|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05658 |
PRK05658 |
RNA polymerase sigma factor RpoD; Validated |
1-613 |
0e+00 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 235549 [Multi-domain] Cd Length: 619 Bit Score: 1032.82 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 1 MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDA---- 76
Cdd:PRK05658 5 MLDNPQSQLKKLIKRGKERGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEAPDADDLLLAENEADAQTdeda 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 77 AEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEA 156
Cdd:PRK05658 85 EEEAAAALSSVESEIGRTDDPVRMYLREMGTVELLTREGEIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGER 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 157 RLSDLITGFVDPNAEEELAPTATHVGSElsqedLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYEVTRDTIK 236
Cdd:PRK05658 165 RLRELIDGFVDPNAEEDPAHVGSELEEL-----DDDEDEEEEEDENDDSLAADESELPEKVLEKFKALAKQYKKLRKAQE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 237 AKG----RSHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKlCVEQCKMPKKNFITLFTGNETS 312
Cdd:PRK05658 240 KKVegrlAQHKKYAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLR-LVERLKMPRKDFLKLFQGNELD 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 313 DTWFNAAIAMNKPWSEKLHDVADEVHRSLQKLHQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 392
Cdd:PRK05658 319 ITWLEKEIASGKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 393 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQ 472
Cdd:PRK05658 399 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQ 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 473 EMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLT 552
Cdd:PRK05658 479 EIGREPTPEELAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAIQESLREATTDVLASLT 558
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446359531 553 AREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD 613
Cdd:PRK05658 559 PREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSRKLRSFLDN 619
|
|
| RpoD_Cterm |
TIGR02393 |
RNA polymerase sigma factor RpoD, C-terminal domain; This model represents the well-conserved ... |
375-612 |
1.45e-160 |
|
RNA polymerase sigma factor RpoD, C-terminal domain; This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc. [Transcription, Transcription factors]
Pssm-ID: 274108 [Multi-domain] Cd Length: 238 Bit Score: 459.07 E-value: 1.45e-160
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 454
Cdd:TIGR02393 1 AKKKLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 455 HMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDS 534
Cdd:TIGR02393 81 HMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKVREIKKIAQEPISLETPIGEEEDSFLGDFIEDESIESPDDA 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446359531 535 ATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612
Cdd:TIGR02393 161 AAKELLREQLDEVLETLTERERKVLRMRYGLLDGRPHTLEEVGKEFNVTRERIRQIESKALRKLRHPSRSKKLKDFLD 238
|
|
| RpoD |
COG0568 |
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ... |
342-612 |
3.94e-158 |
|
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 440334 [Multi-domain] Cd Length: 268 Bit Score: 453.74 E-value: 3.94e-158
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 342 QKLHQIEEETGLTIEQVKDINRRMSIGeakARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 421
Cdd:COG0568 1 AYLREIGRVPLLTAEEEVELARRIQAG---DEEAKRKLVEANLRLVVSIAKKYQGRGLPLLDLIQEGNLGLMKAVEKFDP 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 422 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIA 501
Cdd:COG0568 78 ERGFRFSTYATWWIRQAITRAIADQWRTIRLPVHMAETLNKLRRAKRQLLQELGREPTPEEIAEELGVPEEKVREMLRLA 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 502 KEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFD 581
Cdd:COG0568 158 REPVSLDAPVGDDEDSELGDLLEDEEAPSPEEALEEELLREELREALDTLTEREREILRLRFGLDDGEPHTLEEIGKEFG 237
|
250 260 270
....*....|....*....|....*....|.
gi 446359531 582 VTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612
Cdd:COG0568 238 VSRERVRQIEAKALRKLRHPLRSRKLRDYLD 268
|
|
| PRK05901 |
PRK05901 |
RNA polymerase sigma factor; Provisional |
345-612 |
5.46e-149 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 235640 [Multi-domain] Cd Length: 509 Bit Score: 439.82 E-value: 5.46e-149
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 345 HQIEEETGLTIEQVKDINRRMSIGeakaRRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 424
Cdd:PRK05901 246 ELLAEGEKLDPELRRDLQWIGRDG----KRAKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKG 321
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 425 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEP 504
Cdd:PRK05901 322 YKFSTYATWWIRQAITRAMADQARTIRIPVHMVETINKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQKYNREP 401
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 505 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTR 584
Cdd:PRK05901 402 ISLDKTIGKEGDSQFGDFIEDSEAVSPVDAVSFTLLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTR 481
|
250 260
....*....|....*....|....*...
