|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05658 |
PRK05658 |
RNA polymerase sigma factor RpoD; Validated |
2-571 |
0e+00 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 235549 [Multi-domain] Cd Length: 619 Bit Score: 712.34 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 2 QGRLTYDELNEALPPDMVTSDQIDDLMVWLDSEDIDVVDGAPEGQsrtsDIPVAATRTSTRRPSTIPPPADdgyAQKSN- 80
Cdd:PRK05658 23 RGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEAPDAD----DLLLAENEADAQTDEDAEEEAA---AALSSv 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 81 --------DPVRMYLRKMGSVSLLTREGEVEIAKRIEQGEDKIFEVILNSPVGVAEILEIGESLRRAKLRVKDVIR---D 149
Cdd:PRK05658 96 eseigrtdDPVRMYLREMGTVELLTREGEIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGERRLRELIDgfvD 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 150 LDKEEEVDFEAA-----------------------------KARALKLFDKVKRIESSMTKVQNELESKRRVSDRSkkay 200
Cdd:PRK05658 176 PNAEEDPAHVGSeleeldddedeeeeedenddslaadeselPEKVLEKFKALAKQYKKLRKAQEKKVEGRLAQHKK---- 251
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 201 naqLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGglkykeMKRV--IRDMQES----KEV 274
Cdd:PRK05658 252 ---YAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLRLVERLK------MPRKdfLKLFQGNeldiTWL 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 275 EKRLNRKYGSEEQILLSEEHIRDAQQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRLVVSIAKKYTN 354
Cdd:PRK05658 323 EKEIASGKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTN 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 355 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGR 434
Cdd:PRK05658 403 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 435 EPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREE 514
Cdd:PRK05658 483 EPTPEELAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAIQESLREATTDVLASLTPREA 562
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....*..
gi 931474934 515 KVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKQLRSFMDN 571
Cdd:PRK05658 563 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSRKLRSFLDN 619
|
|
| RpoD_Cterm |
TIGR02393 |
RNA polymerase sigma factor RpoD, C-terminal domain; This model represents the well-conserved ... |
333-570 |
4.37e-155 |
|
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: 443.28 E-value: 4.37e-155
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 333 AKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPV 412
Cdd:TIGR02393 1 AKKKLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 413 HMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKNAISPVDA 492
Cdd:TIGR02393 81 HMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKVREIKKIAQEPISLETPIGEEEDSFLGDFIEDESIESPDDA 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 931474934 493 VIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKQLRSFMD 570
Cdd:TIGR02393 161 AAKELLREQLDEVLETLTERERKVLRMRYGLLDGRPHTLEEVGKEFNVTRERIRQIESKALRKLRHPSRSKKLKDFLD 238
|
|
| PRK09210 |
PRK09210 |
RNA polymerase sigma factor RpoD; Validated |
312-570 |
4.82e-152 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 236413 [Multi-domain] Cd Length: 367 Bit Score: 440.96 E-value: 4.82e-152
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 312 SIEELRETYRALAEGErqtERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 391
Cdd:PRK09210 112 TAEEEIELAKRIEEGD---EEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATW 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 392 WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGE 471
Cdd:PRK09210 189 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREILKIAQEPVSLETPIGE 268
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 472 EEDSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAK 551
Cdd:PRK09210 269 EDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 348
|
250
....*....|....*....
gi 931474934 552 ALRKLRHPSRSKQLRSFMD 570
Cdd:PRK09210 349 ALRKLRHPSRSKQLKDFLE 367
|
|
| PRK05901 |
PRK05901 |
RNA polymerase sigma factor; Provisional |
306-570 |
1.23e-148 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 235640 [Multi-domain] Cd Length: 509 Bit Score: 437.50 E-value: 1.23e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 306 EQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 385
Cdd:PRK05901 245 EELLAEGEKLDPELRRDLQWIGRDGKRAKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKF 324
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 386 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISL 465
Cdd:PRK05901 325 STYATWWIRQAITRAMADQARTIRIPVHMVETINKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQKYNREPISL 404
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 466 ETPIGEEEDSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERI 545
Cdd:PRK05901 405 DKTIGKEGDSQFGDFIEDSEAVSPVDAVSFTLLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERI 484
|
250 260
....*....|....*....|....*
gi 931474934 546 RQIEAKALRKLRHPSRSKQLRSFMD 570
Cdd:PRK05901 485 RQIESKTLRKLRHPSRSQVLRDFLD 509
|
|
| RpoD |
COG0568 |
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ... |
312-570 |
3.11e-147 |
|
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: 424.47 E-value: 3.11e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 312 SIEELRETYRALAEGErqtERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 391
Cdd:COG0568 13 TAEEEVELARRIQAGD---EEAKRKLVEANLRLVVSIAKKYQGRGLPLLDLIQEGNLGLMKAVEKFDPERGFRFSTYATW 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 392 WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGE 471
Cdd:COG0568 90 WIRQAITRAIADQWRTIRLPVHMAETLNKLRRAKRQLLQELGREPTPEEIAEELGVPEEKVREMLRLAREPVSLDAPVGD 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 472 EEDSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAK 551
Cdd:COG0568 170 DEDSELGDLLEDEEAPSPEEALEEELLREELREALDTLTEREREILRLRFGLDDGEPHTLEEIGKEFGVSRERVRQIEAK 249
|
250
....*....|....*....
gi 931474934 552 ALRKLRHPSRSKQLRSFMD 570
Cdd:COG0568 250 ALRKLRHPLRSRKLRDYLD 268
|
|
| PRK07406 |
PRK07406 |
RNA polymerase sigma factor RpoD; Validated |
265-569 |
1.64e-113 |
|
RNA polymerase sigma factor RpoD; Validated
Pssm-ID: 236012 [Multi-domain] Cd Length: 373 Bit Score: 342.53 E-value: 1.64e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 265 IRDMQESKEVEkrLNRKYGSeeqiLLSEEHIRDAQQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRL 344
Cdd:PRK07406 75 IRLLRPDEEIE--LARKIAD----LLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEKMVQSNLRL 148
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 345 VVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRT 424
Cdd:PRK07406 149 VVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKT 228
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 425 SRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKNAiSPVDAVIGGNLEDQTRR 504
Cdd:PRK07406 229 TKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGE-TPEDDVAKNLLREDLEG 307
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 931474934 505 VLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKQLRSFM 569
Cdd:PRK07406 308 VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 372
|
|
| Sig70-cyanoRpoD |
TIGR02997 |
RNA polymerase sigma factor, cyanobacterial RpoD-like family; This family includes a number of ... |
285-557 |
1.02e-108 |
|
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: 327.28 E-value: 1.02e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 285 EEQILLSEEHIRDAQQKidDVEQSMGQSIEELRETYRalaegerQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQ 364
Cdd:TIGR02997 36 ELREELEEQLGREPSKE--EWAAAAGLSEAELRQRLR-------QGQRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQ 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 365 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAER 444
Cdd:TIGR02997 107 EGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEA 186
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 445 MEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDkNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIG 524
Cdd:TIGR02997 187 LELEPEQVRELLQRARQPVSLDAPVGDEEDTELGDLLED-DGESPEEQVERESLRQDLESLLAELTPRERQVLRLRFGLD 265
|
250 260 270
....*....|....*....|....*....|...
