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= 011992
(473 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 315 bits (806), Expect = 7e-85, Method: Compositional matrix adjust.
Identities = 193/390 (49%), Positives = 248/390 (63%), Gaps = 38/390 (9%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEA RNL+SS PSF ++T +K S+ SS SS V++H++ + P V S +S++RHFP
Sbjct: 1 MEATRNLVSSSPSFQTKTHLK-----SSYSSPSSVVMLHDQTTTPVVNSRHLNSLSRHFP 55
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV-----QD 115
SVL QE R+E RPL H ++D+TSQ T + R D+LV +
Sbjct: 56 ASVLSQEPREESRPLSHALRDDRTSQLTLERRQ---------------FDELVSSREDEK 100
Query: 116 LEHQFLHWPDLWNL--SPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSA 173
E Q LH LWNL SP + P+V + DAE D VALA+KALSA
Sbjct: 101 FEQQLLHSTGLWNLLISPLTSETKLPAVVSPL----------ADAELCDVVALAQKALSA 150
Query: 174 SKEAASLAENPKLNGAE-FTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTN 232
SK+AA L ++ + N ++ D TSS E+ R LERR+K R+ K +
Sbjct: 151 SKQAALLVDDTEANPSDNIKDSLSTSSSMSLPEKGNIVRSKRQLERRAKNRRAPKSNDVD 210
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
E Y +K S KKK +G D +D L+LFLWGPET++LLTA EE ELI+ IQ L++LEK K
Sbjct: 211 DEGYVPQKTSAKKKYKQGADNDDALQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVK 270
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+KL+SQ G EPT+ EWA+A+G+S LKS++H G SSREKLI ANLRLVVH+AKQYQ RG
Sbjct: 271 TKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRG 330
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA
Sbjct: 331 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFA 360
Score = 131 bits (329), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 60/91 (65%), Positives = 76/91 (83%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++G+E P +SV KQLMR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G I+GLSK
Sbjct: 457 DSGIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSK 516
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLLI 473
ERVRQLESRALYRLKQ++ + YADLL+
Sbjct: 517 ERVRQLESRALYRLKQNMNSHGLHAYADLLV 547
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 74/205 (36%), Positives = 115/205 (56%), Gaps = 3/205 (1%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
K+ +++ D NDPLR + KLLT EE EL A IQDL++LE+ +++L + GR+P
Sbjct: 247 KRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERSGRQP 306
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
T +WA A G+ + L+ +H G ++K+I +N+RLV+ +AK YQG G++L DL+QEG
Sbjct: 307 TFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGC 366
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLR 420
GL++ EKF G +F+ +V+K L Q +R ++ R R +
Sbjct: 367 RGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQ 426
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERV 445
E GK E+ GLS +R+
Sbjct: 427 LYSETGKHPKNEEIAEATGLSMKRL 451
Score = 69.3 bits (168), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 41/180 (22%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR---EKL-INAN 337
++ R+++ + +L S+ G+ P E A+A GLS + L + L S R +K+ +N N
Sbjct: 414 VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQN 473
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L+ +A P+A V DI + K+
Sbjct: 474 LKPSEVIAD----------------------------PEA--------VTSEDILI-KEF 496
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 497 MRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 556
>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 = 114 bits (286), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 104/178 (58%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
++ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 DIDEFLEPQTDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L + R+P EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHI 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 107 bits (266), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 65/201 (32%), Positives = 109/201 (54%), Gaps = 13/201 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L +LLTA+EE Q+Q L+ L +++L+ + G EP+ EWA A+ L
Sbjct: 11 DLVRAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDL 70
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ DL ++ G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 71 NLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFD 130
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G +F+ ++ + + +Q H+ L L +R + + + G
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQ-----QLG 185
Query: 427 KPKSLSEVGNIFGLSKERVRQ 447
+ + SE+ + L E+VR+
Sbjct: 186 RSATASELAEVLELPLEQVRE 206
Score = 57.4 bits (137), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+++ +R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+L
Sbjct: 240 PSDYVEQESLRRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKL 299
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 300 ERQAMDHLRR 309
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 105 bits (262), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 53/116 (45%), Positives = 79/116 (68%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A GLS +L+ + H G
Sbjct: 24 LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEELRQQQHLGE 83
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 84 QAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 139
Score = 59.3 bits (142), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 84/175 (48%), Gaps = 34/175 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR TL E A A+ L+ ++ L ++ +LR+
Sbjct: 170 LNKIKKMQRQLSQQLGRTATLPELAAALDLTPAQVRDYLEKARHP----LSLDLRV---- 221
