 153/265 (57%), Gaps = 10/265 (3%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 253 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 308
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRA 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P + V ++ R
Sbjct: 309 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARV 368
Query: 369 KLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDV 427
+ ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D
Sbjct: 369 QRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDS 428
Query: 428 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 487
+ V + LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE
Sbjct: 429 EAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRER 488
Query: 488 VRKHEVKGLMKLKHPTRVDYLRQHM 512
+R+ E K + KL+HP+R LR ++
Sbjct: 489 IRQIESKTMSKLRHPSRSQVLRDYL 513
Score = 32.3 bits (72), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 26/40 (65%)
Query: 234 FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
+V+ Q+ +DLGREPT ELA+ +M+ +V + + GR
Sbjct: 365 LARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGR 404
>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 = 148 bits (373), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 92/257 (35%), Positives = 149/257 (57%), Gaps = 9/257 (3%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 257 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 313
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFEL 376
A+++F+ + ++ STY +WIR AI R+M + T R+P + V ++ R + ++L +L
Sbjct: 314 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDL 373
Query: 377 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQ 435
R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V +
Sbjct: 374 GREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADA 433
Query: 436 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 495
LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K
Sbjct: 434 VSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKT 493
Query: 496 LMKLKHPTRVDYLRQHM 512
+ KL+HP+R LR ++
Sbjct: 494 MSKLRHPSRSQVLRDYL 510
Score = 32.3 bits (72), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 26/40 (65%)
Query: 234 FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
+V+ Q+ +DLGREPT ELA+ +M+ +V + + GR
Sbjct: 362 LARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGR 401
>sp|P26480|RPOD_PSEAE RNA polymerase sigma factor RpoD OS=Pseudomonas aeruginosa (strain
ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rpoD
PE=3 SV=1
Length = 617
Score = 145 bits (367), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 91/309 (29%), Positives = 171/309 (55%), Gaps = 23/309 (7%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+L+ D+ R + E+ ++ A++K + + +G A
Sbjct: 315 TDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEA 374
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 375 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 431
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGV 389
STY +WIR AI RS+ + T R+P + ++ R ++L E+ R PT EE+ + +
Sbjct: 432 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 491
Query: 390 NISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRL 443
++ ++ R+V+K +K +S+ + G ++ + D +E+ + P L+
Sbjct: 492 DMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEMATSESLKE 546
Query: 444 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 503
+ +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+
Sbjct: 547 STREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 606
Query: 504 RVDYLRQHM 512
R ++LR +
Sbjct: 607 RSEHLRSFL 615
>sp|P52327|RPOD_PSEPU RNA polymerase sigma factor RpoD OS=Pseudomonas putida GN=rpoD PE=3
SV=1
Length = 614
Score = 145 bits (366), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 88/275 (32%), Positives = 154/275 (56%), Gaps = 22/275 (8%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 346 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 402
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRG 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 403 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 462
Query: 364 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 423
++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++ +
Sbjct: 463 KLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG- 521
Query: 424 ITDVDGVENENQRQPAL------LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 477
D +E+ + P L+ A DVL L +E+ V+R RFG+D D TL E+
Sbjct: 522 ----DFIEDSTMQSPIYVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEV 577
Query: 478 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K KL+HPTR ++LR +
Sbjct: 578 GKQFDVTRERIRQIEAKAWRKLRHPTRSEHLRSFL 612
>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 = 145 bits (366), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 93/273 (34%), Positives = 150/273 (54%), Gaps = 22/273 (8%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEI 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +I
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKI 535
Query: 366 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 425
R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++ +
Sbjct: 536 VRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG--- 592
Query: 426 DVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 479
D +E++N P A LR VL SL P+E V+R RFG+ D TL E+
Sbjct: 593 --DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 650
Query: 480 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KLKHP+R LR +
Sbjct: 651 QFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>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 = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 98/305 (32%), Positives = 160/305 (52%), Gaps = 31/305 (10%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + K+ RE ++ L+ T +S A+ ++ + + R