gi 931474934 525 EKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:TIGR02997 266 GGEPLTLAEIGRRLNLSRERVRQIEAKALRKLR 298
|
|
| PRK07921 |
PRK07921 |
RNA polymerase sigma factor SigB; Reviewed |
317-568 |
3.20e-107 |
|
RNA polymerase sigma factor SigB; Reviewed
Pssm-ID: 181169 [Multi-domain] Cd Length: 324 Bit Score: 324.76 E-value: 3.20e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 317 RETYRALAEGERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 396
Cdd:PRK07921 71 EARKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 150
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 397 ITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSH 476
Cdd:PRK07921 151 ITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAP 230
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 477 LGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKL 556
Cdd:PRK07921 231 LGDFIEDSEATSAENAVIAGLLHTDIRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKL 310
|
250
....*....|..
gi 931474934 557 RHPSRSKQLRSF 568
Cdd:PRK07921 311 RNGERADRLRSY 322
|
|
| rpoS_proteo |
TIGR02394 |
RNA polymerase sigma factor RpoS; A sigma factor is a DNA-binding protein protein that binds ... |
314-558 |
7.65e-86 |
|
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: 268.13 E-value: 7.65e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 314 EELRETYRALAeGERQterAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:TIGR02394 32 EEIAYARRALA-GDFE---ARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWWI 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEE 473
Cdd:TIGR02394 108 RQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEEIAELLDKPVEDVSRVLALNERITSLDAPLDDDS 187
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 474 DSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL 553
Cdd:TIGR02394 188 SKSLLDTIADEQSIDPESLVQNDDLKQLIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEVGLTRERVRQIQVEAL 267
|
....*
gi 931474934 554 RKLRH 558
Cdd:TIGR02394 268 KKLRR 272
|
|
| PRK07598 |
PRK07598 |
RNA polymerase sigma factor SigC; Validated |
239-571 |
1.34e-82 |
|
RNA polymerase sigma factor SigC; Validated
Pssm-ID: 236067 [Multi-domain] Cd Length: 415 Bit Score: 264.04 E-value: 1.34e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 239 VERAERAMNEAEARVGGLKYKEMKRVIRDMQESKEVEKRLNRKYGSEEQIllsEEHIRDAQQKIDDVEQSMGQSIEELRE 318
Cdd:PRK07598 81 VSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSL---ERWAKTADISLADLKPTLAEGKRRWAE 157
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 319 ----TYRALAEGERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 394
Cdd:PRK07598 158 iaklTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 237
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 395 QAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEED 474
Cdd:PRK07598 238 QGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLLRVPRSVSLETKVGKDKD 317
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 475 SHLGDFIEdKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALR 554
Cdd:PRK07598 318 TELGDLLE-TDDISPEEMLMRESLQRDLQHLLADLTSRERDVIRMRFGLADGHTYSLAEIGRALDLSRERVRQIESKALQ 396
|
330
....*....|....*..
gi 931474934 555 KLRHPSRSKQLRSFMDN 571
Cdd:PRK07598 397 KLRQPKRRNRIRDYLEL 413
|
|
| PRK05949 |
PRK05949 |
RNA polymerase sigma factor; Validated |
282-557 |
6.39e-78 |
|
RNA polymerase sigma factor; Validated
Pssm-ID: 180321 [Multi-domain] Cd Length: 327 Bit Score: 248.99 E-value: 6.39e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 282 YGSEEQILLSEEHIRDAQQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLD 361
Cdd:PRK05949 41 YGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLD 120
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 362 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEI 441
Cdd:PRK05949 121 LIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEI 200
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 442 AERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDkNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRF 521
Cdd:PRK05949 201 AKELELEPSQIREYLSMARQPISLDVRVGDNQDTELSELLED-EGPSPDQYITQELLRQDLNNLLAELTPQQREVLTLRF 279
|
250 260 270
....*....|....*....|....*....|....*.
gi 931474934 522 GIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:PRK05949 280 GLEDGKELSLAKVGERLNLSRERVRQLEHQALAHLR 315
|
|
| PRK05657 |
PRK05657 |
RNA polymerase sigma factor RpoS; Validated |
314-567 |
1.21e-77 |
|
RNA polymerase sigma factor RpoS; Validated
Pssm-ID: 235548 [Multi-domain] Cd Length: 325 Bit Score: 248.33 E-value: 1.21e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 314 EELRETYRALAeGErqtERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:PRK05657 72 EEVYFARRALR-GD---FAARQRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWI 147
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEE 473
Cdd:PRK05657 148 RQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEEIAELLDKPVDDVSRMLALNERITSLDTPLGGDP 227
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 474 DSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL 553
Cdd:PRK05657 228 EKSLLDILADEQENGPEDTTQDDDMKQSIVKWLFELNDKQREVLARRFGLLGYEAATLEDVAREIGLTRERVRQIQVEAL 307
|
250
....*....|....
gi 931474934 554 RKLRHPSRSKQLRS 567
Cdd:PRK05657 308 RRLREILQTQGLSI 321
|
|
| PRK07405 |
PRK07405 |
RNA polymerase sigma factor SigD; Validated |
282-557 |
8.81e-70 |
|
RNA polymerase sigma factor SigD; Validated
Pssm-ID: 180963 [Multi-domain] Cd Length: 317 Bit Score: 227.33 E-value: 8.81e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 282 YGSEEQILLSEEHIRDAQQKIDDVEQSMGQ-------SIEELRetyRALAEGERqterAKAELVEANLRLVVSIAKKYTN 354
Cdd:PRK07405 31 YGKQVQRLVALQEIREELAEELGREPTDAEwakaaklSEEELR---SAIAEGEA----AKRKMVEANLRLVVSVAKKYLK 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 355 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGR 434
Cdd:PRK07405 104 RNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGR 183
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 435 EPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDkNAISPVDAVIGGNLEDQTRRVLKTLTPREE 514
Cdd:PRK07405 184 AATIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELGELLED-TGASPEDFATQSSLQLDLERLMEDLTPQQK 262
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 931474934 515 KVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:PRK07405 263 EVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKLR 305
|
|
| FliA |
COG1191 |
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ... |
315-557 |
8.71e-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: 147.66 E-value: 8.71e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 315 ELRETYRALAEGErqtERAKAELVEANLRLVVSIAKKYTNRGLQFL-DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:COG1191 1 DLEELLRRYQEGD---EEAREELIEEYLPLVKKIASRLAGRLPAELdDLIQVGLIGLIEAIDRFDPSKGVSFETYAVPRI 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIADQArtiRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAK--EPISLETPIGE 471
Cdd:COG1191 78 RGAILDYLRDED---WVPRSVRELARKIEEAIEELEQELGREPTDEEIAEELGISLEEVQEALEAANayQLLSLDEPLED 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 472 EEDshLGDFIEDKnaiSPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAK 551
Cdd:COG1191 155 GDD--LLDLLESG---DPEEELEHEELREALAEAIEQLPERERLVLSLYY----FEELTLKEIAEVLGVSESRVSRLHKK 225
|
....*.