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L DLL+ + E+F QA MR+ +
Sbjct: 222 ---GDNQDTELGDLLETDC----TTPEEFTLQAS-------------------MRRDIDR 255
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L+Q+
Sbjct: 256 LLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTLRQA 310
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 104 bits (260), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL QI DL+ LE+ + +L Q R P+ EWA A+
Sbjct: 89 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 148
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 208
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 209 HEKGYKFST 217
Score = 77.8 bits (190), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +
Sbjct: 310 FIEADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNV 369
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 370 TRERIRQIEAKALRKLR 386
>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 = 93.6 bits (231), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 83/147 (56%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
S+ +K K +E D + ++L LL+ ++E Q+Q ++ + K +L
Sbjct: 5 TSQVTKLKSKNNEFSYTADAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELA 64
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ REPTL EWA + L L +L G +++K+I ANLRLVV +AK+YQ R +
Sbjct: 65 EKLQREPTLQEWADKMQLKEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFL 124
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL + VEKF P G +F+
Sbjct: 125 DLIQEGALGLERGVEKFDPTLGYKFST 151
Score = 53.5 bits (127), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 45/69 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ +++L+ Q + NLL L P+++ ++ LRFG+ G +L ++ G+S+ERVRQ+
Sbjct: 252 PERYAERELLYQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQV 311
Query: 449 ESRALYRLK 457
E +AL L+
Sbjct: 312 EKQALTLLR 320
>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 = 93.6 bits (231), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 73/246 (29%), Positives = 112/246 (45%), Gaps = 57/246 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL DEE + Q+Q +RL + +++
Sbjct: 48 TDLVRLYLQDIGRIPLLKRDEEVHIAQQVQSYLRLVEIQNRAAESDAAIDQYQTAIAVHD 107
Query: 295 -LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSRE 331
L Q G P+ WAK +G + LK L SG +++
Sbjct: 108 QLLVQLGHRPSYERWAKILGQTVATLKQTLKSGKKRWAELAGLTVEELENIEKQGITAKA 167
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 168 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQ 227
Query: 385 GVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
G+ I+ Q +++R H+ L + +R I + E G + EV G++
Sbjct: 228 GI-TRAIATQSRMIRLPVHITEKLNKIKRAQRKISQ-----EKGHTPKIDEVAEELGMTP 281
Query: 443 ERVRQL 448
E+VR++
Sbjct: 282 EQVREV 287
Score = 63.9 bits (154), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 50/73 (68%)
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
T + P+ + ++ ++ ++ +L L P+E+ ++ LRFG +DG SLSE+G I LS+E
Sbjct: 315 TDTQSPEDELMREALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRE 374
Query: 444 RVRQLESRALYRL 456
RVRQ+E++AL +L
Sbjct: 375 RVRQIEAKALQKL 387
>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 = 85.9 bits (211), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q ++L + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLKLRIVLANAVKQGDEVATPYLHLIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WA G++ DLK L G S+
Sbjct: 119 ERLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.1 bits (157), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 94/195 (48%), Gaps = 37/195 (18%)
Query: 266 TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T+ L I + L +++K + K+ + GR PTL DL EL
Sbjct: 242 TRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL-----------EDLAIELD 290
Query: 325 -SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ RE L+ R +SL E +G K E G
Sbjct: 291 MTPTQVREVLLRVP-------------RSVSL-----ETKVGKDKDTE-----LGELLET 327
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
GV P+ + ++ +++ +++LL L +ER ++ +RFG+ DG P SL+E+G LS+E
Sbjct: 328 DGV-TPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRE 386
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+ES+AL +L+Q
Sbjct: 387 RVRQIESKALQKLRQ 401
>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 = 85.1 bits (209), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 58/189 (30%), Positives = 92/189 (48%), Gaps = 48/189 (25%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
RK +VKKK D +R++L +LL A+EE EL QI DL+ LE + L Q
Sbjct: 59 RKDAVKKKPYT----EDSIRIYLQEIGRIRLLRAEEEIELARQIADLLELELIRDNLTLQ 114
Query: 299 FGREPTLIEWAKAIG----------------LSCRDLKSELHSGNS-------------- 328
R+P+ +EW K + +D+ S L + ++
Sbjct: 115 LERQPSELEWGKQVWKLETAKQRLVGDKKKEPKKKDIDSYLANPDNELSLENEWSQQPNK 174
Query: 329 --------------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 175 NFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 234
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 235 HEKGYKFST 243
Score = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 336 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 395
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 396 TRERIRQIEAKALRKLR 412
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 82.8 bits (203), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>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 = 76.3 bits (186), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 462