Sbjct: 386 MKSITNLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARI 445
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 446 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 502
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISP 393
+WIR AI RS+ + T R+P + +I R ++L E+ R PT EE+ + + +
Sbjct: 503 TWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPL 562
Query: 394 ERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDD 447
E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 563 EKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTR 617
Query: 448 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R
Sbjct: 618 VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRK 677
Query: 508 LRQHM 512
LR +
Sbjct: 678 LRSFL 682
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 93/272 (34%), Positives = 152/272 (55%), Gaps = 7/272 (2%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 98 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 152
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESV 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P +
Sbjct: 153 QFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 212
Query: 362 RGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI 421
++ R + LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G + +
Sbjct: 213 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 272
Query: 422 NGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGN 480
+ D +E+ + LLR LD+V+D+L +E V+R RFGLD TL ++
Sbjct: 273 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 332
Query: 481 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
++RE +R+ E K + KL+HP R LR M
Sbjct: 333 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 364
>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 = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 93/272 (34%), Positives = 152/272 (55%), Gaps = 7/272 (2%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 120 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 174
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESV 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P +
Sbjct: 175 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 234
Query: 362 RGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI 421
++ R + LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G + +
Sbjct: 235 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 294
Query: 422 NGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGN 480
+ D +E+ + LLR LD+V+D+L +E V+R RFGLD TL ++
Sbjct: 295 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 354
Query: 481 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
++RE +R+ E K + KL+HP R LR M
Sbjct: 355 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 386
>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 = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 166/308 (53%), Gaps = 26/308 (8%)
Query: 222 TWLFKL-MQPMKVFVQVKEQLQ---KDLGREPTDVELAEATNMS-----AAQVKKCLEVG 272
TW+ ++ +P + +V + E+ + +DL E V ++S QV+K +
Sbjct: 374 TWMDRMSAKPARAWVTLFEKSRDKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEA 433
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 434 RQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 490
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNI 391
Y +WIR AI RS+ + T R+P + ++ R ++L E+ R PT EE+ + + +
Sbjct: 491 YATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQM 550
Query: 392 SPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLA 444
E+ R+VMK +K +SL + G ++ +FI N I +D EN L+
Sbjct: 551 PLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAIQEN------LKET 604
Query: 445 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 504
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R
Sbjct: 605 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSR 664
Query: 505 VDYLRQHM 512
LR +
Sbjct: 665 SRKLRSFL 672
>sp|P57163|RPOD_BUCAI RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Acyrthosiphon pisum (strain APS) GN=rpoD PE=3 SV=1
Length = 612
Score = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 94/276 (34%), Positives = 155/276 (56%), Gaps = 24/276 (8%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRG 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 460
Query: 364 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----E 419
++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G + +
Sbjct: 461 KLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGD 520
Query: 420 FINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGE 476
FI T +D +E+ LR A DVL L +E+ V+R RFG+D D TL E
Sbjct: 521 FIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEE 574
Query: 477 IAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 575 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 165/310 (53%), Gaps = 26/310 (8%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V L A A
Sbjct: 85 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VNLLSAKE-EIAY 123
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+K E ++ +L + NLRLV+ + K+Y G F DL Q G GL+ A+++F+
Sbjct: 124 AQKIEEGDEESKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLMKAVEKFDY 180
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDE 383
++ ++ STY +WIR AI R++ + T R+P + ++ R + +LL +L R PT E
Sbjct: 181 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 240
Query: 384 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLR 442
EI + ++++PE+ RE++K ++ +SL + G + + I D + + LL+
Sbjct: 241 EIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLK 300
Query: 443 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 502
L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 301 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 360
Query: 503 TRVDYLRQHM 512
+R L+ +
Sbjct: 361 SRSKRLKDFL 370
>sp|P0A2E3|RPOD_SALTY RNA polymerase sigma factor RpoD OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoD PE=3 SV=1