gi 931474934 552 ALRKLR 557
Cdd:COG1191 226 ALARLR 231
|
|
| SigBFG |
TIGR02980 |
RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; This group of similar sigma-70 factors ... |
331-557 |
3.03e-36 |
|
RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Pssm-ID: 274373 [Multi-domain] Cd Length: 227 Bit Score: 135.05 E-value: 3.03e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 331 ERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRI 410
Cdd:TIGR02980 2 KEAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDDTWAVRV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 411 PVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAK--EPISLETPIGEEEDS--HLGDFIEDKNa 486
Cdd:TIGR02980 82 PRRLKELGVKINKATEELTQRLGRSPTIAEIAERLGVSEEEVVEALEAGNayQALSLDASIEDDDGDpiALLDTLGDED- 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 931474934 487 ispvDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:TIGR02980 161 ----DALETVEDRLALKPLLAALPERERRILLLRF----FEDKTQSEIAERLGISQMHVSRLLRRALKKLR 223
|
|
| PRK06596 |
PRK06596 |
RNA polymerase factor sigma-32; Reviewed |
321-557 |
1.96e-34 |
|
RNA polymerase factor sigma-32; Reviewed
Pssm-ID: 235838 [Multi-domain] Cd Length: 284 Bit Score: 131.45 E-value: 1.96e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 321 RALAEGERQTERAKA--ELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 398
Cdd:PRK06596 35 YMLAKRLREHGDLEAakQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIH 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 399 RAIadqARTIRIpVHMIETIN--KLIRTSRYLVQELG--REPDPEEIAERMEMPLEKVRKV-LKIAKEPISLETPIGEEE 473
Cdd:PRK06596 115 EYI---LRNWRI-VKVATTKAqrKLFFNLRKAKKRLGwlNPEEVEMVAEELGVSEEEVREMeSRLSGQDASLDAPIDDDD 190
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 474 DSH--LGDFIEDKNAiSPVDAVIGGNLEDQTRRVL----KTLTPREEKVLRMRFGIGEKSdhTLEEVGQDFEVTRERIRQ 547
Cdd:PRK06596 191 EESgaPQDYLEDKSS-DPADVLEEDNWEDQRRALLadalEGLDERSRDIIEARWLDDDKS--TLQELAAEYGVSAERVRQ 267
|
250
....*....|
gi 931474934 548 IEAKALRKLR 557
Cdd:PRK06596 268 IEKNAMKKLK 277
|
|
| rpoH_proteo |
TIGR02392 |
alternative sigma factor RpoH; A sigma factor is a DNA-binding protein protein that binds to ... |
314-557 |
3.52e-33 |
|
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: 127.78 E-value: 3.52e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 314 EELRETYRALAEGERQterAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:TIGR02392 20 EEYQLAKRLREHGDLD---AAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWI 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIadqARTIRIpVHMIETIN--KLIRTSRYLVQELGREPDPEE---IAERMEMPLEKVRKV-LKIAKEPISLET 467
Cdd:TIGR02392 97 KAEIHEYI---LRNWRL-VKVATTKAqrKLFFNLRKMKKRLQGWLNPEEveaIAEELGVSEREVREMeSRLSGQDMSLNA 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 468 PIGEEEDSHLG--DFIEDKNAiSPVDAVIGGNLEDQTR----RVLKTLTPREEKVLRMRFGIGEKSdhTLEEVGQDFEVT 541
Cdd:TIGR02392 173 SIDDDEDDGGApiAYLVDKRS-DPEDTLEEEQWEELQRqalaNALGSLDARSRRIIEARWLDDDKL--TLQELAAEYGVS 249
|
250
....*....|....*.
gi 931474934 542 RERIRQIEAKALRKLR 557
Cdd:TIGR02392 250 AERIRQIEKNAMKKLK 265
|
|
| rpoH2 |
PRK07500 |
RNA polymerase factor sigma-32; Reviewed |
317-569 |
1.12e-31 |
|
RNA polymerase factor sigma-32; Reviewed
Pssm-ID: 236033 [Multi-domain] Cd Length: 289 Bit Score: 123.99 E-value: 1.12e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 317 RETYRALAEG--ERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 394
Cdd:PRK07500 23 REEEHALAYRwkDHRDEDALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYATWWIR 102
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 395 QAITRAIADQARTIR---------IPVHMIETINKLIRTSRylvqELGREPDPEEIAERMEMPLEKVRKV-LKIAKEPIS 464
Cdd:PRK07500 103 ASIQDYILRNWSIVRggtssaqkaLFFNLRRLRARLAQADE----ELTKQEIHREIATALGVSLSDVEMMdARLSGPDAS 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 465 LETPIGEEEDSHLG--DFIEDKNAISpvDAVIGGNLEDQTRRV-----LKTLTPREEKVLRMRFGIGEKSdhTLEEVGQD 537
Cdd:PRK07500 179 LNAPQSEEDEGRSErmDFLVDDSPLP--DEQVESSIDGERRRRwltqaLQTLNERELRIIRERRLREDGA--TLEALGEE 254
|
250 260 270
....*....|....*....|....*....|....