Score = 69.3 bits (168), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>sp|P33118|RPSB_CORDI RNA polymerase sigma factor SigB OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=sigB PE=3 SV=2
Length = 329
Score = 76.3 bits (186), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 74/129 (57%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ L +++ E + +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE---------VGLYAEYLLENSQEPLTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 138 YSKGFKFST 146
Score = 63.2 bits (152), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +R +L L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 251 AVVASLRHSDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIERE 310
Query: 452 ALYRLKQSLGGKASYGYA 469
+ +L+ + YA
Sbjct: 311 VMSKLRDGARAEKLRAYA 328
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 76.3 bits (186), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 95/176 (53%), Gaps = 13/176 (7%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY--RLKQSLGGKASYGYADLL 472
L +E GK + E+G G + +RVR++ A + L+ +G + D L
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFL 465
Score = 69.7 bits (169), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>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 = 75.5 bits (184), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 57/202 (28%), Positives = 94/202 (46%), Gaps = 43/202 (21%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-G 426
VEKF + G +F+ ++ + + Q +R + ++ + I R ++D G
Sbjct: 172 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 231
Query: 427 KPKSLSEVGNIFGLSKERVRQL 448
+ + E+G L E+VR++
Sbjct: 232 REPTPEEIGAEMDLPTEKVREI 253
Score = 68.9 bits (167), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 50/62 (80%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 294 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 456 LK 457
L+
Sbjct: 354 LR 355
>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 = 74.7 bits (182), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L+ L +ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES+ L +L
Sbjct: 323 LLRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKL 382
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 383 RDHAYADQLRGYLD 396
Score = 68.2 bits (165), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 45/58 (77%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F+
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFST 213
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 74.3 bits (181), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 96/176 (54%), Gaps = 13/176 (7%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY--RLKQSLGGKASYGYADLL 472
L +E GK + E+ GL+ +RVR++ A + L+ +G + + D L
Sbjct: 412 LM--METGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFL 465
Score = 71.6 bits (174), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 55/195 (28%), Positives = 95/195 (48%), Gaps = 36/195 (18%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
+I I ++R K KL + G+EPT E A+ +GL+
Sbjct: 398 MIETINKVLRGAK---KLMMETGKEPTPEELAEELGLT-------------------PDR 435
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+R + +A+ ISL + EGS + G +T VE P + +
Sbjct: 436 VREIYKIAQH----PISLQAEVGEGS----------ESSFGDFLEDTAVESPAEATGYSM 481
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++
Sbjct: 482 LKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMR 541
Query: 458 QSLGGKASYGYADLL 472
+ K + DLL
Sbjct: 542 HPIRSKQLRAFLDLL 556
>sp|Q01624|RPSB_STIAD RNA polymerase sigma-B factor OS=Stigmatella aurantiaca (strain
DW4/3-1) GN=sigB PE=3 SV=1
Length = 296
Score = 74.3 bits (181), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 46/148 (31%), Positives = 77/148 (52%), Gaps = 16/148 (10%)
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ + +K +L +G+ +L+ +NLR VV V+ +Y+ GI + DL+QEG++GLMK+V+KF
Sbjct: 35 LARKFVKGDLAAGH----RLVTSNLRFVVKVSYEYRSYGIKMSDLIQEGNIGLMKAVQKF 90
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMR----------QHVRNLLTLLNPKERCIVRLRFGI 423
P G R + V +Q +++ Q R L L R + +FG
Sbjct: 91 DPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTRRELE--KFGA 148
Query: 424 EDGKPKSLSEVGNIFGLSKERVRQLESR 451
DG ++ E+ N + VR++E R
Sbjct: 149 GDGAVVNVDEIANKLNVKASEVREMEQR 176
Score = 44.7 bits (104), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 2/56 (3%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
L+ V L L+P+ER I+ R + + +P +L E+G FG S+ER RQLE RA
Sbjct: 219 LINSRVHMALMRLDPRERFIIEQR--VMNERPMTLKELGEHFGFSRERARQLEIRA 272
>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 = 73.6 bits (179), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 81/139 (58%), Gaps = 10/139 (7%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 142 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 201
Query: 376 QAGCRFANTGVE------IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
+ G +F+ I+ Q + +R V +++ +N R +R + + G+
Sbjct: 202 RKGYKFSTYATWWIRQAITRAIADQARTIRIPV-HMVETINKLNR--LRREYYQKHGEEP 258
Query: 430 SLSEVGNIFGLSKERVRQL 448
S+ E+ + G E+++++
Sbjct: 259 SIEELAKMMGKPPEKIKEI 277
Score = 72.0 bits (175), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 51/181 (28%), Positives = 85/181 (46%), Gaps = 36/181 (19%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L RL +E + G EP++ E AK +G +K L + +
Sbjct: 236 MVETINKLNRLRRE---YYQKHGEEPSIEELAKMMGKPPEKIKEILEAAKET-------- 284
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
ISL + E S+E F A+ + P + L