Length = 615
Score = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 92/275 (33%), Positives = 153/275 (55%), Gaps = 24/275 (8%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGE 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 464
Query: 365 IQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EF 420
+ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++ +F
Sbjct: 465 LNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDF 524
Query: 421 INGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 477
I T +D E+ LR A DVL L +E+ V+R RFG+D D TL E+
Sbjct: 525 IEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEV 578
Query: 478 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 579 GKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>sp|P0A2E4|RPOD_SALTI RNA polymerase sigma factor RpoD OS=Salmonella typhi GN=rpoD PE=3
SV=1
Length = 615
Score = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 92/275 (33%), Positives = 153/275 (55%), Gaps = 24/275 (8%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGE 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 464
Query: 365 IQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EF 420
+ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++ +F
Sbjct: 465 LNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDF 524
Query: 421 INGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 477
I T +D E+ LR A DVL L +E+ V+R RFG+D D TL E+
Sbjct: 525 IEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEV 578
Query: 478 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 579 GKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 159/300 (53%), Gaps = 37/300 (12%)
Query: 225 FKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATNMSAAQVKKCLEVGRAARNKL 279
K+ P+++++ K++GR P +VELA K+ + A+ +L
Sbjct: 102 IKINDPVRMYL-------KEIGRVPLLSADDEVELA----------KRIMNGDEEAKRRL 144
Query: 280 IKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIR 339
+ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ STY +WIR
Sbjct: 145 AEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWWIR 201
Query: 340 HAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 398
AI R++ + T R+P + ++ R +LL EL R PT EEI + +S E+ RE
Sbjct: 202 QAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKVRE 261
Query: 399 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSL 452
+MK ++ +SL + G + + D +E++ PA LL+ L+DVLD+L
Sbjct: 262 IMKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEALTPADAAAYELLKEQLEDVLDTL 316
Query: 453 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 317 TEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 376
>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 = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 168/310 (54%), Gaps = 26/310 (8%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR P + AE A +
Sbjct: 86 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVP--LLTAEEEIELATR 127
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 128 IEQGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 181
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDE 383
+ F+ STY +WIR AI R++ + T R+P + ++ R + +LL +L R P+ E
Sbjct: 182 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPE 241
Query: 384 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLR 442
E+ + ++++PE+ RE++K ++ +SL + G + + I D D + + LL+
Sbjct: 242 EVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAAYELLK 301
Query: 443 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 502
L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 302 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 361
Query: 503 TRVDYLRQHM 512
+R L+ +
Sbjct: 362 SRSKRLKDFL 371
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
Score = 143 bits (361), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 166/311 (53%), Gaps = 23/311 (7%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T + A++K + +G
Sbjct: 311 NEVDESWTDALAKGKSKYAEAIARLQPDIIRCQQKLTALEVETGLKIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQ 387
+ STY +WIR AI RS+ + T R+P + ++ R ++L E+ R PT EE+ +
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 487
Query: 388 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 441
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L
Sbjct: 488 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVESL 542
Query: 442 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 501
+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 543 KEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 602
Query: 502 PTRVDYLRQHM 512
PTR ++LR +
Sbjct: 603 PTRSEHLRSFL 613
>sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12)
GN=rpoD PE=1 SV=2
Length = 613
Score = 143 bits (361), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 92/275 (33%), Positives = 153/275 (55%), Gaps = 24/275 (8%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 346 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 402
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGE 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 462
Query: 365 IQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EF 420
+ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++ +F
Sbjct: 463 LNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDF 522
Query: 421 INGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 477
I T +D E+ LR A DVL L +E+ V+R RFG+D D TL E+
Sbjct: 523 IEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEV 576
Query: 478 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 577 GKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 611
>sp|P32001|RPOD_BUCAP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Schizaphis graminum (strain Sg) GN=rpoD PE=3 SV=1
Length = 617
Score = 143 bits (361), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 169/313 (53%), Gaps = 40/313 (12%)
