|
Name |
Accession |
Description |
Interval |
E-value |
| PRK09651 |
PRK09651 |
RNA polymerase sigma factor FecI; Provisional |
2-173 |
9.16e-119 |
|
RNA polymerase sigma factor FecI; Provisional
Pssm-ID: 182018 [Multi-domain] Cd Length: 172 Bit Score: 332.93 E-value: 9.16e-119
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 2 SDRATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNA 81
Cdd:PRK09651 1 SDRATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 82 LEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAV 161
Cdd:PRK09651 81 LEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSVSSVKKYVAKAT 160
|
170
....*....|..
gi 535290666 162 EHCLLFRLEYGL 173
Cdd:PRK09651 161 EHCLLFRLEYGL 172
|
|
| PRK12528 |
PRK12528 |
RNA polymerase sigma factor; Provisional |
10-164 |
2.37e-57 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 171561 [Multi-domain] Cd Length: 161 Bit Score: 176.96 E-value: 2.37e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 10 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEM 89
Cdd:PRK12528 3 SATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQIIEPRAFLTTIAKRVLCNHYRRQDLERAYLEA 82
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 535290666 90 LALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:PRK12528 83 LAQLPERVAPSEEERAIILETLVELDQLLDGLPPLVKRAFLLAQVDGLGYGEIATELGISLATVKRYLNKAAMRC 157
|
|
| PRK12523 |
PRK12523 |
RNA polymerase sigma factor; Reviewed |
15-164 |
1.37e-53 |
|
RNA polymerase sigma factor; Reviewed
Pssm-ID: 183572 [Multi-domain] Cd Length: 172 Bit Score: 167.72 E-value: 1.37e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 15 SLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMP 94
Cdd:PRK12523 14 ALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGRPELPTPREPRAFLAAVAKGLMFDHFRRAALEQAYLAELALVP 93
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 95 EGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:PRK12523 94 EAEQPSPEEQHLILEDLKAIDRLLGKLSSKARAAFLYNRLDGMGHAEIAERLGVSVSRVRQYLAQGLRQC 163
|
|
| PRK12525 |
PRK12525 |
RNA polymerase sigma factor; Provisional |
16-164 |
1.98e-50 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 139037 [Multi-domain] Cd Length: 168 Bit Score: 159.73 E-value: 1.98e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 16 LYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMPE 95
Cdd:PRK12525 14 MFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASIREPRALLTTIARRLMYEGWRRQDLERAYLQSLAEAPE 93
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 535290666 96 GGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:PRK12525 94 AVQPSPEEQWMVIETLLAIDRLLDGLSGKARAAFLMSQLEGLTYVEIGERLGVSLSRIHQYMVEAFKCC 162
|
|
| PRK12529 |
PRK12529 |
RNA polymerase sigma factor; Provisional |
15-165 |
2.04e-43 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183574 [Multi-domain] Cd Length: 178 Bit Score: 142.00 E-value: 2.04e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 15 SLYGTHHGWLKSWLTRKLQSAFD--ADDIAQDTFLRVMVSETLS---TIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEM 89
Cdd:PRK12529 17 TLYRENHAWLRNWLAYRLRSWGRgvADDLAHDIFLRILASRDGGqreAIRQPRAYLARIANCVLVSWRRRQSLELAWLEA 96
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 535290666 90 LALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHCL 165
Cdd:PRK12529 97 LATLPEPLHPSPEQQSVILETLHEIDALLDTLRPRVKQAFLMATLDGMKQKDIAQALDIALPTVKKYIHQAYVTCL 172
|
|
| RpoE |
COG1595 |
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ... |
13-164 |
1.35e-39 |
|
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 441203 [Multi-domain] Cd Length: 181 Bit Score: 132.43 E-value: 1.35e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLA 91
Cdd:COG1595 19 FEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKlDSFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLDELA 98
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 535290666 92 LMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:COG1595 99 EELPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
|
|
| PRK11924 |
PRK11924 |
RNA polymerase sigma factor; Provisional |
5-164 |
9.85e-33 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183384 [Multi-domain] Cd Length: 179 Bit Score: 114.68 E-value: 9.85e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 5 ATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVM-VSETLSTIRDPRSFLCTIAKRVMVDLFRRNALE 83
Cdd:PRK11924 7 DATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWrKADLFNGKGSARTWLLTIARNVCYDLLRRRRRE 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 84 KAYLEMLALMPEGG--APSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAV 161
Cdd:PRK11924 87 KAVLSDDALEPEFAetAETPEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRAR 166
|
...