Sbjct: 285 ---------------ISLESPIGEDEDS---SIEDF-------VADDSIASPKKEAMRML 319
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MR+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 320 MREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 379
Query: 458 Q 458
Sbjct: 380 H 380
>sp|P44404|RP32_HAEIN RNA polymerase sigma-32 factor OS=Haemophilus influenzae (strain
ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rpoH PE=3 SV=1
Length = 281
Score = 73.6 bits (179), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 43/135 (31%), Positives = 71/135 (52%), Gaps = 11/135 (8%)
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
H + +KLI ++LR V+HVA+ Y G G+ DL+QEG++GLMK+V++F P+ G R +
Sbjct: 43 HEDLDAAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVS 102
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK-------SLSEVGN 436
V + + ++ RN + + +L F + K + + V N
Sbjct: 103 FAVHWIKAEIHEYVL----RNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNENEVDMVAN 158
Query: 437 IFGLSKERVRQLESR 451
G+SKE V ++ESR
Sbjct: 159 ELGVSKEDVIEMESR 173
Score = 32.7 bits (73), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 460
L+ + + I++ R+ ++D K +L ++ + +S ER+RQLE+ AL +LK ++
Sbjct: 230 LDARSQDIIKARW-LDDNKA-TLHDLAAKYNVSAERIRQLETNALKKLKSAV 279
>sp|O51804|RPOS_VIBCH RNA polymerase sigma factor RpoS OS=Vibrio cholerae serotype O1
(strain ATCC 39315 / El Tor Inaba N16961) GN=rpoS PE=3
SV=1
Length = 335
Score = 73.6 bits (179), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 55/78 (70%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L ++R+++I +NLRLVV ++++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 85 LRGDEAARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 144
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ LM Q
Sbjct: 145 TYATWWIRQTIERALMNQ 162
Score = 55.8 bits (133), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 45/72 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ S Q +R+ + N L LNPK++ ++ RFG+ +P +L EVG L++ERVRQ+
Sbjct: 247 PEFSTQDDDIRESLLNWLDELNPKQKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQI 306
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 307 QVEGLRRLREIL 318
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 73.2 bits (178), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 72/136 (52%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 329
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 330 RAVEKFDYTKGYKFST 345
Score = 69.7 bits (169), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 51/181 (28%), Positives = 92/181 (50%), Gaps = 38/181 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + ++ EK++
Sbjct: 372 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDITP--------------EKVLEI- 413
Query: 338 LRLVVHVAKQYQGRGISLHDLL-QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQ 396
+QY ISL + EG L +E + A V+ +V
Sbjct: 414 --------QQYAREPISLDQTIGDEGDSQLGDFIEDSE-------AVVAVD----AVSFT 454
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 455 LLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 514
Query: 457 K 457
+
Sbjct: 515 R 515
>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 = 73.2 bits (178), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 72/136 (52%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 329
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 330 RAVEKFDYTKGYKFST 345
Score = 69.7 bits (169), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 51/181 (28%), Positives = 92/181 (50%), Gaps = 38/181 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + ++ EK++
Sbjct: 372 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDITP--------------EKVLEI- 413
Query: 338 LRLVVHVAKQYQGRGISLHDLL-QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQ 396
+QY ISL + EG L +E + A V+ +V
Sbjct: 414 --------QQYAREPISLDQTIGDEGDSQLGDFIEDSE-------AVVAVD----AVSFT 454
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 455 LLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 514
Query: 457 K 457
+
Sbjct: 515 R 515
>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 = 73.2 bits (178), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 59/203 (29%), Positives = 93/203 (45%), Gaps = 45/203 (22%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMK 176
Query: 369 SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGIED- 425
+VEKF G +F+ ++ + + Q +R + ++ + I R ++D
Sbjct: 177 AVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDL 236
Query: 426 GKPKSLSEVGNIFGLSKERVRQL 448
G+ S E+G L E+VR++
Sbjct: 237 GRDPSPEEIGEEMDLPTEKVREI 259
Score = 68.6 bits (166), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 50/63 (79%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 300 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRK 359
Query: 456 LKQ 458
L+
Sbjct: 360 LRH 362
>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 = 72.8 bits (177), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 59/203 (29%), Positives = 93/203 (45%), Gaps = 45/203 (22%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMK 176
Query: 369 SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED- 425
+VEKF G +F+ ++ + + Q +R + ++ + I R ++D
Sbjct: 177 AVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDL 236
Query: 426 GKPKSLSEVGNIFGLSKERVRQL 448
G+ S E+G L E+VR++
Sbjct: 237 GRDPSPEEIGEEMDLPTEKVREI 259
Score = 68.2 bits (165), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 50/63 (79%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 300 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRK 359