Query: 218 STEHTWLFKLMQ-PMKVFVQVKE--QLQKDLGREPTDVELAEATNMSAAQVK---KCLEV 271
S+ +W KL + KVF +K+ Q++K+ G ++ QVK K + +
Sbjct: 325 SSNQSWSKKLEEIKEKVFSSMKKLKQIEKETG-------------LTIEQVKDINKRMSI 371
Query: 272 GRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRR 327
G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R
Sbjct: 372 GEAKAKRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRG 428
Query: 328 FRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEII 386
++ STY +WIR AI RS+ + T R+P + ++ R ++L E+ R PT EE+
Sbjct: 429 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELS 488
Query: 387 QGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQRQPA 439
+ + I ++ R+V+K +K +S+ + G + +FI T +D +E+
Sbjct: 489 EKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSES----- 543
Query: 440 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 499
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 544 -LRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 602
Query: 500 KHPTRVDYLRQHM 512
+HP+R + LR +
Sbjct: 603 RHPSRSEVLRSFL 615
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 143 bits (361), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 163/300 (54%), Gaps = 26/300 (8%)
Query: 222 TWLFKL-MQPMKVFVQVKEQLQ---KDLGREPTDVELAEATNMS-----AAQVKKCLEVG 272
TW+ ++ +P + +V + E+ + +DL E V ++S QV+K +
Sbjct: 374 TWMDRMSAKPARAWVTLFEKSRHKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEA 433
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 434 RQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 490
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNI 391
Y +WIR AI RS+ + T R+P + ++ R ++L E+ R PT EE+ + + +
Sbjct: 491 YATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQM 550
Query: 392 SPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLA 444
E+ R+VMK +K +SL + G ++ +FI N I +D EN L+
Sbjct: 551 PLEKVRKVMKIAKEPISLETPIGHEEDSQLGDFIEDKNAILPLDSAIQEN------LKET 604
Query: 445 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 504
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R
Sbjct: 605 TTRVLPSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSR 664
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 143 bits (360), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 94/289 (32%), Positives = 157/289 (54%), Gaps = 5/289 (1%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L++ E L +Q + +VK +L+ G EPT E AEA +S+ +K + GR+
Sbjct: 247 LLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRS 306
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
+R KLI NLRLV+ + K+Y G FQDL Q G GL+ ++++F+P+ R +TY
Sbjct: 307 SREKLITANLRLVVHIAKQYQN---RGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYA 363
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISP 393
+WIR +I +S+ +S T R+P + + G++ A+ + E P+ EE+ V +S
Sbjct: 364 YWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVST 423
Query: 394 ERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR-QPALLRLALDDVLDSL 452
E+ +++ ++ LS+ Q+ IT G+E L+R + ++L+ L
Sbjct: 424 EKLDKLLYNTRTPLSMQQPIWSDQDTTFQEITPDSGIETPTMSVGKQLMRNHVRNLLNVL 483
Query: 453 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 501
PKE +I+ RFG+DG R+L EI +S+E VR+ E + L +LK
Sbjct: 484 SPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQ 532
>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 = 143 bits (360), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 87/258 (33%), Positives = 148/258 (57%), Gaps = 6/258 (2%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 115 TNEEEKELAIAVENGDLEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 171
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFE 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + ++ R + LL E
Sbjct: 172 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQE 231
Query: 376 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-N 434
L + PT E+I + ++++P++ RE++K ++ +SL + G + + + + +EN +
Sbjct: 232 LGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVD 291
Query: 435 QRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 494
+LR LD+VLD+L +E V+R RFGLD RTL ++ +++RE +R+ E K
Sbjct: 292 YTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAK 351
Query: 495 GLMKLKHPTRVDYLRQHM 512
L KL+HP+R LR +
Sbjct: 352 ALRKLRHPSRSKQLRDFV 369
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 142 bits (359), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 92/267 (34%), Positives = 151/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ PE+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 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 = 142 bits (359), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 92/267 (34%), Positives = 151/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ PE+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
>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 = 142 bits (358), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 84/240 (35%), Positives = 142/240 (59%), Gaps = 7/240 (2%)
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
+ A+ KLI NLRLV+ + K+Y G FQDL Q G GL+ A+++F+ ++ ++ ST
Sbjct: 153 KKAKEKLITSNLRLVVSIAKRYM---GRGLSFQDLIQEGNIGLLKAVEKFDWRKGYKFST 209
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNI 391
Y +WIR AI R++ + T R+P + ++ R + E + P+ EE+ + +
Sbjct: 210 YATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEELAKMMGK 269
Query: 392 SPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQRQPALLRLALDDVLD 450
PE+ +E+++A+K +SL S G ++ I D + + + + L+R L+ VL
Sbjct: 270 PPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMREELEKVLK 329
Query: 451 SLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLR 509
+L P+E++V+R R+GL DGK +TL E+ N++RE +R+ EVK L KL+HP+R YL+
Sbjct: 330 TLSPREAMVLRMRYGLLDGK-PKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLK 388
>sp|Q8P4H2|RPOD_XANCP RNA polymerase sigma factor RpoD OS=Xanthomonas campestris pv.