gi 446359531 585 ERIRQIEAKALRKLRHPSRSEVLRSFLD 612
Cdd:PRK05901 482 ERIRQIESKTLRKLRHPSRSQVLRDFLD 509
|
|
| PRK09210 |
PRK09210 |
RNA polymerase sigma factor RpoD; Validated |
353-612 |
1.38e-147 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 236413 [Multi-domain] Cd Length: 367 Bit Score: 430.95 E-value: 1.38e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMsigEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:PRK09210 111 LTAEEEIELAKRI---EEGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYAT 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIG 512
Cdd:PRK09210 188 WWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREILKIAQEPVSLETPIG 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 513 DDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 592
Cdd:PRK09210 268 EEDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEA 347
|
250 260
....*....|....*....|
gi 446359531 593 KALRKLRHPSRSEVLRSFLD 612
Cdd:PRK09210 348 KALRKLRHPSRSKQLKDFLE 367
|
|
| PRK07406 |
PRK07406 |
RNA polymerase sigma factor RpoD; Validated |
349-611 |
7.30e-114 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 236012 [Multi-domain] Cd Length: 373 Bit Score: 344.84 E-value: 7.30e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 349 EETGLTIEQVKdinRRMSIGeakaRRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 428
Cdd:PRK07406 118 ELVDMPLPKFR---RRLMLG----RRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 190
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 429 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISME 508
Cdd:PRK07406 191 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLE 270
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 509 TPIGDDEDSHLGDFIEdTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 588
Cdd:PRK07406 271 TPIGKEEDSRLGDFIE-ADGETPEDDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIR 349
|
250 260
....*....|....*....|...
gi 446359531 589 QIEAKALRKLRHPSRSEVLRSFL 611
Cdd:PRK07406 350 QIEAKALRKLRHPNRNSVLKEYI 372
|
|
| Sig70-cyanoRpoD |
TIGR02997 |
RNA polymerase sigma factor, cyanobacterial RpoD-like family; This family includes a number of ... |
352-599 |
4.50e-110 |
|
RNA polymerase sigma factor, cyanobacterial RpoD-like family; This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Pssm-ID: 274382 [Multi-domain] Cd Length: 298 Bit Score: 332.29 E-value: 4.50e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 352 GLTIEQVKDINRRmsigeakARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Cdd:TIGR02997 59 GLSEAELRQRLRQ-------GQRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYA 131
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 432 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPI 511
Cdd:TIGR02997 132 YWWIRQGITRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELLQRARQPVSLDAPV 211
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 512 GDDEDSHLGDFIEDTTlELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 591
Cdd:TIGR02997 212 GDEEDTELGDLLEDDG-ESPEEQVERESLRQDLESLLAELTPRERQVLRLRFGLDGGEPLTLAEIGRRLNLSRERVRQIE 290
|
....*...
gi 446359531 592 AKALRKLR 599
Cdd:TIGR02997 291 AKALRKLR 298
|
|
| PRK07921 |
PRK07921 |
RNA polymerase sigma factor SigB; Reviewed |
329-610 |
1.08e-105 |
|
RNA polymerase sigma factor SigB; Reviewed
Pssm-ID: 181169 [Multi-domain] Cd Length: 324 Bit Score: 322.07 E-value: 1.08e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 329 KLHDVADEVHRS------LQKLHQIEEETGLTIEQVKDinrrMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFL 402
Cdd:PRK07921 39 ALLTAADEVELAkrieagLYAEHLLETRKRLSEARKRD----LAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLL 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEE 482
Cdd:PRK07921 115 DLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEE 194
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 483 LAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMR 562
Cdd:PRK07921 195 LAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAENAVIAGLLHTDIRSVLATLDEREQQVIRLR 274
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 446359531 563 FGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 610
Cdd:PRK07921 275 FGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLRNGERADRLRSY 322
|
|
| PRK07598 |
PRK07598 |
RNA polymerase sigma factor SigC; Validated |
332-612 |
7.36e-86 |
|
RNA polymerase sigma factor SigC; Validated
Pssm-ID: 236067 [Multi-domain] Cd Length: 415 Bit Score: 274.05 E-value: 7.36e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 332 DVADEVHRSLQKLHQIEEETGLTIEQVKDInrrmsigEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 411
Cdd:PRK07598 140 SLADLKPTLAEGKRRWAEIAKLTVEELEQI-------QKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLG 212
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 412 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPE 491
Cdd:PRK07598 213 LERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTP 292
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 492 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLElPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 571
Cdd:PRK07598 293 TQVREVLLRVPRSVSLETKVGKDKDTELGDLLETDDIS-PEEMLMRESLQRDLQHLLADLTSRERDVIRMRFGLADGHTY 371
|
250 260 270 280
....*....|....*....|....*....|....*....|.
gi 446359531 572 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612
Cdd:PRK07598 372 SLAEIGRALDLSRERVRQIESKALQKLRQPKRRNRIRDYLE 412
|
|
| rpoS_proteo |
TIGR02394 |
RNA polymerase sigma factor RpoS; A sigma factor is a DNA-binding protein protein that binds ... |
353-600 |
3.62e-85 |
|
RNA polymerase sigma factor RpoS; A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393). [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]
Pssm-ID: 131447 [Multi-domain] Cd Length: 285 Bit Score: 267.75 E-value: 3.62e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMSIGEAKARRAkkeMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:TIGR02394 28 LTAEEEIAYARRALAGDFEARKV---MIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYAT 104
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIG 512
Cdd:TIGR02394 105 WWIRQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEEIAELLDKPVEDVSRVLALNERITSLDAPLD 184
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 513 DDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 592
Cdd:TIGR02394 185 DDSSKSLLDTIADEQSIDPESLVQNDDLKQLIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEVGLTRERVRQIQV 264
|
....*...