Query: 456 LKQ 458
L+
Sbjct: 360 LRH 362
>sp|P0A2E5|RPOS_SALTY RNA polymerase sigma factor RpoS OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoS PE=3 SV=1
Length = 330
Score = 72.8 bits (177), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 54/78 (69%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 143
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 144 TYATWWIRQTIERAIMNQ 161
Score = 49.7 bits (117), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 246 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 306 QVEGLRRLREIL 317
>sp|P0A2E6|RPOS_SALTI RNA polymerase sigma factor RpoS OS=Salmonella typhi GN=rpoS PE=3
SV=1
Length = 330
Score = 72.8 bits (177), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 54/78 (69%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 143
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 144 TYATWWIRQTIERAIMNQ 161
Score = 49.7 bits (117), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 246 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 306 QVEGLRRLREIL 317
>sp|P0A2E7|RPOS_SALDU RNA polymerase sigma factor RpoS OS=Salmonella dublin GN=rpoS PE=3
SV=1
Length = 330
Score = 72.8 bits (177), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 54/78 (69%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 143
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 144 TYATWWIRQTIERAIMNQ 161
Score = 49.7 bits (117), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 246 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 306 QVEGLRRLREIL 317
>sp|P35540|RPOS_SHIFL RNA polymerase sigma factor RpoS OS=Shigella flexneri GN=rpoS PE=3
SV=3
Length = 330
Score = 72.8 bits (177), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 54/78 (69%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 143
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 144 TYATWWIRQTIERAIMNQ 161
Score = 49.3 bits (116), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 246 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 306 QVEGLRRLREIL 317
>sp|P47765|RPOS_YEREN RNA polymerase sigma factor RpoS OS=Yersinia enterocolitica GN=rpoS
PE=3 SV=1
Length = 331
Score = 72.4 bits (176), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 52/72 (72%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 91 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150
Query: 389 PDISVQKQLMRQ 400
++++ +M Q
Sbjct: 151 IRQTIERAIMNQ 162
Score = 49.7 bits (117), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 247 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 306
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 307 QVEGLRRLREIL 318
>sp|P13445|RPOS_ECOLI RNA polymerase sigma factor RpoS OS=Escherichia coli (strain K12)
GN=rpoS PE=3 SV=3
Length = 330
Score = 72.4 bits (176), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 54/78 (69%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +SR ++I +NLRLVV +A++Y RG++L DL++EG++GL+++VEKF P+ G RF+
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 143
Query: 383 NTGVEIPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 144 TYATWWIRQTIERAIMNQ 161
Score = 49.3 bits (116), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + Q M+Q + L LN K+R ++ RFG+ + +L +VG GL++ERVRQ+
Sbjct: 246 PEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305
Query: 449 ESRALYRLKQSL 460
+ L RL++ L
Sbjct: 306 QVEGLRRLREIL 317
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 72.4 bits (176), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/61 (52%), Positives = 46/61 (75%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +G ++ K++ ANLRLVV VAK+YQ +G+ L DL+QEGS+GL ++VEKF P G +F+
Sbjct: 68 LQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGYKFS 127
Query: 383 N 383
Sbjct: 128 T 128
Score = 55.1 bits (131), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 46/69 (66%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P ++ + + + + L L +E+ +++LRFG+ DG+ +L+E+G +S+ER+RQ+
Sbjct: 231 PMDAMDRHIQHEQISTWLAHLTEREQQVLQLRFGLHDGEQHTLAEIGRRLNVSRERIRQV 290
Query: 449 ESRALYRLK 457
E+RAL +L+
Sbjct: 291 EARALQKLR 299
>sp|P45684|RPOS_PSEAE RNA polymerase sigma factor RpoS OS=Pseudomonas aeruginosa (strain
ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rpoS
PE=3 SV=1
Length = 334
Score = 72.0 bits (175), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 53/73 (72%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
+ R+++I +NLRLVV +A++Y RG+SL DL++EG++GL+++VEKF P+ G RF+
Sbjct: 94 AGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATW 153
Query: 388 IPDISVQKQLMRQ 400
++++ +M Q
Sbjct: 154 WIRQTIERAIMNQ 166
Score = 48.1 bits (113), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 41/68 (60%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
+Q + + + LT L K+R +V RFG+ + +L EVG GL++ERVRQ++ A
Sbjct: 255 LQDDDLSESIDQWLTELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEA 314
Query: 453 LYRLKQSL 460
L RL++ L
Sbjct: 315 LKRLREIL 322
>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 = 72.0 bits (175), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 57/202 (28%), Positives = 91/202 (45%), Gaps = 43/202 (21%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE EL +I+
Sbjct: 96 GVKINDPVRMYLKEIGRVPLLTAEEEIELATRIE-------------------------- 129
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 130 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 175
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-G 426