gi 931474934 538 FEVTRERIRQIEAKALRKLRHP--SRSKQLRSFM 569
Cdd:PRK07500 255 LGISKERVRQIEARALEKLRRAllSQSPEVAYFA 288
|
|
| Sigma70_r3 |
pfam04539 |
Sigma-70 region 3; Region 3 forms a discrete compact three helical domain within the ... |
416-493 |
5.23e-30 |
|
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: 112.31 E-value: 5.23e-30
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 931474934 416 ETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKNAISPVDAV 493
Cdd:pfam04539 1 ELLNKIKRAQRELEQELGREPTPEEIAEELGLSPEKVREVLEAAREPVSLDTPVGEEEDGELGDLLEDDDIESPEEAV 78
|
|
| PRK08215 |
PRK08215 |
RNA polymerase sporulation sigma factor SigG; |
314-557 |
1.44e-28 |
|
RNA polymerase sporulation sigma factor SigG;
Pssm-ID: 181296 [Multi-domain] Cd Length: 258 Bit Score: 114.27 E-value: 1.44e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 314 EELRETYRALAEGERQterAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:PRK08215 22 EEMRELFERMQNGDKE---AREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMI 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIADQaRTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIgeEE 473
Cdd:PRK08215 99 IGEIRRYLRDN-NPIRVSRSLRDIAYKALQVREKLINENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPI--YH 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 474 DShlGDFIEDKNAISPVDAVIGGNLEDQT-RRVLKTLTPREEKVLRMRFGIGEksdhTLEEVGQDFEVTRERIRQIEAKA 552
Cdd:PRK08215 176 DG--GDPIYVMDQISDEKNKDENWLEEIAlKEAMKKLNDREKLILNLRFFQGK----TQMEVAEEIGISQAQVSRLEKAA 249
|
....*
gi 931474934 553 LRKLR 557
Cdd:PRK08215 250 LKHMR 254
|
|
| FliA_WhiG |
TIGR02479 |
RNA polymerase sigma factor, FliA/WhiG family; Most members of this family are the flagellar ... |
361-557 |
7.36e-25 |
|
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: 102.74 E-value: 7.36e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 361 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI---TRAIADQARTIRIPVHMIEtinkliRTSRYLVQELGREPD 437
Cdd:TIGR02479 28 DLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMldeLRRLDWVPRSLRQKARKLE------RAIRELEARLGREPT 101
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 438 PEEIAERMEMPLEKVRKVLK--IAKEPISLETPIGEEEDS-HLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREE 514
Cdd:TIGR02479 102 EEEIAEELGMDLKEYRQALNeiNALSLVSLDELLESGDDGgSLIDRIEDDKSEDPEEELEREELREALAEAIESLSEREQ 181
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 931474934 515 KVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:TIGR02479 182 LVLSLYY----YEELNLKEIGEVLGLTESRVSQIHSQALKKLR 220
|
|
| spore_sigF |
TIGR02885 |
RNA polymerase sigma-F factor; Members of this protein family are the RNA polymerase sigma ... |
333-557 |
8.68e-25 |
|
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: 102.87 E-value: 8.68e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 333 AKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQArTIRIPV 412
Cdd:TIGR02885 12 ARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDDG-IIKVSR 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 413 HMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEEDS--HLGDFIEDKNAISpv 490
Cdd:TIGR02885 91 SLKELARKIRYMKEELSKELGREPTINELAEALGVSPEEIVMALESARSPQSLYDTVHQDDGDpiYLLDQIADKGSED-- 168
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 931474934 491 davigGNLEDQT--RRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:TIGR02885 169 -----SDWLEKIalKEAISKLDERERQIIMLRY----FKDKTQTEVANMLGISQVQVSRLEKKVLKKMK 228
|
|
| PRK05572 |
PRK05572 |
RNA polymerase sporulation sigma factor, SigF/SigG family; |
314-557 |
5.64e-23 |
|
RNA polymerase sporulation sigma factor, SigF/SigG family;
Pssm-ID: 180137 [Multi-domain] Cd Length: 252 Bit Score: 98.12 E-value: 5.64e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 314 EELRETYRALAEGERQterAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 393
Cdd:PRK05572 17 EENKELIKKSQDGDQE---ARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFSTYAVPMI 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 394 RQAITRAIADQArTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEPISLETPIGEEE 473
Cdd:PRK05572 94 IGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDELSKELGREPTIEELAEYLGVTPEEVVLAQEASRSPQSIHETVHEND 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 474 DS--HLGDFIEDKNAISPVDAViggnledQTRRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAK 551
Cdd:PRK05572 173 GDpiTLLDQIADQSEEDWFDKI-------ALKEAIRELDERERLIVYLRY----FKDKTQSEVAKRLGISQVQVSRLEKK 241
|
....*.
gi 931474934 552 ALRKLR 557
Cdd:PRK05572 242 ILKQMK 247
|
|
| PRK06288 |
PRK06288 |
RNA polymerase sigma factor WhiG; Reviewed |
311-557 |
6.92e-23 |
|
RNA polymerase sigma factor WhiG; Reviewed
Pssm-ID: 235770 [Multi-domain] Cd Length: 268 Bit Score: 98.61 E-value: 6.92e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 311 QSIEELRETYRalaegERQTERAKAELVEANLRLVVSIAKKYT---NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 387
Cdd:PRK06288 15 QDETELWREYK-----KTGDPKIREYLILKYSPLVKYVAGRIAvgmPQNVEFDDLVSYGVFGLIDAIEKFDPEREIKFKT 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 388 YATWWIRQAI---TRAIADQARTIRIPVHMIEtinkliRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLK--IAKEP 462
Cdd:PRK06288 90 YAVTRIRGAIfdeLRSIDWIPRSVRQKARQIE------RAIAMLEARLGRTPSDEEIADELGISLEEYNSLLSklSGTSV 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 463 ISLET--PIGEEEDS-HLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFE 539
Cdd:PRK06288 164 VSLNDlwFGGDEGDEvSLMDTLESPAALNPDEIAEREEIKRVIVEAIKTLPEREKKVLILYY----YEDLTLKEIGKVLG 239
|
250
....*....|....*...
gi 931474934 540 VTRERIRQIEAKALRKLR 557
Cdd:PRK06288 240 VTESRISQLHTKAVLQLR 257
|
|
| Sigma70_r2 |
pfam04542 |
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ... |
337-407 |
2.40e-22 |
|
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: 90.72 E-value: 2.40e-22
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 931474934 337 LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQART 407
Cdd:pfam04542 1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPERGVSFSTWLYTIIRNAIIDYLRKQRRT 71
|
|
| PRK05803 |
PRK05803 |
RNA polymerase sporulation sigma factor SigK; |
312-558 |
7.60e-22 |
|
RNA polymerase sporulation sigma factor SigK;
Pssm-ID: 180266 [Multi-domain] Cd Length: 233 Bit Score: 94.63 E-value: 7.60e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 312 SIEELRETYRALAEGERQterAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAtw 391
Cdd:PRK05803 32 SEEEERKYLELMKEGDEE---ARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYA-- 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 392 wirqaitraiadqARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEiaermemplekvrkvlkiakepISLETPIGE 471
Cdd:PRK05803 107 -------------ARCIENEILMHLRNLKKTKKEVSLQDPIGVDKEGNE----------------------ISLIDILGS 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 472 EEDShlgdfiedknaispVDAVIGGNLE-DQTRRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEA 550
Cdd:PRK05803 152 EEDD--------------VIEQVELKMEvEKLYKKIDILDEREKEVIEMRYGLGNGKEKTQREIAKALGISRSYVSRIEK 217
|
....*...