campestris (strain ATCC 33913 / NCPPB 528 / LMG 568)
GN=rpoD PE=3 SV=1
Length = 624
Score = 142 bits (358), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 91/290 (31%), Positives = 160/290 (55%), Gaps = 25/290 (8%)
Query: 237 VKEQLQKDLGREPTDVELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLF 289
VK+Q+ + + +E+ +A ++ A++K + + G A A+ ++++ NLRLV+
Sbjct: 343 VKDQI---VSEQQGSIEMEKANYLTLAEIKDISRAMAYGEAKARKAKKEMVEANLRLVIS 399
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
+ KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 400 IAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 456
Query: 350 SFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 408
+ T R+P + ++ R ++L + R T EE+ + +++ ++ R+VMK +K +S
Sbjct: 457 ARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPIS 516
Query: 409 LHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQ 462
+ + G ++ + D +E+ N P L + DVL L P+E+ V+R
Sbjct: 517 METPIGDDEDSHLG-----DFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRM 571
Query: 463 RFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 572 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFL 621
>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 = 142 bits (358), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 102/326 (31%), Positives = 170/326 (52%), Gaps = 37/326 (11%)
Query: 192 LVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGRE--- 248
LV+E + S DL M +PP + K+ P+++++ K++GR
Sbjct: 80 LVKEETESFDLTD-----MSVPPGV---------KINDPVRMYL-------KEIGRVDLL 118
Query: 249 PTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
D E+A A + A ++ A+ +L + NLRLV+ + K+Y G F DL
Sbjct: 119 TADEEIALAKRIEAGDIE--------AKGRLAEANLRLVVSIAKRYV---GRGMLFLDLI 167
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQR 367
Q G GL+ A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R
Sbjct: 168 QEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 227
Query: 368 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITD 426
+ LL +L R P+ EEI + +++ E+ RE++K ++ +SL + G + + I D
Sbjct: 228 VQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIED 287
Query: 427 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISRE 486
D + LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE
Sbjct: 288 QDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRE 347
Query: 487 MVRKHEVKGLMKLKHPTRVDYLRQHM 512
+R+ E K L KL+HP+R L+ +
Sbjct: 348 RIRQIEAKALRKLRHPSRSKQLKDFL 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 = 142 bits (358), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 102/326 (31%), Positives = 170/326 (52%), Gaps = 37/326 (11%)
Query: 192 LVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGRE--- 248
LV+E + S DL M +PP + K+ P+++++ K++GR
Sbjct: 80 LVKEETESFDLTD-----MSVPPGV---------KINDPVRMYL-------KEIGRVDLL 118
Query: 249 PTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
D E+A A + A ++ A+ +L + NLRLV+ + K+Y G F DL
Sbjct: 119 TADEEIALAKRIEAGDIE--------AKGRLAEANLRLVVSIAKRYV---GRGMLFLDLI 167
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQR 367
Q G GL+ A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R
Sbjct: 168 QEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 227
Query: 368 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITD 426
+ LL +L R P+ EEI + +++ E+ RE++K ++ +SL + G + + I D
Sbjct: 228 VQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIED 287
Query: 427 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISRE 486
D + LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE
Sbjct: 288 QDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRE 347
Query: 487 MVRKHEVKGLMKLKHPTRVDYLRQHM 512
+R+ E K L KL+HP+R L+ +
Sbjct: 348 RIRQIEAKALRKLRHPSRSKQLKDFL 373
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 142 bits (357), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 93/267 (34%), Positives = 150/267 (56%), Gaps = 9/267 (3%)
Query: 252 VELAE-ATNMSAAQVKKCLEV---GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDL 307
EL+E + AAQ + + + G A+N L++ NLRLV+ + K+Y G F DL
Sbjct: 264 TELSERGEKLPAAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYT---GRGMAFLDL 320
Query: 308 CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQ 366
Q G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P + V ++
Sbjct: 321 IQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLG 380
Query: 367 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGIT 425
R + ELL +L R PT EE+ + ++I+PE+ E+ + ++ +SL G + + + I
Sbjct: 381 RIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIE 440
Query: 426 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
D + V + LL+ L VLD+L +E+ V+R RFGL RTL EI ++R
Sbjct: 441 DSEAVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTR 500
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K + KL+HP+R LR ++
Sbjct: 501 ERIRQIESKTMSKLRHPSRSQVLRDYL 527
>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 = 142 bits (357), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 93/267 (34%), Positives = 150/267 (56%), Gaps = 9/267 (3%)
Query: 252 VELAE-ATNMSAAQVKKCLEV---GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDL 307
EL+E + AAQ + + + G A+N L++ NLRLV+ + K+Y G F DL
Sbjct: 264 TELSERGEKLPAAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYT---GRGMAFLDL 320
Query: 308 CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQ 366
Q G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P + V ++
Sbjct: 321 IQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLG 380
Query: 367 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGIT 425
R + ELL +L R PT EE+ + ++I+PE+ E+ + ++ +SL G + + + I
Sbjct: 381 RIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIE 440
Query: 426 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