VEKF G +F+ ++ + + Q +R + ++ + I R ++D G
Sbjct: 176 VEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 235
Query: 427 KPKSLSEVGNIFGLSKERVRQL 448
+ S EV L+ E+VR++
Sbjct: 236 REPSPEEVAEEMDLTPEKVREI 257
Score = 68.2 bits (165), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 52/69 (75%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+
Sbjct: 291 PSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 350
Query: 449 ESRALYRLK 457
E++AL +L+
Sbjct: 351 EAKALRKLR 359
>sp|O24629|SIGA_ARATH RNA polymerase sigma factor sigA OS=Arabidopsis thaliana GN=SIGA
PE=1 SV=1
Length = 502
Score = 71.2 bits (173), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 76/127 (59%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC 316
+R ++ G + +L+ E L +I+ +RL+ KS+L+ + G EP+ + A ++ +S
Sbjct: 187 VRGYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKSRLKDRLGCEPSDEQLAVSLKISR 246
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
+L++ L + +REKL +N+RLV+ +A++Y G + DL+Q G +GL++ +EKF
Sbjct: 247 AELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSS 306
Query: 377 AGCRFAN 383
G R +
Sbjct: 307 KGFRIST 313
Score = 35.0 bits (79), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 398 MRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
+++ V L++ L +E+ I+RL +G+ D + + ++ GLS+ERVRQ+ AL +L
Sbjct: 428 LKEEVSKLISATLGEREKEIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 486
Query: 457 KQS 459
K +
Sbjct: 487 KHA 489
>sp|P18184|HRDC_STRCO RNA polymerase principal sigma factor HrdC OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdC
PE=3 SV=1
Length = 339
Score = 70.9 bits (172), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 69/115 (60%), Gaps = 9/115 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA++E L +I+ +R +E L++ EP + R L+ +H G
Sbjct: 51 LLTAEDEVRLATRIEAGVRAREE---LETADTGEPAPTPRRR------RTLEETVHDGQE 101
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++ ++ ANLRLVV +AK++ RG+ L D++QEG++GL+++VEKF G +F+
Sbjct: 102 AKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFST 156
Score = 57.4 bits (137), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 45/77 (58%), Gaps = 7/77 (9%)
Query: 388 IPDISVQK-------QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
IPD V + Q + +R + L P+E I+ LR+G+ DG+P++L +V GL
Sbjct: 250 IPDTEVLRAPEVAEFQALAAELREAVGTLAPRESLILSLRYGLHDGRPRTLQQVAQHVGL 309
Query: 441 SKERVRQLESRALYRLK 457
++ERVRQLE +L L+
Sbjct: 310 TRERVRQLEKESLAHLR 326
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 70.9 bits (172), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/65 (49%), Positives = 49/65 (75%), Gaps = 4/65 (6%)
Query: 323 LHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
+H G+ +++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G
Sbjct: 363 IHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKG 422
Query: 379 CRFAN 383
+F+
Sbjct: 423 YKFST 427
Score = 59.7 bits (143), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 49/183 (26%), Positives = 92/183 (50%), Gaps = 39/183 (21%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ I+ + ++ +E +L +FGREP+ E A+ + + +K
Sbjct: 452 VHMIEQINKVTRESRQLLQKFGREPSDEEIAQQLCWTVEKVKQ----------------- 494
Query: 339 RLVVHVAKQYQGRGISLHDLL---QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQK 395
V VA++ ISL + ++ S+G F P A VE P ++
Sbjct: 495 --VKSVARE----PISLETPIGEEEDSSLG------DFVPDAD-------VENPSRVTER 535
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
L+++ VR++L+ L +E ++R+RFG++ ++L EVG F +++ER+RQ+E++AL R
Sbjct: 536 VLLKEEVRSILSALPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKR 595
Query: 456 LKQ 458
L+
Sbjct: 596 LRH 598
>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 = 70.9 bits (172), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R++++ + GREPT E AK + ++ EK+I
Sbjct: 355 MVEVINKLARVQRQ---MLQDLGREPTPEELAKELDMTP--------------EKVIEV- 396
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
++Y ISLH L E + G ++ +P +V L
Sbjct: 397 --------QKYGREPISLHTPLGEDG----------DSEFGDLIEDSEAVVPADAVSFTL 438
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 439 LQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 498
Score = 67.8 bits (164), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 70/129 (54%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 213 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANSDKLAPKL--------- 260
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 261 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 319
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 320 YTKGYKFST 328
>sp|Q8DD54|RP32_VIBVU RNA polymerase sigma-32 factor OS=Vibrio vulnificus (strain CMCP6)
GN=rpoH PE=3 SV=1
Length = 285
Score = 70.5 bits (171), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 72/144 (50%), Gaps = 13/144 (9%)
Query: 317 RDLKSELHSGNS--SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL LH + + LI ++LR VVHVA+ Y G G+ + DL+QEG++GLMK+V++F
Sbjct: 35 RDLAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFN 94
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK----- 429
P+ G R + V + + ++ RN + + +L F + K +
Sbjct: 95 PEVGVRLVSFAVHWIKAEIHEYVL----RNWRIVKIATTKAQRKLFFNLRKSKKRLGWFN 150
Query: 430 --SLSEVGNIFGLSKERVRQLESR 451
+ V G+ VR++ESR
Sbjct: 151 NGEVETVARELGVEPAEVREMESR 174
Score = 40.8 bits (94), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 45/74 (60%), Gaps = 6/74 (8%)
Query: 392 SVQKQLMRQHVRNLLTL----LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