gi 931474934 551 KALRKLRH 558
Cdd:PRK05803 218 RALKKLFK 225
|
|
| PRK07122 |
PRK07122 |
RNA polymerase sigma factor SigF; Reviewed |
321-557 |
4.24e-21 |
|
RNA polymerase sigma factor SigF; Reviewed
Pssm-ID: 168831 [Multi-domain] Cd Length: 264 Bit Score: 93.30 E-value: 4.24e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 321 RALAEGERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRA 400
Cdd:PRK07122 29 AGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRH 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 401 IADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKI--AKEPISLETPIG--EEEDSH 476
Cdd:PRK07122 109 FRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVAgsAYNTLSIDSGGGsgDDDARA 188
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 477 LGDFIEDknaispVDAVIgGNLEDQT--RRVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGqdfeVTRERIRQIEAKALR 554
Cdd:PRK07122 189 IADTLGD------VDAGL-DQIENREalRPLLAALPERERTVLVLRFFESMTQTQIAERVG----ISQMHVSRLLAKTLA 257
|
...
gi 931474934 555 KLR 557
Cdd:PRK07122 258 RLR 260
|
|
| PRK07670 |
PRK07670 |
FliA/WhiG family RNA polymerase sigma factor; |
361-558 |
6.15e-21 |
|
FliA/WhiG family RNA polymerase sigma factor;
Pssm-ID: 181075 [Multi-domain] Cd Length: 251 Bit Score: 92.42 E-value: 6.15e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 361 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITraiaDQARTI-RIPVHMIETINKLIRTSRYLVQELGREPDPE 439
Cdd:PRK07670 54 DLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRGAII----DGLRKEdWLPRSMREKTKKVEAAIEKLEQRYMRNVTPK 129
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 440 EIAERMEMPLEKVRKVLK--IAKEPISL-ETPIGEEEDSHLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKV 516
Cdd:PRK07670 130 EVAAELGMTEEEVEATMNegFFANLLSIdEKTHDQDDGENVSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLV 209
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 931474934 517 LRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRH 558
Cdd:PRK07670 210 ISLFY----KEELTLTEIGQVLNLSTSRISQIHSKALFKLKK 247
|
|
| PRK07408 |
PRK07408 |
RNA polymerase sigma factor SigF; Reviewed |
305-521 |
1.76e-20 |
|
RNA polymerase sigma factor SigF; Reviewed
Pssm-ID: 180965 [Multi-domain] Cd Length: 256 Bit Score: 91.13 E-value: 1.76e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 305 VEQSMGQSIEELRETYRalaegERQTERAKAELVEANLRLVVSIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGY 383
Cdd:PRK07408 3 STESLKSETMELLRAYQ-----QNPSIALRNQLVELNLGLVRKEAHRWSNQCSEpYEDLVQVGSLGLIRAIERFDPSKGH 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 384 KFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVlKIA---K 460
Cdd:PRK07408 78 AFSSFAIPYIRGEIQHYLRDKSPTVRIPRRWQELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI-KLAlqnR 156
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 931474934 461 EPISLETPIGEEEDSH--LGDFIEDKNAISPVDAviggnLEDQTR--RVLKTLTPREEKVLRMRF 521
Cdd:PRK07408 157 TPLSLDAPVNQDEDGStsLGDLLPDPRYRSFQLA-----QEDRIRlqQALAQLEERTREVLEFVF 216
|
|
| sigma70-ECF |
TIGR02937 |
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
332-557 |
1.74e-14 |
|
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: 71.22 E-value: 1.74e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 332 RAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRrgYKFSTYATWWIRQAITRAIADQARtirip 411
Cdd:TIGR02937 1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR----- 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 412 vhmietinkLIRTSRYLVQELGREPDPEEIAERmemplekvrkvlkiakepisletpigeeedshlgdfIEDKNAIspvd 491
Cdd:TIGR02937 74 ---------LRRELDLLEELLDSDPSPEEELEQ------------------------------------EEEREAL---- 104
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 931474934 492 aviggnledqtRRVLKTLTPREEKVLRMRFGigekSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:TIGR02937 105 -----------REALEKLPEREREVLVLRYL----EGLSYKEIAEILGISVGTVKRRLKRARKKLR 155
|
|
| fliA |
PRK06986 |
flagellar biosynthesis sigma factor; Validated |
357-557 |
5.07e-14 |
|
flagellar biosynthesis sigma factor; Validated
Pssm-ID: 235901 [Multi-domain] Cd Length: 236 Bit Score: 71.80 E-value: 5.07e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 357 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRAIADQARTIRIPVHMIEtinklirtsr 426
Cdd:PRK06986 36 VDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMldelrsldwvPRSVRRNAREVAQAIRQLE---------- 105
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 427 ylvQELGREPDPEEIAERMEMPLEKVRKVLK--IAKEPISLETPIGEEEDSHLGdfIEDKNAISPVDAVIGGNLEDQTRR 504
Cdd:PRK06986 106 ---QELGREPTDTEVAEKLGLSLEEYREMLLdtNISQLFSIDELRGEHGDSILV--TEDHQDEDPLQQLEDEELREALVE 180
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 931474934 505 VLKTLTPREEKVLRMRFgigeksDH--TLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:PRK06986 181 AIESLPEREQLVLSLYY------QEelNLKEIGAVLGVSESRVSQIHSQAIKRLR 229
|
|
| PRK08583 |
PRK08583 |
RNA polymerase sigma factor SigB; Validated |
327-557 |
5.14e-13 |
|
RNA polymerase sigma factor SigB; Validated
Pssm-ID: 236306 [Multi-domain] Cd Length: 257 Bit Score: 69.34 E-value: 5.14e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 327 ERQTERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQAR 406
Cdd:PRK08583 24 ENQDEEAQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTW 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 407 TIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAK--EPISLETPIgeEEDShlgdfieDK 484
Cdd:PRK08583 104 SVHVPRRIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKsyQALSVDHSI--EADS-------DG 174
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 485 NAISPVDAVigGNLE---DQT------RRVLKTLTPREEKVLRMRFgIGEKSDhtlEEVGQDFEVTRERIRQIEAKALRK 555
Cdd:PRK08583 175 STVTLLDIV--GQQEdgyELTeqrmilEKILPVLSDREKSIIQCTF-IENLSQ---KETGERLGISQMHVSRLQRQAIKK 248
|
..