D + V + LL+ L VLD+L +E+ V+R RFGL RTL EI ++R
Sbjct: 441 DSEAVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTR 500
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K + KL+HP+R LR ++
Sbjct: 501 ERIRQIESKTMSKLRHPSRSQVLRDYL 527
>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 = 142 bits (357), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 141/256 (55%), Gaps = 17/256 (6%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 404 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 460
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDE 383
+R ++ STY +WIR AI RS+ + T R+P + +I R ++L E+ R PT E
Sbjct: 461 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPE 520
Query: 384 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQR 436
E+ + + + E+ R+V+K +K +SL + G ++ +FI N I +D N
Sbjct: 521 ELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSN-- 578
Query: 437 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 496
LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L
Sbjct: 579 ----LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 634
Query: 497 MKLKHPTRVDYLRQHM 512
KLKHP+R LR +
Sbjct: 635 RKLKHPSRSRKLRSFL 650
Score = 32.3 bits (72), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 194 REYSYSTDLVSLDWKKMKIPPVLSSTEHTWLF--KLMQPMKVFVQVKEQLQKDLGREPTD 251
R Y +ST + W + I ++ T +++ + V+ Q+ ++GREPT
Sbjct: 462 RGYKFST--YATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTP 519
Query: 252 VELAEATNMSAAQVKKCLEVGR 273
ELAE M +V+K L++ +
Sbjct: 520 EELAEKLAMPLEKVRKVLKIAK 541
>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 = 142 bits (357), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 87/253 (34%), Positives = 144/253 (56%), Gaps = 15/253 (5%)
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
K E + A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+++F+ ++
Sbjct: 123 KIEEGDQEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVEKFDYRK 179
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEI 385
F+ STY +WIR AI R++ + T R+P + ++ R + +LL +L R PT EEI
Sbjct: 180 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEI 239
Query: 386 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------ 439
+++ E+ RE++K ++ +SL + G + + D +E+++ PA
Sbjct: 240 GAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQDATSPAEHAAYE 294
Query: 440 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 499
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL
Sbjct: 295 LLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354
Query: 500 KHPTRVDYLRQHM 512
+HP+R L+ +
Sbjct: 355 RHPSRSKQLKDFL 367
>sp|Q89B10|RPOD_BUCBP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Baizongia pistaciae (strain Bp) GN=rpoD PE=3 SV=1
Length = 609
Score = 141 bits (356), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 93/271 (34%), Positives = 151/271 (55%), Gaps = 22/271 (8%)
Query: 256 EATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F DL
Sbjct: 345 EETGLTIHQVKNINKRISLGEAKAKRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLI 401
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQR 367
Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ R
Sbjct: 402 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNR 461
Query: 368 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 427
++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G + +
Sbjct: 462 ISRQILQEIGREPTPEELSERMLIPEDKIRKVLKIAKEPISMETPIGEDDDSHLG----- 516
Query: 428 DGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 481
D +E+ N P A LR A +VL L +E+ V+R RFG+D D TL E+
Sbjct: 517 DFLEDTNIELPLDSATSASLRSATKNVLSGLTTREAKVLRMRFGIDMNTDHTLEEVGKQF 576
Query: 482 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 577 DVTRERIRQIEAKALRKLRHPSRSEILRSFL 607
>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 = 141 bits (356), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 86/258 (33%), Positives = 147/258 (56%), Gaps = 6/258 (2%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 113 TNEEEKELALAVEAGDIEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 169
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFE 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + ++ R + LL E
Sbjct: 170 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQE 229
Query: 376 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-N 434
L + PT E+I + ++++P++ RE++K ++ +SL + G + + + + +EN +
Sbjct: 230 LGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVD 289
Query: 435 QRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 494
+LR LD++LD+L +E V+R RFGLD RTL ++ N++RE +R+ E K
Sbjct: 290 YTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 495 GLMKLKHPTRVDYLRQHM 512
L KL+ P+R LR +
Sbjct: 350 ALRKLRQPSRSKPLRDFI 367
>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 = 141 bits (356), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 86/258 (33%), Positives = 147/258 (56%), Gaps = 6/258 (2%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 113 TNEEEKELALAVEAGDIEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 169
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLELLFE 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + ++ R + LL E
Sbjct: 170 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQE 229
Query: 376 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-N 434
L + PT E+I + ++++P++ RE++K ++ +SL + G + + + + +EN +
Sbjct: 230 LGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVD 289
Query: 435 QRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 494
+LR LD++LD+L +E V+R RFGLD RTL ++ N++RE +R+ E K
Sbjct: 290 YTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 495 GLMKLKHPTRVDYLRQHM 512
L KL+ P+R LR +
Sbjct: 350 ALRKLRQPSRSKPLRDFI 367
>sp|Q8PG33|RPOD_XANAC RNA polymerase sigma factor RpoD OS=Xanthomonas axonopodis pv.