+++ Q H N L + L+ + + IVR R+ ++D K +L ++ ++G+S ER+RQ
Sbjct: 212 NLEAQNWEAHTNNRLAMALASLDERSQHIVRSRW-LDDDKA-TLQDLAEMYGVSAERIRQ 269
Query: 448 LESRALYRLKQSLG 461
LE A+ +LK ++G
Sbjct: 270 LEKNAMKKLKMAVG 283
>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 = 70.5 bits (171), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 58/195 (29%), Positives = 82/195 (42%), Gaps = 68/195 (34%)
Query: 188 GAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL 247
G TD S Y +EE+K ++T+ E S A V
Sbjct: 60 GISITDREGNPSTKYAVEEIK------------------PEELTDEELLGSNSAKV---- 97
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
NDP+R++L LLT +EE EL
Sbjct: 98 ------NDPVRMYLKEIGVVPLLTNEEEKEL----------------------------- 122
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
AI + DL++ +++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLM
Sbjct: 123 ---AIAVENGDLEA--------KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLM 171
Query: 368 KSVEKFKPQAGCRFA 382
K+V+KF G +F+
Sbjct: 172 KAVDKFDYSKGFKFS 186
Score = 63.5 bits (153), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 51/72 (70%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+E P + ++R+ + +L L +E ++RLRFG++DGK ++L +VG +F +++ER+
Sbjct: 286 IENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERI 345
Query: 446 RQLESRALYRLK 457
RQ+E++AL +L+
Sbjct: 346 RQIEAKALRKLR 357
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 70.5 bits (171), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R++++ + GREPT E AK + ++ EK+I
Sbjct: 358 MVEVINKLARVQRQ---MLQDLGREPTPEELAKELDMTP--------------EKVIEV- 399
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
++Y ISLH L E + G ++ +P +V L
Sbjct: 400 --------QKYGREPISLHTPLGEDG----------DSEFGDLIEDSEAVVPADAVSFTL 441
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 442 LQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 501
Score = 67.8 bits (164), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 70/129 (54%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 216 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANADKLAPKL--------- 263
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 264 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 322
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 323 YTKGYKFST 331
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 70.1 bits (170), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 50/71 (70%)
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 247 EHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDH 306
Query: 460 LGGKASYGYAD 470
GY D
Sbjct: 307 AFADQLRGYLD 317
Score = 68.9 bits (167), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 31/66 (46%), Positives = 48/66 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 69 DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 128
Query: 378 GCRFAN 383
G +F+
Sbjct: 129 GYKFST 134
>sp|Q9KI19|RPOS_COXBU RNA polymerase sigma factor RpoS OS=Coxiella burnetii (strain RSA
493 / Nine Mile phase I) GN=rpoS PE=1 SV=1
Length = 352
Score = 70.1 bits (170), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 53/79 (67%), Gaps = 1/79 (1%)
Query: 323 LHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+H G+ +R+++I ANLRLVV +A+ Y RG+ DL++EG++GL+ +VEKF P+ G RF
Sbjct: 106 VHKGDPKARKQMIEANLRLVVKIARHYVNRGLPFLDLIEEGNLGLLTAVEKFDPERGFRF 165
Query: 382 ANTGVEIPDISVQKQLMRQ 400
+ ++++ +M Q
Sbjct: 166 STYATWWIRQTIERAIMNQ 184
Score = 49.7 bits (117), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 43/75 (57%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
+Q ++ H+ L L+ + R +V LRFG+ + + +L VG GL++ERVRQ++ A
Sbjct: 273 IQNVDLQDHIERWLAQLDERHREVVILRFGLHENEKGTLEAVGKAVGLTRERVRQIQIDA 332
Query: 453 LYRLKQSLGGKASYG 467
L +L+ L + G
Sbjct: 333 LQQLRHILEMEGVTG 347
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 69.7 bits (169), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 44/137 (32%), Positives = 64/137 (46%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L G NDP+R++L LL+AD+E EL +I
Sbjct: 98 LPPGIKINDPVRMYLKEIGRVPLLSADDEVELAKRI------------------------ 133
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL
Sbjct: 134 ----------------MNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGL 177
Query: 367 MKSVEKFKPQAGCRFAN 383
+K+VEKF G +F+
Sbjct: 178 IKAVEKFDHNKGFKFST 194
Score = 67.8 bits (164), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 50/63 (79%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 303 ELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 362
Query: 456 LKQ 458
L+
Sbjct: 363 LRH 365
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 69.7 bits (169), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 99/196 (50%), Gaps = 23/196 (11%)
Query: 264 PETRKLLTADEEFELI-------AQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIGLS 315
P ++L A+EEF+L +I D +R+ KE ++ +E I +A+ I
Sbjct: 73 PNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEE--IAYAQKIE-- 128
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
S+ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+VEKF
Sbjct: 129 --------EGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDY 180
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGIED-GKPKSLS 432
+ G +F+ ++ + + Q +R + ++ + I R ++D G+ +
Sbjct: 181 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 240
Query: 433 EVGNIFGLSKERVRQL 448
E+ L+ E+VR++
Sbjct: 241 EIAEDMDLTPEKVREI 256