gi 931474934 556 LR 557
Cdd:PRK08583 249 LR 250
|
|
| Sigma70_r4 |
pfam04545 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
505-558 |
2.04e-11 |
|
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: 58.98 E-value: 2.04e-11
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 931474934 505 VLKTLTPREEKVLRMRFGigekSDHTLEEVGQDFEVTRERIRQIEAKALRKLRH 558
Cdd:pfam04545 1 ALASLPPRERQVLVLRYG----EGLTLEEIGERLGISRERVRQIEKRALRKLRK 50
|
|
| PRK05911 |
PRK05911 |
RNA polymerase sigma factor sigma-28; Reviewed |
311-557 |
2.18e-11 |
|
RNA polymerase sigma factor sigma-28; Reviewed
Pssm-ID: 235644 [Multi-domain] Cd Length: 257 Bit Score: 64.25 E-value: 2.18e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 311 QSIEELRETYRALAEGERqteraKAELVEANLRLVVSIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 387
Cdd:PRK05911 7 QNIAETWQLYWSTQEIEY-----RDVLIEFYLPLVKNVAHRLISgmpSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 388 YATWWIRQAItraIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPDPEEIAERMEMPLEKVRKVLKIAKEP--ISL 465
Cdd:PRK05911 82 YALFLIKAAI---IDDLRKQDWVPRSVHQKANKLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPAliLSL 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 466 --ETPIGEEEDS--HLGDFIEDKNAISPVDAVIGGNLEDQTRRVLKTLTPREEKVLRMRFgigeKSDHTLEEVGQDFEVT 541
Cdd:PRK05911 159 neEFPCQSDDEAglALEERIADERAETGYDVVDKKEFSSILAEAILALEEKERKVMALYY----YEELVLKEIGKILGVS 234
|
250
....*....|....*.
gi 931474934 542 RERIRQIEAKALRKLR 557
Cdd:PRK05911 235 ESRVSQIHSKALLKLR 250
|
|
| Sigma70_r1_1 |
pfam03979 |
Sigma-70 factor, region 1.1; Region 1.1 modulates DNA binding by region 2 and 4 when sigma is ... |
2-44 |
8.67e-11 |
|
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: 57.97 E-value: 8.67e-11
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 931474934 2 QGRLTYDELNEALPPDMVTSDQIDDLMVWLDSEDIDVVDGAPE 44
Cdd:pfam03979 13 KGYLTYDEINDALPDDILDSEQIEDIIEMLNDMGIDVVEEAPD 55
|
|
| PRK08301 |
PRK08301 |
RNA polymerase sporulation sigma factor SigE; |
312-389 |
1.19e-10 |
|
RNA polymerase sporulation sigma factor SigE;
Pssm-ID: 236228 [Multi-domain] Cd Length: 234 Bit Score: 61.80 E-value: 1.19e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 931474934 312 SIEELRETYRALAEGErqtERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 389
Cdd:PRK08301 35 SKEEEEYLLNKLPKGD---EAVRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYA 109
|
|
| Sigma70_r4 |
cd06171 |
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ... |
500-557 |
5.00e-10 |
|
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: 55.19 E-value: 5.00e-10
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 931474934 500 DQTRRVLKTLTPREEKVLRMRFGigekSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:cd06171 2 ERLEEALDKLPEREREVILLRFG----EGLSYEEIAEILGISRSTVRQRLHRALKKLR 55
|
|
| Sigma70_r1_2 |
pfam00140 |
Sigma-70 factor, region 1.2; |
81-113 |
1.86e-09 |
|
Sigma-70 factor, region 1.2;
Pssm-ID: 425482 [Multi-domain] Cd Length: 34 Bit Score: 53.08 E-value: 1.86e-09
10 20 30
....*....|....*....|....*....|...
gi 931474934 81 DPVRMYLRKMGSVSLLTREGEVEIAKRIEQGED 113
Cdd:pfam00140 1 DSVRLYLKEIGRIPLLTAEEEVELAKRIEAGDE 33
|
|
| PRK08295 |
PRK08295 |
RNA polymerase sporulation sigma factor SigH; |
325-457 |
2.66e-06 |
|
RNA polymerase sporulation sigma factor SigH;
Pssm-ID: 181361 [Multi-domain] Cd Length: 208 Bit Score: 48.37 E-value: 2.66e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 325 EGERQTERAKA-------ELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI-RQA 396
Cdd:PRK08295 10 EDEELVELARSgdkealeYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCItRQI 89
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 931474934 397 ITrAIADQARTIRIPVHMIETINKLI---RTSRYLVQEL--GREPDPEEI---AERMEMPLEKVRKVLK 457
Cdd:PRK08295 90 IT-AIKTANRQKHIPLNSYVSLDKPIydeESDRTLLDVIseAKVTDPEELiisKEELEDIEEKIEELLS 157
|
|
| Sigma70_ner |
pfam04546 |
Sigma-70, non-essential region; The domain is found in the primary vegetative sigma factor. ... |
123-305 |
4.16e-06 |
|
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: 47.16 E-value: 4.16e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 123 PVGVAEILEIGESLRRAKLRVKDVIRDLDKEEEVDfeaaKARALKLFDKVKRIESSMTKVQNEleskrrvSDRSKKAYna 202
Cdd:pfam04546 1 PLTIAEILEWYDRVEAGDDDDDDDSESLAADEGPD----PEEALERFEELREQYEKLRKAIEK-------HGRSSKKY-- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 203 qlDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGLKYKEMKRVIRDMQESKE-VEKRLNRK 281
Cdd:pfam04546 68 --LKLREELSEEFMQFRLVPKQFDRLVDQLREMVDRVRAQEREIMRLCVERAKMPRKDFIKSFPGNETNLEwLDKEIAAG 145
|
170 180
....*....|....*....|....
gi 931474934 282 YGSEEQILLSEEHIRDAQQKIDDV 305
Cdd:pfam04546 146 KPWSEKLERVAEDIRRAQQKLADI 169
|
|
| SMC_prok_A |
TIGR02169 |
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ... |
88-339 |
4.54e-05 |
|
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274009 [Multi-domain] Cd Length: 1164 Bit Score: 46.60 E-value: 4.54e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 88 RKMGSVSLLTREGE-VEIAKRIEQGEDKIFEVILNSPVGVAEILeigeslrraklRVKDVIRDLDKEEEV---DFEAAKA 163
Cdd:TIGR02169 634 RLMGKYRMVTLEGElFEKSGAMTGGSRAPRGGILFSRSEPAELQ-----------RLRERLEGLKRELSSlqsELRRIEN 702
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 164 RALKLFDKVKRIESSMTKVQNELEskrrVSDRSKKAYNAQLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAE 243
Cdd:TIGR02169 703 RLDELSQELSDASRKIGEIEKEIE----QLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLE 778
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 244 RAMNEAEARVGGLKYKEMKRVIRDMQES--------KEVEKRLNRKYGSEEQILLSEEHIRDAQQKIDDVEQSMGQSIEE 315
Cdd:TIGR02169 779 EALNDLEARLSHSRIPEIQAELSKLEEEvsriearlREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIEN 858
|
250 260
....*....|....*....|....