gi 446359531 593 KALRKLRH 600
Cdd:TIGR02394 265 EALKKLRR 272
|
|
| PRK05949 |
PRK05949 |
RNA polymerase sigma factor; Validated |
330-599 |
5.65e-78 |
|
RNA polymerase sigma factor; Validated
Pssm-ID: 180321 [Multi-domain] Cd Length: 327 Bit Score: 250.53 E-value: 5.65e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 330 LHDVADEVHRSLQKLHQIEEETGLTIEQVKDINRRMSIGEakarRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 409
Cdd:PRK05949 51 LLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGK----RAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGT 126
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 410 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 489
Cdd:PRK05949 127 LGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAKELEL 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 490 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLElPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNT 569
Cdd:PRK05949 207 EPSQIREYLSMARQPISLDVRVGDNQDTELSELLEDEGPS-PDQYITQELLRQDLNNLLAELTPQQREVLTLRFGLEDGK 285
|
250 260 270
....*....|....*....|....*....|
gi 446359531 570 DHTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK05949 286 ELSLAKVGERLNLSRERVRQLEHQALAHLR 315
|
|
| PRK05657 |
PRK05657 |
RNA polymerase sigma factor RpoS; Validated |
353-609 |
2.20e-72 |
|
RNA polymerase sigma factor RpoS; Validated
Pssm-ID: 235548 [Multi-domain] Cd Length: 325 Bit Score: 235.62 E-value: 2.20e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMSIGEAKARrakKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:PRK05657 68 LTAEEEVYFARRALRGDFAAR---QRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYAT 144
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIG 512
Cdd:PRK05657 145 WWIRQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEEIAELLDKPVDDVSRMLALNERITSLDTPLG 224
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 513 DDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 592
Cdd:PRK05657 225 GDPEKSLLDILADEQENGPEDTTQDDDMKQSIVKWLFELNDKQREVLARRFGLLGYEAATLEDVAREIGLTRERVRQIQV 304
|
250
....*....|....*..
gi 446359531 593 KALRKLRHPSRSEVLRS 609
Cdd:PRK05657 305 EALRRLREILQTQGLSI 321
|
|
| PRK07405 |
PRK07405 |
RNA polymerase sigma factor SigD; Validated |
329-599 |
4.95e-71 |
|
RNA polymerase sigma factor SigD; Validated
Pssm-ID: 180963 [Multi-domain] Cd Length: 317 Bit Score: 231.96 E-value: 4.95e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 329 KLHDVADEVHRSLQKLHQIEEETGLTIEQVKDINRRMSIGEakarRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 408
Cdd:PRK07405 40 ALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGE----AAKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEG 115
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 409 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 488
Cdd:PRK07405 116 TIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGRAATIGELAEELE 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 489 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTlELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMN 568
Cdd:PRK07405 196 LTPKQVREYLERARQPLSLDLRVGDNQDTELGELLEDTG-ASPEDFATQSSLQLDLERLMEDLTPQQKEVIALRFGLEDG 274
|
250 260 270
....*....|....*....|....*....|.
gi 446359531 569 TDHTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK07405 275 QPLTLAKIGERLNISRERVRQIEREALSKLR 305
|
|
| Sigma70_ner |
pfam04546 |
Sigma-70, non-essential region; The domain is found in the primary vegetative sigma factor. ... |
138-347 |
1.59e-64 |
|
Sigma-70, non-essential region; The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function.
Pssm-ID: 461348 Cd Length: 169 Bit Score: 209.33 E-value: 1.59e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 138 PEAITYLLEQYDRVEAEEArlsdlitgfVDPNAEEELAptathvgselsqedldddededeedgdddsadDDNSIDPELA 217
Cdd:pfam04546 1 PLTIAEILEWYDRVEAGDD---------DDDDDSESLA--------------------------------ADEGPDPEEA 39
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 218 REKFAELRAQYEVTRDTIKAKGRSHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKM 297
Cdd:pfam04546 40 LERFEELREQYEKLRKAIEKHGRSSKKYLKLREELSEEFMQFRLVPKQFDRLVDQLREMVDRVRAQEREIMRLCVERAKM 119
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 446359531 298 PKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVADEVHRSLQKLHQI 347
Cdd:pfam04546 120 PRKDFIKSFPGNETNLEWLDKEIAAGKPWSEKLERVAEDIRRAQQKLADI 169
|
|
| FliA |
COG1191 |
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ... |
373-599 |
3.79e-41 |
|
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA polymerase specialized sigma subunit is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 440804 [Multi-domain] Cd Length: 236 Bit Score: 149.20 E-value: 3.79e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 373 RRAKKEMVEANLRLVISIAKKYTNRGLQFL-DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQArtiR 451
Cdd:COG1191 14 EEAREELIEEYLPLVKKIASRLAGRLPAELdDLIQVGLIGLIEAIDRFDPSKGVSFETYAVPRIRGAILDYLRDED---W 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 452 IPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK--EPISMETPIGDDEDshLGDFIEDTTle 529
Cdd:COG1191 91 VPRSVRELARKIEEAIEELEQELGREPTDEEIAEELGISLEEVQEALEAANayQLLSLDEPLEDGDD--LLDLLESGD-- 166
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 530 lPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMntdhTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:COG1191 167 -PEEELEHEELREALAEAIEQLPERERLVLSLYYFEEL----TLKEIAEVLGVSESRVSRLHKKALARLR 231
|
|
| rpoH_proteo |
TIGR02392 |
alternative sigma factor RpoH; A sigma factor is a DNA-binding protein protein that binds to ... |
353-599 |
2.50e-35 |
|
alternative sigma factor RpoH; A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors. [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]
Pssm-ID: 274107 [Multi-domain] Cd Length: 270 Bit Score: 134.33 E-value: 2.50e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMSigEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:TIGR02392 16 LTPEEEYQLAKRLR--EHGDLDAAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAV 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIadqARTIRIpVHMIETIN--KLNRISRQMLQEMGREPTPEE---LAERMLMPEDKIRKV-LKIAKEPIS 506
Cdd:TIGR02392 94 HWIKAEIHEYI---LRNWRL-VKVATTKAqrKLFFNLRKMKKRLQGWLNPEEveaIAEELGVSEREVREMeSRLSGQDMS 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 507 METPIGDDEDS------HLGDFIEDTTLELpLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTdhTLEEVGKQF 580
Cdd:TIGR02392 170 LNASIDDDEDDggapiaYLVDKRSDPEDTL-EEEQWEELQRQALANALGSLDARSRRIIEARWLDDDKL--TLQELAAEY 246
|
250
....*....|....*....