gi 535290666 162 EHC 164
Cdd:PRK11924 167 QLL 169
|
|
| sigma70-ECF |
TIGR02937 |
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
13-164 |
1.93e-31 |
|
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: 110.90 E-value: 1.93e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLA 91
Cdd:TIGR02937 3 FEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEAlDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDLLE 82
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 535290666 92 LMPEGgAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:TIGR02937 83 ELLDS-DPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
|
|
| PRK12527 |
PRK12527 |
RNA polymerase sigma factor; Reviewed |
24-164 |
7.71e-29 |
|
RNA polymerase sigma factor; Reviewed
Pssm-ID: 171560 [Multi-domain] Cd Length: 159 Bit Score: 104.09 E-value: 7.71e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 24 LKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAY-LEMLALMPEGGAPSPE 102
Cdd:PRK12527 8 LVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQIEHPRAFLYRTALNLVVDRHRRHRVRQAEpLEVLDEEERLHSPSPQ 87
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 535290666 103 ERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:PRK12527 88 TRLDLGQRLALLQRALAELPPACRDSFLLRKLEGLSHQQIAEHLGISRSLVEKHIVNAMKHC 149
|
|
| PRK09637 |
PRK09637 |
RNA polymerase sigma factor SigZ; Provisional |
14-160 |
8.80e-19 |
|
RNA polymerase sigma factor SigZ; Provisional
Pssm-ID: 236601 [Multi-domain] Cd Length: 181 Bit Score: 78.87 E-value: 8.80e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 14 ESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVmvSETLSTIRDP---RSFLCTIAKRVMVDLFRRNALEKAYLEML 90
Cdd:PRK09637 4 ESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKT--HSNLHSLKDGssiKSWLYQIANNTIIDFYRKKNRSEELPDDL 81
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 91 AlmpegGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK09637 82 L-----FEDEEREENAKKELAPCLRPFIDALPEKYAEALRLTELEGLSQKEIAEKLGLSLSGAKSRVQRG 146
|
|
| PRK07037 |
PRK07037 |
extracytoplasmic-function sigma-70 factor; Validated |
38-164 |
4.08e-16 |
|
extracytoplasmic-function sigma-70 factor; Validated
Pssm-ID: 180803 [Multi-domain] Cd Length: 163 Bit Score: 71.25 E-value: 4.08e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYL----EMLALMPEGgaPSPEERESQLETLQL 113
Cdd:PRK07037 25 AEDVVQDAFVKLVEAPNQDAVKQPVAYLFRIVRNLAIDHYRRQALENKYHgdeeDGLDVPSPE--ASPEAALINRDTLRH 102
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 535290666 114 LDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:PRK07037 103 VADALSELPARTRYAFEMYRLHGETQKDIARELGVSPTLVNFMIRDALVHC 153
|
|
| PRK12513 |
PRK12513 |
RNA polymerase sigma factor; Provisional |
13-154 |
4.77e-15 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183566 [Multi-domain] Cd Length: 194 Bit Score: 69.33 E-value: 4.77e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDP-RSFLCTIAKRVMVDLFR----RNALEKAYL 87
Cdd:PRK12513 28 FEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPRARfRTWLYQIARNLLIDHWRrhgaRQAPSLDAD 107
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 535290666 88 EMLALMPEGGaPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK12513 108 EQLHALADDG-AAPEQQLSLFRDRRRLQAALETLPDEQREVFLLREHGDLELEEIAELTGVPEETVK 173
|
|
| PRK09639 |
PRK09639 |
RNA polymerase sigma factor SigX; Provisional |
12-171 |
1.86e-14 |
|
RNA polymerase sigma factor SigX; Provisional
Pssm-ID: 236602 [Multi-domain] Cd Length: 166 Bit Score: 67.28 E-value: 1.86e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 12 TFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSeTLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLA 91
Cdd:PRK09639 4 TFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS-DFKGIENEKGWLIKSARNVAYNYLRSEKRRRARILGEF 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 92 LMPEG-GAPSPEERESQLETLQLLDSMLDGLNGKTReAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHcllFRLE 170
Cdd:PRK09639 83 QWQEVdNEPSPEEIWIRKEEITKVQEVLAKMTERDR-TVLLLRFSGYSYKEIAEALGIKESSVGTTLARAKKK---FRKI 158
|
.