Score = 68.6 bits (166), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 50/62 (80%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 297 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 356
Query: 456 LK 457
L+
Sbjct: 357 LR 358
>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 = 69.3 bits (168), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 74/156 (47%), Gaps = 50/156 (32%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P++++ + S A V NDP+R++L LLT +EE EL
Sbjct: 79 EPELSDEDLIGSTSAKV----------NDPVRMYLKEIGVVPLLTNEEEKEL-------- 120
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
A+ + D+++ +++L ANLRLVV +AK
Sbjct: 121 ------------------------ALAVEAGDIEA--------KQRLAEANLRLVVSIAK 148
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+Y GRG+ DL+QEG+MGLMK+V+KF G +F+
Sbjct: 149 RYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFS 184
Score = 66.2 bits (160), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 52/73 (71%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+E P + ++R+ + +L L +E ++RLRFG++DGK ++L +VG +F +++ER+
Sbjct: 284 IENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERI 343
Query: 446 RQLESRALYRLKQ 458
RQ+E++AL +L+Q
Sbjct: 344 RQIEAKALRKLRQ 356
>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 = 69.3 bits (168), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 74/156 (47%), Gaps = 50/156 (32%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P++++ + S A V NDP+R++L LLT +EE EL
Sbjct: 79 EPELSDEDLIGSTSAKV----------NDPVRMYLKEIGVVPLLTNEEEKEL-------- 120
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
A+ + D+++ +++L ANLRLVV +AK
Sbjct: 121 ------------------------ALAVEAGDIEA--------KQRLAEANLRLVVSIAK 148
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+Y GRG+ DL+QEG+MGLMK+V+KF G +F+
Sbjct: 149 RYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFS 184
Score = 66.2 bits (160), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 52/73 (71%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+E P + ++R+ + +L L +E ++RLRFG++DGK ++L +VG +F +++ER+
Sbjct: 284 IENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERI 343
Query: 446 RQLESRALYRLKQ 458
RQ+E++AL +L+Q
Sbjct: 344 RQIEAKALRKLRQ 356
>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 = 69.3 bits (168), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 57/93 (61%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + ++ + +R +L L +E+ ++R+RFG++DG P++L EVG
Sbjct: 492 GDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQ 551
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 552 FKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
Score = 65.1 bits (157), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 52/77 (67%), Gaps = 7/77 (9%)
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+W + I R++ + ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL
Sbjct: 332 DWGEKIIKGEREI-------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGL 384
Query: 367 MKSVEKFKPQAGCRFAN 383
+K+V+KF+ + G +F+
Sbjct: 385 IKAVDKFEYKKGYKFST 401
>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 = 69.3 bits (168), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 57/93 (61%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + ++ + +R +L L +E+ ++R+RFG++DG P++L EVG
Sbjct: 492 GDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQ 551
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 552 FKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
Score = 65.1 bits (157), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 52/77 (67%), Gaps = 7/77 (9%)
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+W + I R++ + ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL
Sbjct: 332 DWGEKIIKGEREI-------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGL 384
Query: 367 MKSVEKFKPQAGCRFAN 383
+K+V+KF+ + G +F+
Sbjct: 385 IKAVDKFEYKKGYKFST 401
>sp|P33657|RPSE_CLOAB RNA polymerase sigma-E factor OS=Clostridium acetobutylicum (strain
ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
GN=sigE PE=3 SV=2
Length = 235
Score = 68.9 bits (167), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 86/190 (45%), Gaps = 47/190 (24%)
Query: 318 DLKSELHSGNSS-REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
DL ++L +G+ S R LI NLRLVV++A++++ G+ + DL+ G++GL+K+V F P
Sbjct: 42 DLVNKLVNGDESIRSILIERNLRLVVYIARKFENTGVGVEDLISVGTIGLIKAVNTFDPT 101
Query: 377 AGCRFANTGVEIPDISVQKQLMRQH---------------------------------VR 403
+ A G + + L R V
Sbjct: 102 KKIKLATYGSRCIENEILMYLRRNSKVKAEISFYEPLNIDWDGNKLLLSDILGTDNDCVY 161
Query: 404 NL-------------LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 450
NL L LN +E+ IV LR+G+ K+ EV ++ G+S+ + +LE
Sbjct: 162 NLIEGEVDKQLLLFALKKLNEREKRIVELRYGLTGVGEKTQKEVADMLGISQSYISRLEK 221
Query: 451 RALYRLKQSL 460
R + RLK+ +
Sbjct: 222 RIIKRLKKEI 231
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.313 0.129 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 162,454,929
Number of Sequences: 539616
Number of extensions: 6501448
Number of successful extensions: 24319
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 145
Number of HSP's successfully gapped in prelim test: 65
Number of HSP's that attempted gapping in prelim test: 23549
Number of HSP's gapped (non-prelim): 660
length of query: 473
length of database: 191,569,459
effective HSP length: 121
effective length of query: 352
effective length of database: 126,275,923
effective search space: 44449124896
effective search space used: 44449124896
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 63 (28.9 bits)