gi 446359531 581 DVTRERIRQIEAKALRKLR 599
Cdd:TIGR02392 247 GVSAERIRQIEKNAMKKLK 265
|
|
| PRK06596 |
PRK06596 |
RNA polymerase factor sigma-32; Reviewed |
353-599 |
5.51e-32 |
|
RNA polymerase factor sigma-32; Reviewed
Pssm-ID: 235838 [Multi-domain] Cd Length: 284 Bit Score: 125.29 E-value: 5.51e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMSigEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:PRK06596 29 LTAEEEYMLAKRLR--EHGDLEAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAV 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIadqARTIRIpVHMIETIN--KL--N-RISRQMLQEMgrepTPEELaermlmpeDKIRKVLKIA-KEPIS 506
Cdd:PRK06596 107 HWIKAEIHEYI---LRNWRI-VKVATTKAqrKLffNlRKAKKRLGWL----NPEEV--------EMVAEELGVSeEEVRE 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 507 MET-----------PIGDDEDSH--LGDFIEDTT--LELPLDSATTESLR-AATHDVLAGLTAREAKVLRMRFGIDMNTd 570
Cdd:PRK06596 171 MESrlsgqdasldaPIDDDDEESgaPQDYLEDKSsdPADVLEEDNWEDQRrALLADALEGLDERSRDIIEARWLDDDKS- 249
|
250 260
....*....|....*....|....*....
gi 446359531 571 hTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK06596 250 -TLQELAAEYGVSAERVRQIEKNAMKKLK 277
|
|
| rpoH2 |
PRK07500 |
RNA polymerase factor sigma-32; Reviewed |
369-611 |
6.28e-29 |
|
RNA polymerase factor sigma-32; Reviewed
Pssm-ID: 236033 [Multi-domain] Cd Length: 289 Bit Score: 116.67 E-value: 6.28e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 369 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIadqAR 448
Cdd:PRK07500 35 DHRDEDALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYATWWIRASIQDYI---LR 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 449 TIRIPVHMIETINK-----LNRISRQMLQ---EMGREPTPEELAERMLMPEDKIRKV-LKIAKEPISMETPIGDDEDSHL 519
Cdd:PRK07500 112 NWSIVRGGTSSAQKalffnLRRLRARLAQadeELTKQEIHREIATALGVSLSDVEMMdARLSGPDASLNAPQSEEDEGRS 191
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 520 G--DFIEDTTL---ELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDmnTDHTLEEVGKQFDVTRERIRQIEAKA 594
Cdd:PRK07500 192 ErmDFLVDDSPlpdEQVESSIDGERRRRWLTQALQTLNERELRIIRERRLRE--DGATLEALGEELGISKERVRQIEARA 269
|
250
....*....|....*....
gi 446359531 595 LRKLRHP--SRSEVLRSFL 611
Cdd:PRK07500 270 LEKLRRAllSQSPEVAYFA 288
|
|
| Sigma70_r3 |
pfam04539 |
Sigma-70 region 3; Region 3 forms a discrete compact three helical domain within the ... |
458-535 |
1.53e-28 |
|
Sigma-70 region 3; Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but as some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme.