gi 535290666 171 Y 171
Cdd:PRK09639 159 Y 159
|
|
| PRK09649 |
PRK09649 |
RNA polymerase sigma factor SigC; Reviewed |
32-160 |
1.49e-12 |
|
RNA polymerase sigma factor SigC; Reviewed
Pssm-ID: 137458 [Multi-domain] Cd Length: 185 Bit Score: 62.37 E-value: 1.49e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 32 LQSAFDADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVDLFRRnalekayLEMLALMPEGGAP----SPEERES 106
Cdd:PRK09649 44 LSDVGSADDLTQETFLRAIGAiPRFSARSSARTWLLAIARHVVADHIRH-------VRSRPRTTRGARPehliDGDRHAR 116
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 535290666 107 QLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK09649 117 GFEDLVEVTTMIADLTTDQREALLLTQLLGLSYADAAAVCGCPVGTIRSRVARA 170
|
|
| Sigma70_r2 |
pfam04542 |
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ... |
16-81 |
1.60e-12 |
|
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: 59.52 E-value: 1.60e-12
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 535290666 16 LYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIR--DPRSFLCTIAKRVMVDLFRRNA 81
Cdd:pfam04542 1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAiERFDPERgvSFSTWLYTIIRNAIIDYLRKQR 69
|
|
| Sigma70_r4_2 |
pfam08281 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
111-164 |
8.93e-12 |
|
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.
Pssm-ID: 400535 [Multi-domain] Cd Length: 54 Bit Score: 57.08 E-value: 8.93e-12
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 535290666 111 LQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:pfam08281 1 LEALLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
|
|
| Sigma70_r4 |
cd06171 |
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ... |
111-164 |
2.26e-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: 53.26 E-value: 2.26e-10
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 535290666 111 LQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:cd06171 1 RERLEEALDKLPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
|
|
| PRK09636 |
PRK09636 |
RNA polymerase sigma factor SigJ; Provisional |
30-163 |
6.47e-10 |
|
RNA polymerase sigma factor SigJ; Provisional
Pssm-ID: 236600 [Multi-domain] Cd Length: 293 Bit Score: 56.47 E-value: 6.47e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 30 RKLQSAFDADDIAQDTFLRVMVSETlSTIRDPRSFLCTIAKRVMVDLFRRNALEK-AYLEMlaLMPEggaPSPEERESQL 108
Cdd:PRK09636 23 RMLGSVADAEDIVQEAWLRWNNADR-AQIRDPRAWLTRVVTRLCLDRLRSARHRReTYVGP--WLPE---PVVEELDDPL 96
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 535290666 109 ETLQLLDS-------MLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEH 163
Cdd:PRK09636 97 EAVVAAEDlslalmlALERLSPLERAAFLLHDVFGVPFDEIASTLGRSPAACRQLASRARKH 158
|
|
| PRK12535 |
PRK12535 |
RNA polymerase sigma factor; Provisional |
38-160 |
8.07e-10 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237130 [Multi-domain] Cd Length: 196 Bit Score: 55.29 E-value: 8.07e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVDLFRRNAL--EKAYLEMLALMPEGGAPSPEERESQLETLQLL 114
Cdd:PRK12535 51 ADDLTQETYLRVMSAlPRFAARSSARTWLLSLARRVWVDNIRHDMArpRKSATEYEDAAATTASNETTGSWSEWIDVRTL 130
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 535290666 115 dsmLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12535 131 ---IDALPPERREALILTQVLGYTYEEAAKIADVRVGTIRSRVARA 173
|
|
| PRK09652 |
PRK09652 |
RNA polymerase sigma factor RpoE; Provisional |
12-163 |
1.31e-09 |
|
RNA polymerase sigma factor RpoE; Provisional
Pssm-ID: 236608 [Multi-domain] Cd Length: 182 Bit Score: 54.43 E-value: 1.31e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 12 TFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSetLSTIRDPRSF---LCTIAKRVMVDLFRRNALEKAYLE 88
Cdd:PRK09652 11 AFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRA--LHSFRGGAAFytwLYRIARNTAINYLRKQGRRPPASD 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 89 MLALMPEGGAPSPEER-----ESQLETLQL---LDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK09652 89 VDAEEAEDFDLADALRdistpENELLSAELeqrVRAAIESLPEELRTAITLREIEGLSYEEIAEIMGCPIGTVRSRIFRA 168
|
...