citri (strain 306) GN=rpoD PE=3 SV=1
Length = 625
Score = 141 bits (355), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 90/290 (31%), Positives = 159/290 (54%), Gaps = 25/290 (8%)
Query: 237 VKEQLQKDLGREPTDVELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLF 289
VK+Q+ + + +E+ +A ++ ++K + + G A A+ ++++ NLRLV+
Sbjct: 344 VKDQI---ISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 400
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
+ KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 401 IAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 457
Query: 350 SFT-RVPFGLESVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 408
+ T R+P + ++ R ++L + R T EE+ + +++ ++ R+VMK +K +S
Sbjct: 458 ARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPIS 517
Query: 409 LHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQ 462
+ + G ++ + D +E+ N P L + DVL L P+E+ V+R
Sbjct: 518 METPIGDDEDSHLG-----DFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRM 572
Query: 463 RFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 573 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFL 622
>sp|P43766|RPOD_HAEIN RNA polymerase sigma factor RpoD OS=Haemophilus influenzae (strain
ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rpoD PE=3 SV=1
Length = 629
Score = 140 bits (354), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 88/271 (32%), Positives = 149/271 (54%), Gaps = 22/271 (8%)
Query: 256 EATNMSAAQVKK-CLEVGRA------ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
E T ++ Q++ C V R A+ ++++ NLRLV+ + KKY G +F DL
Sbjct: 365 ENTKLTITQMRDICDAVARGEQKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLI 421
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQR 367
Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ R
Sbjct: 422 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNR 481
Query: 368 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 427
+LL E+ R T EE+ + + + ++ R+V+K +K +S+ + G + +
Sbjct: 482 ISRQLLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG----- 536
Query: 428 DGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 481
D +E+ P L++A +VL+ L P+E+ V+R RFG+D D TL E+
Sbjct: 537 DFIEDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQF 596
Query: 482 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 512
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 597 DVTRERIRQIEAKALRKLRHPSRSETLRSFL 627
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 140 bits (354), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 92/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ REV+K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREVLKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 140 bits (352), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 140 bits (352), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 140 bits (352), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 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 = 140 bits (352), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 140 bits (352), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 150/267 (56%), Gaps = 20/267 (7%)
Query: 258 TNMSAAQ----VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ + K +E G A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESVRGEIQRAKLE 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + ++ R + +
Sbjct: 166 MGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 225
Query: 372 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 431
LL +L R P EEI + +++ E+ RE++K ++ +SL + G + + D +E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIE 280
Query: 432 NENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 485
++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++R
Sbjct: 281 DQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTR 340
Query: 486 EMVRKHEVKGLMKLKHPTRVDYLRQHM 512
E +R+ E K L KL+HP+R L+ M
Sbjct: 341 ERIRQIEAKALRKLRHPSRSKRLKDFM 367
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
0.317 0.134 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 182,707,008
Number of Sequences: 539616
Number of extensions: 7745659
Number of successful extensions: 28351
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 132
Number of HSP's successfully gapped in prelim test: 169
Number of HSP's that attempted gapping in prelim test: 27583
Number of HSP's gapped (non-prelim): 553
length of query: 513
length of database: 191,569,459
effective HSP length: 122
effective length of query: 391
effective length of database: 125,736,307
effective search space: 49162896037
effective search space used: 49162896037
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 63 (28.9 bits)