Pssm-ID: 427997 [Multi-domain] Cd Length: 78 Bit Score: 108.46 E-value: 1.53e-28
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446359531 458 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSA 535
Cdd:pfam04539 1 ELLNKIKRAQRELEQELGREPTPEEIAEELGLSPEKVREVLEAAREPVSLDTPVGEEEDGELGDLLEDDDIESPEEAV 78
|
|
| Sigma70_r1_1 |
pfam03979 |
Sigma-70 factor, region 1.1; Region 1.1 modulates DNA binding by region 2 and 4 when sigma is ... |
7-71 |
2.13e-28 |
|
Sigma-70 factor, region 1.1; Region 1.1 modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase. Region 1.1 is also involved in promoter binding
Pssm-ID: 461117 [Multi-domain] Cd Length: 69 Bit Score: 108.04 E-value: 2.13e-28
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446359531 7 SQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENT 71
Cdd:pfam03979 1 AQLKELIKKGKKKGYLTYDEINDALPDDILDSEQIEDIIEMLNDMGIDVVEEAPDADELLLSDEA 65
|
|
| PRK05572 |
PRK05572 |
RNA polymerase sporulation sigma factor, SigF/SigG family; |
344-599 |
6.76e-27 |
|
RNA polymerase sporulation sigma factor, SigF/SigG family;
Pssm-ID: 180137 [Multi-domain] Cd Length: 252 Bit Score: 109.68 E-value: 6.76e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 344 LHQIEEETGLTIEQVKDINRRMSIGEAKARrakKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 423
Cdd:PRK05572 5 VKNKKKKPQLKDEENKELIKKSQDGDQEAR---DTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 424 GYKFSTYATWWIRQAITRSIADQArTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKE 503
Cdd:PRK05572 82 DVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDELSKELGREPTIEELAEYLGVTPEEVVLAQEASRS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 504 PISM-ETPIGDDEDS-HLGDFIEDTTLELPLDsatteslRAATHDVLAGLTAREAKVLRMRFgidmNTDHTLEEVGKQFD 581
Cdd:PRK05572 161 PQSIhETVHENDGDPiTLLDQIADQSEEDWFD-------KIALKEAIRELDERERLIVYLRY----FKDKTQSEVAKRLG 229
|
250
....*....|....*...
gi 446359531 582 VTRERIRQIEAKALRKLR 599
Cdd:PRK05572 230 ISQVQVSRLEKKILKQMK 247
|
|
| FliA_WhiG |
TIGR02479 |
RNA polymerase sigma factor, FliA/WhiG family; Most members of this family are the flagellar ... |
403-599 |
1.86e-26 |
|
RNA polymerase sigma factor, FliA/WhiG family; Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Pssm-ID: 274153 [Multi-domain] Cd Length: 224 Bit Score: 107.74 E-value: 1.86e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI---TRSIADQARTIRipvhmiETINKLNRISRQMLQEMGREPT 479
Cdd:TIGR02479 28 DLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMldeLRRLDWVPRSLR------QKARKLERAIRELEARLGREPT 101
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 480 PEELAERMLMPEDKIRKVLK--IAKEPISMETPIGDDEDS-HLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREA 556
Cdd:TIGR02479 102 EEEIAEELGMDLKEYRQALNeiNALSLVSLDELLESGDDGgSLIDRIEDDKSEDPEEELEREELREALAEAIESLSEREQ 181
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 446359531 557 KVLRMRFGIDMNtdhtLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:TIGR02479 182 LVLSLYYYEELN----LKEIGEVLGLTESRVSQIHSQALKKLR 220
|
|
| spore_sigF |
TIGR02885 |
RNA polymerase sigma-F factor; Members of this protein family are the RNA polymerase sigma ... |
375-599 |
4.51e-26 |
|
RNA polymerase sigma-F factor; Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore. [Transcription, Transcription factors, Cellular processes, Sporulation and germination]
Pssm-ID: 131931 [Multi-domain] Cd Length: 231 Bit Score: 106.72 E-value: 4.51e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQArTIRIPV 454
Cdd:TIGR02885 12 ARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDDG-IIKVSR 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 455 HMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISM-ETPIGDDEDS-HLGDFIEDTTLElpl 532
Cdd:TIGR02885 91 SLKELARKIRYMKEELSKELGREPTINELAEALGVSPEEIVMALESARSPQSLyDTVHQDDGDPiYLLDQIADKGSE--- 167
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446359531 533 DSATTESLraATHDVLAGLTAREAKVLRMRFGIDMntdhTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:TIGR02885 168 DSDWLEKI--ALKEAISKLDERERQIIMLRYFKDK----TQTEVANMLGISQVQVSRLEKKVLKKMK 228
|
|
| PRK08215 |
PRK08215 |
RNA polymerase sporulation sigma factor SigG; |
353-599 |
7.07e-26 |
|
RNA polymerase sporulation sigma factor SigG;
Pssm-ID: 181296 [Multi-domain] Cd Length: 258 Bit Score: 106.96 E-value: 7.07e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 353 LTIEQVKDINRRMSIGEAKARrakKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 432
Cdd:PRK08215 19 LKNEEMRELFERMQNGDKEAR---EKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAV 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 433 WWIRQAITRSIADQaRTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPI- 511
Cdd:PRK08215 96 PMIIGEIRRYLRDN-NPIRVSRSLRDIAYKALQVREKLINENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPIy 174
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 512 ---GD---------DEDSHLGDFIEDTTLElpldsatteslraathDVLAGLTAREAKVLRMRF--GidmntdHTLEEVG 577
Cdd:PRK08215 175 hdgGDpiyvmdqisDEKNKDENWLEEIALK----------------EAMKKLNDREKLILNLRFfqG------KTQMEVA 232
|
250 260
....*....|....*....|..
gi 446359531 578 KQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK08215 233 EEIGISQAQVSRLEKAALKHMR 254
|
|
| Sigma70_r2 |
pfam04542 |
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ... |
379-449 |
4.66e-23 |
|
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation.