gi 931474934 316 LRETYRALAEGERQTERAKAELVE 339
Cdd:TIGR02169 859 LNGKKEELEEELEELEAALRDLES 882
|
|
| SMC_prok_B |
TIGR02168 |
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ... |
134-337 |
5.78e-05 |
|
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274008 [Multi-domain] Cd Length: 1179 Bit Score: 46.20 E-value: 5.78e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 134 ESLRRAKLRVKDVIRDLDKEEEVDFEAAKARALKLFDKVKRIESsMTKVQNELESKRRVSDRSKKAYNAQLDKHRHERVS 213
Cdd:TIGR02168 312 ANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELES-LEAELEELEAELEELESRLEELEEQLETLRSKVAQ 390
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 214 VLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGLKYKEMKRVIRDM-QESKEVEKRLNRKygsEEQILLSE 292
Cdd:TIGR02168 391 LELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELeEELEELQEELERL---EEALEELR 467
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 931474934 293 EHIRDAQQKIDDVEQSMGQ------SIEELRETYRALAEGERQTERAKAEL 337
Cdd:TIGR02168 468 EELEEAEQALDAAERELAQlqarldSLERLQENLEGFSEGVKALLKNQSGL 518
|
|
| EnvC |
COG4942 |
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ... |
180-340 |
4.43e-04 |
|
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];
Pssm-ID: 443969 [Multi-domain] Cd Length: 377 Bit Score: 42.83 E-value: 4.43e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 180 TKVQNELESKRRVSDRSKKAYNAQLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGLK-- 257
Cdd:COG4942 19 ADAAAEAEAELEQLQQEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELAALEAELAELEKEIAELRae 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 258 ----YKEMKRVIRDMQESKEVekrlnrkygSEEQILLSEEHIRDA---QQKIDDVEQSMGQSIEELRETYRALAEGERQT 330
Cdd:COG4942 99 leaqKEELAELLRALYRLGRQ---------PPLALLLSPEDFLDAvrrLQYLKYLAPARREQAEELRADLAELAALRAEL 169
|
170
....*....|
gi 931474934 331 ERAKAELVEA 340
Cdd:COG4942 170 EAERAELEAL 179
|
|
| CwlO1 |
COG3883 |
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ... |
187-344 |
5.21e-04 |
|
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];
Pssm-ID: 443091 [Multi-domain] Cd Length: 379 Bit Score: 42.51 E-value: 5.21e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 187 ESKRRVSDRSKKAYNAQLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGlKYKEMKRVIR 266
Cdd:COG3883 15 DPQIQAKQKELSELQAELEAAQAELDALQAELEELNEEYNELQAELEALQAEIDKLQAEIAEAEAEIEE-RREELGERAR 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 267 DMQESKEVEKRLNrkygseeqILLSEEHIRDA---QQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLR 343
Cdd:COG3883 94 ALYRSGGSVSYLD--------VLLGSESFSDFldrLSALSKIADADADLLEELKADKAELEAKKAELEAKLAELEALKAE 165
|
.
gi 931474934 344 L 344
Cdd:COG3883 166 L 166
|
|
| PRK12427 |
PRK12427 |
FliA/WhiG family RNA polymerase sigma factor; |
361-557 |
6.37e-04 |
|
FliA/WhiG family RNA polymerase sigma factor;
Pssm-ID: 183523 [Multi-domain] Cd Length: 231 Bit Score: 41.39 E-value: 6.37e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 361 DLIQEGNIGLMKAVDKFEYRRGyKFSTYATWWIRQAIT---RAIADQARTIRIPVHmieTINKLIRTSRylvQELGREPD 437
Cdd:PRK12427 47 DMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILdelRELDWRPRRLRQKTH---KTNDAIREIA---KRLGHEPN 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 438 PEEIAERMEMPLEKVRKVLKI--AKEPISLETPIGEEedshlgdfiedknaiSPVDAVIGGNLEDQ------TRRVLKTL 509
Cdd:PRK12427 120 FEEISAELNLTAEEYQEYLLLenAGTLESLDELLALE---------------AHNDILQSRDLEENiiiednLKQALSQL 184
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 931474934 510 TPREEKVLRMRFgigeKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 557
Cdd:PRK12427 185 DEREQLILHLYY----QHEMSLKEIALVLDLTEARICQLNKKIAQKIK 228
|
|
| Smc |
COG1196 |
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ... |
126-345 |
1.57e-03 |
|
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];
Pssm-ID: 440809 [Multi-domain] Cd Length: 983 Bit Score: 41.46 E-value: 1.57e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 126 VAEILEIGESLRRAKLRVKdvirdldkEEEVDFEAAKARALKLFDKVKRIESSmtkvQNELESKRRVSDRSKKAYNAQLD 205
Cdd:COG1196 259 EAELAELEAELEELRLELE--------ELELELEEAQAEEYELLAELARLEQD----IARLEERRRELEERLEELEEELA 326
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 206 KHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGLKYKEMKRVIRDMQESKEVEKRLNRKYGSE 285
Cdd:COG1196 327 ELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELE 406
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 286 EQILLSEEHIRDAQQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRLV 345
Cdd:COG1196 407 EAEEALLERLERLEEELEELEEALAELEEEEEEEEEALEEAAEEEAELEEEEEALLELLA 466
|
|
| SMC_prok_B |
TIGR02168 |
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ... |
94-344 |
2.87e-03 |
|
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274008 [Multi-domain] Cd Length: 1179 Bit Score: 40.81 E-value: 2.87e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 94 SLLTREGEV-EIAKRIEQGEDKIfevilnspvgvAEILEIGESLRRAKLRVKDVIRDLDKEEE---VDFEAAKARALKLF 169
Cdd:TIGR02168 671 SILERRREIeELEEKIEELEEKI-----------AELEKALAELRKELEELEEELEQLRKELEelsRQISALRKDLARLE 739
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 170 DKVKRIESSMTKVQNELESKrrvsDRSKKAYNAQLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEA 249
Cdd:TIGR02168 740 AEVEQLEERIAQLSKELTEL----EAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLL 815
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 250 EARVGGLKYKEMKRVIRDMQESKEVEKRLNRKYGSEEQILLSEEHIRDAQQKIDDVE----------QSMGQSIEELRET 319
Cdd:TIGR02168 816 NEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELEseleallnerASLEEALALLRSE 895
|
250 260 270
....*....|....*....|....*....|....*.