Pssm-ID: 427998 [Multi-domain] Cd Length: 71 Bit Score: 92.65 E-value: 4.66e-23
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446359531 379 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 449
Cdd:pfam04542 1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPERGVSFSTWLYTIIRNAIIDYLRKQRRT 71
|
|
| PRK07122 |
PRK07122 |
RNA polymerase sigma factor SigF; Reviewed |
363-599 |
6.62e-23 |
|
RNA polymerase sigma factor SigF; Reviewed
Pssm-ID: 168831 [Multi-domain] Cd Length: 264 Bit Score: 98.69 E-value: 6.62e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 363 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 442
Cdd:PRK07122 29 AGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRH 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 443 IADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKI--AKEPISMETPIG--DDEDSH 518
Cdd:PRK07122 109 FRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVAgsAYNTLSIDSGGGsgDDDARA 188
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 519 LGDFIEDttLELPLDSATT-ESLRAathdVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG-KQFDVTRerirqIEAKALR 596
Cdd:PRK07122 189 IADTLGD--VDAGLDQIENrEALRP----LLAALPERERTVLVLRFFESMTQTQIAERVGiSQMHVSR-----LLAKTLA 257
|
...
gi 446359531 597 KLR 599
Cdd:PRK07122 258 RLR 260
|
|
| PRK06288 |
PRK06288 |
RNA polymerase sigma factor WhiG; Reviewed |
400-599 |
2.93e-21 |
|
RNA polymerase sigma factor WhiG; Reviewed
Pssm-ID: 235770 [Multi-domain] Cd Length: 268 Bit Score: 93.98 E-value: 2.93e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 400 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQARTIRIPVHMIETinklnrisrq 469
Cdd:PRK06288 60 EFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIfdelrsidwiPRSVRQKARQIERAIAMLEA---------- 129
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 470 mlqEMGREPTPEELAERMLMPEDKIRKVLK--IAKEPISMET--PIGDDEDS-HLGDFIEDTTLELPLDSATTESLRAAT 544
Cdd:PRK06288 130 ---RLGRTPSDEEIADELGISLEEYNSLLSklSGTSVVSLNDlwFGGDEGDEvSLMDTLESPAALNPDEIAEREEIKRVI 206
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 446359531 545 HDVLAGLTAREAKVLRMRFGIDMntdhTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK06288 207 VEAIKTLPEREKKVLILYYYEDL----TLKEIGKVLGVTESRISQLHTKAVLQLR 257
|
|
| PRK09210 |
PRK09210 |
RNA polymerase sigma factor RpoD; Validated |
8-126 |
9.76e-21 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 236413 [Multi-domain] Cd Length: 367 Bit Score: 94.28 E-value: 9.76e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 8 QLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAaaqvLSSV 87
Cdd:PRK09210 14 VVKELIEKGKKRGTLTYDEIAEKLIPFELDSDQIDDLYERLEDAGISIVDEEGNPSSAQVVEEEEEEELDND----LSVP 89
|
90 100 110
....*....|....*....|....*....|....*....
gi 446359531 88 ESEigRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDG 126
Cdd:PRK09210 90 PGV--KINDPVRMYLKEIGRVPLLTAEEEIELAKRIEEG 126
|
|
| PRK07408 |
PRK07408 |
RNA polymerase sigma factor SigF; Reviewed |
378-563 |
1.90e-19 |
|
RNA polymerase sigma factor SigF; Reviewed
Pssm-ID: 180965 [Multi-domain] Cd Length: 256 Bit Score: 88.44 E-value: 1.90e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 378 EMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 456
Cdd:PRK07408 29 QLVELNLGLVRKEAHRWSNQCSEpYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDKSPTVRIPRRW 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 457 IETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVlKIA---KEPISMETPIGDDEDSH--LGDFIEDttlelp 531
Cdd:PRK07408 109 QELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI-KLAlqnRTPLSLDAPVNQDEDGStsLGDLLPD------ 181
|
170 180 190
....*....|....*....|....*....|....*...
gi 446359531 532 ldsATTESLRAATHD------VLAGLTAREAKVLRMRF 563
Cdd:PRK07408 182 ---PRYRSFQLAQEDrirlqqALAQLEERTREVLEFVF 216
|
|
| PRK05803 |
PRK05803 |
RNA polymerase sporulation sigma factor SigK; |
364-600 |
2.48e-19 |
|
RNA polymerase sporulation sigma factor SigK;
Pssm-ID: 180266 [Multi-domain] Cd Length: 233 Bit Score: 87.31 E-value: 2.48e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 364 RMSIGEAKARRAkkeMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAtwwirqaitrsi 443
Cdd:PRK05803 42 LMKEGDEEARNI---LIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYA------------ 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 444 adqARTIRipvhmietinklNRIsrqmlqemgreptpeelaermLMpedKIRKVLKIAKEpISMETPIGDDEDSH---LG 520
Cdd:PRK05803 107 ---ARCIE------------NEI---------------------LM---HLRNLKKTKKE-VSLQDPIGVDKEGNeisLI 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 521 DFI---EDTTLELPLDSATTESLRAAthdvLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 597
Cdd:PRK05803 147 DILgseEDDVIEQVELKMEVEKLYKK----IDILDEREKEVIEMRYGLGNGKEKTQREIAKALGISRSYVSRIEKRALKK 222
|
...
gi 446359531 598 LRH 600
Cdd:PRK05803 223 LFK 225
|
|
| PRK07670 |
PRK07670 |
FliA/WhiG family RNA polymerase sigma factor; |
403-600 |
1.02e-18 |
|
FliA/WhiG family RNA polymerase sigma factor;
Pssm-ID: 181075 [Multi-domain] Cd Length: 251 Bit Score: 85.87 E-value: 1.02e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITrsiaDQARTI-RIPVHMIETINKLNRISRQMLQEMGREPTPE 481
Cdd:PRK07670 54 DLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRGAII----DGLRKEdWLPRSMREKTKKVEAAIEKLEQRYMRNVTPK 129
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 482 ELAERMLMPEDKIRKVLK--IAKEPISM-ETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKV 558
Cdd:PRK07670 130 EVAAELGMTEEEVEATMNegFFANLLSIdEKTHDQDDGENVSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLV 209
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 446359531 559 LRMRFgidmNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 600
Cdd:PRK07670 210 ISLFY----KEELTLTEIGQVLNLSTSRISQIHSKALFKLKK 247
|
|
| fliA |
PRK06986 |
flagellar biosynthesis sigma factor; Validated |
399-599 |
1.15e-17 |
|
flagellar biosynthesis sigma factor; Validated
Pssm-ID: 235901 [Multi-domain] Cd Length: 236 Bit Score: 82.59 E-value: 1.15e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 399 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQARTIRIPVhmietinklnrisR 468
Cdd:PRK06986 36 VDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMldelrsldwvPRSVRRNAREVAQAI-------------R 102
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 469 QMLQEMGREPTPEELAERMLMPEDKIRKVLkiakepisMETPIG-----DDEDSHLGDFIEDTTL---ELPLDSATTESL 540
Cdd:PRK06986 103 QLEQELGREPTDTEVAEKLGLSLEEYREML--------LDTNISqlfsiDELRGEHGDSILVTEDhqdEDPLQQLEDEEL 174
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 446359531 541 RAATHDVLAGLTAREAKVLRMRFGIDMNtdhtLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK06986 175 REALVEAIESLPEREQLVLSLYYQEELN----LKEIGAVLGVSESRVSQIHSQAIKRLR 229
|
|
| sigma70-ECF |
TIGR02937 |
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
374-599 |
1.28e-15 |
|
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Pssm-ID: 274357 [Multi-domain] Cd Length: 158 Bit Score: 74.69 E-value: 1.28e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 374 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRrgYKFSTYATWWIRQAITRSIADQARtirip 453
Cdd:TIGR02937 1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR----- 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 454 vhmietinkLNRISRQMLQEMGREPTPEELAERmlmpedkirkvlkiakepismetpigddedshlgdfiedttlelpld 533
Cdd:TIGR02937 74 ---------LRRELDLLEELLDSDPSPEEELEQ----------------------------------------------- 97
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446359531 534 sattESLRAATHDVLAGLTAREAKVLRMRFGIDMntdhTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:TIGR02937 98 ----EEEREALREALEKLPEREREVLVLRYLEGL----SYKEIAEILGISVGTVKRRLKRARKKLR 155
|
|
| PRK05911 |
PRK05911 |
RNA polymerase sigma factor sigma-28; Reviewed |
379-599 |
3.71e-14 |
|
RNA polymerase sigma factor sigma-28; Reviewed
Pssm-ID: 235644 [Multi-domain] Cd Length: 257 Bit Score: 72.73 E-value: 3.71e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 379 MVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAItrsIADQARTIRIPVH 455
Cdd:PRK05911 28 LIEFYLPLVKNVAHRLISgmpSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAI---IDDLRKQDWVPRS 104
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 456 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISM----ETPIGDDEDSHLG--DFIEDTTLE 529
Cdd:PRK05911 105 VHQKANKLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPALILslneEFPCQSDDEAGLAleERIADERAE 184
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 530 LPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMntdhTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK05911 185 TGYDVVDKKEFSSILAEAILALEEKERKVMALYYYEEL----VLKEIGKILGVSESRVSQIHSKALLKLR 250
|
|
| Sigma70_r4 |
pfam04545 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
547-600 |
1.53e-13 |
|
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.
Pssm-ID: 461347 [Multi-domain] Cd Length: 50 Bit Score: 65.14 E-value: 1.53e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 446359531 547 VLAGLTAREAKVLRMRFGidmnTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 600
Cdd:pfam04545 1 ALASLPPRERQVLVLRYG----EGLTLEEIGERLGISRERVRQIEKRALRKLRK 50
|
|
| Sigma70_r4 |
cd06171 |
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ... |
541-599 |
2.13e-11 |
|
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP).