gi 931474934 320 YRALAEG-----------ERQTERAKAELVEANLRL 344
Cdd:TIGR02168 896 LEELSEElreleskrselRRELEELREKLAQLELRL 931
|
|
| YhaN |
COG4717 |
Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown]; |
159-343 |
3.08e-03 |
|
Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];
Pssm-ID: 443752 [Multi-domain] Cd Length: 641 Bit Score: 40.52 E-value: 3.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 159 EAAKARALKLFDKVKRIESSMTKVQNELESKRRVSDRSKKAYNAQLDKhRHERVSVLRELNLNKKQIDRVVARIK----- 233
Cdd:COG4717 49 ERLEKEADELFKPQGRKPELNLKELKELEEELKEAEEKEEEYAELQEE-LEELEEELEELEAELEELREELEKLEkllql 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 234 -DYIRRVERAERAMNEAEARVGGLKyKEMKRVIRDMQESKEVEKRLNRKYGSEEQILLS-----EEHIRDAQQKIDDVEQ 307
Cdd:COG4717 128 lPLYQELEALEAELAELPERLEELE-ERLEELRELEEELEELEAELAELQEELEELLEQlslatEEELQDLAEELEELQQ 206
|
170 180 190
....*....|....*....|....*....|....*.
gi 931474934 308 SMGQSIEELRETYRALAEGERQTERAKAELVEANLR 343
Cdd:COG4717 207 RLAELEEELEEAQEELEELEEELEQLENELEAAALE 242
|
|
| NptA |
COG1283 |
Na+/phosphate symporter [Inorganic ion transport and metabolism]; |
182-363 |
3.20e-03 |
|
Na+/phosphate symporter [Inorganic ion transport and metabolism];
Pssm-ID: 440894 [Multi-domain] Cd Length: 540 Bit Score: 40.16 E-value: 3.20e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 182 VQNELeskRRVSDRSKKAYNAQLDKHRHERVSVLRELNLNKKQIDRVVARIKDYIRRVERaeRAMNEAEARvgglKYKEM 261
Cdd:COG1283 338 ARREV---LRMGDLVEEMLRRALELLREGDEKLAEEIRKLEDAVDRLEREIKLYLAKLSR--ESLSEEESR----RLAEL 408
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 262 KRVIRDMQE----SKEVEKRLNRKYgsEEQILLSEEHIRDAQQKIDDVEQSMGQSIEEL----RETYRALAEGERQTERA 333
Cdd:COG1283 409 LHIANDLERigdiIENLAELAEKKI--EKGLEFSEEGLEELRELHERVLENLRLALSALasgdLELARKLLEEKEEIRRL 486
|
170 180 190
....*....|....*....|....*....|.
gi 931474934 334 KAELVEANL-RLVVSIAKKYTnrGLQFLDLI 363
Cdd:COG1283 487 ERELRKRHLeRLREGRCSIET--GSLHLDLL 515
|
|
| SMC_prok_B |
TIGR02168 |
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ... |
145-345 |
3.87e-03 |
|
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274008 [Multi-domain] Cd Length: 1179 Bit Score: 40.43 E-value: 3.87e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 145 DVIRDLDKEEEVDFEAAKARALKLFDKVKRIESSMTKVQNELESkrrvSDRSKKAYNAQLDKHRHERVSVLRELNLNKKQ 224
Cdd:TIGR02168 270 EELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLAN----LERQLEELEAQLEELESKLDELAEELAELEEK 345
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 225 IDRVVARIKDYIRRVERAERAMNEAEARVGGL--KYKEMKRVIRDMQESKEV--------EKRLNRKYGSEEQILLSEEH 294
Cdd:TIGR02168 346 LEELKEELESLEAELEELEAELEELESRLEELeeQLETLRSKVAQLELQIASlnneierlEARLERLEDRRERLQQEIEE 425
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 931474934 295 IRDAQQ--KIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEANLRLV 345
Cdd:TIGR02168 426 LLKKLEeaELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQALD 478
|
|
| SMC_prok_A |
TIGR02169 |
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ... |
134-322 |
4.58e-03 |
|
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274009 [Multi-domain] Cd Length: 1164 Bit Score: 40.05 E-value: 4.58e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 134 ESLRRAKLRVKDVIRDLDKEEEvDFEAAKARALKLFDKVKRIESSMTKVQNELESKRRVSDRSK---KAYNAQLDKHRHE 210
Cdd:TIGR02169 322 ERLAKLEAEIDKLLAEIEELER-EIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRdelKDYREKLEKLKRE 400
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 211 RVSVLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARVGGLKYKEMKRVIRDMQESKEVEKRLNRKYGSEEQILL 290
Cdd:TIGR02169 401 INELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDR 480
|
170 180 190
....*....|....*....|....*....|..
gi 931474934 291 SEEHIRDAQQKIDDVEQSMGQSIEELRETYRA 322
Cdd:TIGR02169 481 VEKELSKLQRELAEAEAQARASEERVRGGRAV 512
|
|
| Smc |
COG1196 |
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ... |
142-340 |
4.93e-03 |
|
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];
Pssm-ID: 440809 [Multi-domain] Cd Length: 983 Bit Score: 39.92 E-value: 4.93e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 142 RVKDVIRDLDK-----EEEVDfEAAKARALKLFDKVKRIEssmtkvqneleskrrvsdrskkAYNAQLDKHRHERVSVLR 216
Cdd:COG1196 190 RLEDILGELERqleplERQAE-KAERYRELKEELKELEAE----------------------LLLLKLRELEAELEELEA 246
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 217 ELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEARV---GGLKYKEMKRVIRDMQESKEVEKRLNRKYGSEEQILLSEE 293
Cdd:COG1196 247 ELEELEAELEELEAELAELEAELEELRLELEELELELeeaQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELA 326
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 931474934 294 HIRDAQQKIDDVEQSMGQSIEELRETYRALAEGERQTERAKAELVEA 340
Cdd:COG1196 327 ELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAE 373
|
|
| SMC_prok_A |
TIGR02169 |
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ... |
214-348 |
8.55e-03 |
|
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274009 [Multi-domain] Cd Length: 1164 Bit Score: 39.28 E-value: 8.55e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 931474934 214 VLRELNLNKKQIDRVVARIKDYIRRVERAERAMNEAEarvgglKYKEMKRVIRDMQES---KEVEKRLNRKYGSEEQILL 290
Cdd:TIGR02169 175 ALEELEEVEENIERLDLIIDEKRQQLERLRREREKAE------RYQALLKEKREYEGYellKEKEALERQKEAIERQLAS 248
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 931474934 291 SEEHIRDAQQKIDDVEQSMG---QSIEELRETYRALAEGERQTERAKAELVEANLRLVVSI 348
Cdd:TIGR02169 249 LEEELEKLTEEISELEKRLEeieQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERS 309
|
|
| |