Pssm-ID: 100119 [Multi-domain] Cd Length: 55 Bit Score: 59.04 E-value: 2.13e-11
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 446359531 541 RAATHDVLAGLTAREAKVLRMRFGidmnTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:cd06171 1 RERLEEALDKLPEREREVILLRFG----EGLSYEEIAEILGISRSTVRQRLHRALKKLR 55
|
|
| PRK08583 |
PRK08583 |
RNA polymerase sigma factor SigB; Validated |
375-605 |
1.50e-10 |
|
RNA polymerase sigma factor SigB; Validated
Pssm-ID: 236306 [Multi-domain] Cd Length: 257 Bit Score: 62.02 E-value: 1.50e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 454
Cdd:PRK08583 30 AQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTWSVHVPR 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 455 HMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK--EPISMETPIGDDEDShlgdfiedTTLELpL 532
Cdd:PRK08583 110 RIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKsyQALSVDHSIEADSDG--------STVTL-L 180
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 533 DSATTE-------SLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG-KQFDVTRerirqIEAKALRKLRHPSRS 604
Cdd:PRK08583 181 DIVGQQedgyeltEQRMILEKILPVLSDREKSIIQCTFIENLSQKETGERLGiSQMHVSR-----LQRQAIKKLREAAFL 255
|
.
gi 446359531 605 E 605
Cdd:PRK08583 256 D 256
|
|
| PRK08301 |
PRK08301 |
RNA polymerase sporulation sigma factor SigE; |
353-431 |
4.41e-10 |
|
RNA polymerase sporulation sigma factor SigE;
Pssm-ID: 236228 [Multi-domain] Cd Length: 234 Bit Score: 60.25 E-value: 4.41e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446359531 353 LTIEQVKDINRRMSIGEAKARrakKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Cdd:PRK08301 34 LSKEEEEYLLNKLPKGDEAVR---SLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYA 109
|
|
| Sigma70_r1_2 |
pfam00140 |
Sigma-70 factor, region 1.2; |
96-126 |
3.21e-09 |
|
Sigma-70 factor, region 1.2;
Pssm-ID: 425482 [Multi-domain] Cd Length: 34 Bit Score: 52.31 E-value: 3.21e-09
10 20 30
....*....|....*....|....*....|.
gi 446359531 96 DPVRMYMREMGTVELLTREGEIDIAKRIEDG 126
Cdd:pfam00140 1 DSVRLYLKEIGRIPLLTAEEEVELAKRIEAG 31
|
|
| PRK05901 |
PRK05901 |
RNA polymerase sigma factor; Provisional |
26-131 |
5.13e-08 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 235640 [Multi-domain] Cd Length: 509 Bit Score: 55.77 E-value: 5.13e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 26 EVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAAAQVlssveSEIGRTTDPVRMYMREM 105
Cdd:PRK05901 146 DIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFVWDEDDSEALRQARKD-----AKLTATADPVKAYLKQI 220
|
90 100
....*....|....*....|....*.
gi 446359531 106 GTVELLTREGEIDIAKRIEDGINQVQ 131
Cdd:PRK05901 221 GKVKLLNAEEEVELAKRIEAGLYAEE 246
|
|
| PRK12427 |
PRK12427 |
FliA/WhiG family RNA polymerase sigma factor; |
403-599 |
5.90e-05 |
|
FliA/WhiG family RNA polymerase sigma factor;
Pssm-ID: 183523 [Multi-domain] Cd Length: 231 Bit Score: 44.85 E-value: 5.90e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 403 DLIQEGNIGLMKAVDKFEYRRGyKFSTYATWWIRQAIT---RSIADQARTIRIPVHmietinKLNRISRQMLQEMGREPT 479
Cdd:PRK12427 47 DMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILdelRELDWRPRRLRQKTH------KTNDAIREIAKRLGHEPN 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446359531 480 PEELA-ERMLMPEDKIR-KVLKIAKEPISMETPIGDDEDshlGDFIEDTTLELPLdsATTESLRAAthdvLAGLTAREAK 557
Cdd:PRK12427 120 FEEISaELNLTAEEYQEyLLLENAGTLESLDELLALEAH---NDILQSRDLEENI--IIEDNLKQA----LSQLDEREQL 190
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 446359531 558 VLRMRFGIDMNtdhtLEEVGKQFDVTRERIRQIEAKALRKLR 599
Cdd:PRK12427 191 ILHLYYQHEMS----LKEIALVLDLTEARICQLNKKIAQKIK 228
|
|
| PRK08295 |
PRK08295 |
RNA polymerase sporulation sigma factor SigH; |
386-440 |
2.72e-04 |
|
RNA polymerase sporulation sigma factor SigH;
Pssm-ID: 181361 [Multi-domain] Cd Length: 208 Bit Score: 42.59 E-value: 2.72e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 446359531 386 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI-RQAIT 440
Cdd:PRK08295 36 FVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCItRQIIT 91
|
|
| RpoD |
COG0568 |
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ... |
100-126 |
6.17e-03 |
|
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 440334 [Multi-domain] Cd Length: 268 Bit Score: 38.88 E-value: 6.17e-03
10 20
....*....|....*....|....*..
gi 446359531 100 MYMREMGTVELLTREGEIDIAKRIEDG 126
Cdd:COG0568 1 AYLREIGRVPLLTAEEEVELARRIQAG 27
|
|
| |