gi 535290666 161 VEH 163
Cdd:PRK09652 169 REA 171
|
|
| PRK09647 |
PRK09647 |
RNA polymerase sigma factor SigE; Reviewed |
37-154 |
1.88e-09 |
|
RNA polymerase sigma factor SigE; Reviewed
Pssm-ID: 236606 [Multi-domain] Cd Length: 203 Bit Score: 54.41 E-value: 1.88e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 37 DADDIAQDTFLRVMVSetLSTIRdPRSF---LCTIAKRVMVDLFRRnaleKAYLEMLALmPE------GGAPSPEE--RE 105
Cdd:PRK09647 54 DAEDLTQETFIRVFRS--LQNYQ-PGTFegwLHRITTNLFLDMVRR----RARIRMEAL-PEdydrvpGDEPNPEQiyHD 125
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 535290666 106 SQLETLqlLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK09647 126 ARLDPD--LQAALDSLPPEFRAAVVLCDIEGLSYEEIAATLGVKLGTVR 172
|
|
| PRK12519 |
PRK12519 |
RNA polymerase sigma factor; Provisional |
15-160 |
2.82e-09 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237125 [Multi-domain] Cd Length: 194 Bit Score: 53.91 E-value: 2.82e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 15 SLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIR-DPRSFLCTIAKRVMVDLFR--RNA---LEKAYLE 88
Cdd:PRK12519 33 VLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRKSSYDPKRgSLSSYLLTLTRSRAIDRLRsrRSRqrlLERWQQE 112
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 535290666 89 MLAlmpEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12519 113 LLG---EASEDTPLEQASLAERSQRVQTALAQLPESQRQVLELAYYEGLSQSEIAKRLGIPLGTVKARARQG 181
|
|
| PRK09638 |
PRK09638 |
RNA polymerase sigma factor SigY; Reviewed |
13-161 |
4.67e-09 |
|
RNA polymerase sigma factor SigY; Reviewed
Pssm-ID: 182010 [Multi-domain] Cd Length: 176 Bit Score: 52.71 E-value: 4.67e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSetLSTIRDPRSF---LCTIAKRVMVDLFRRNALEKAYLEM 89
Cdd:PRK09638 20 LTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIEN--LSSFQGRSKFstwLISIASRLYKDHLRKQKREKLRLQR 97
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 535290666 90 LAlmpeGGAPSPEERESQLETLQLLDsMLDGLNG---KTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAV 161
Cdd:PRK09638 98 AK----EETLRKEKWEAAIKGAEWSE-MLDALSKldpEFRAPVILKHYYGYTYEEIAKMLNIPEGTVKSRVHHGI 167
|
|
| Sig-70_gvs1 |
TIGR02989 |
RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; This group of sigma ... |
12-155 |
2.46e-08 |
|
RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Pssm-ID: 274379 [Multi-domain] Cd Length: 159 Bit Score: 50.40 E-value: 2.46e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 12 TFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMvsETLSTIRDPRSF---LCTIAkRVMVDLFRRN------AL 82
Cdd:TIGR02989 2 AFVRLLTRHERALRAFVRSLVADRDDVDDVLQETFVVAW--RKFDQFDPGTNFvawARGIA-RNKVLNYRRKlgrdrlVF 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 535290666 83 EKAYLEMLALMPEggapsPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKK 155
Cdd:TIGR02989 79 DDDLLEALAAEAE-----PTEAERLSDDRQALEGCLEKLPERQRELLDLRYQRGQKATALAEQTGRTVNAVYK 146
|
|
| PRK12511 |
PRK12511 |
RNA polymerase sigma factor; Provisional |
28-160 |
3.20e-08 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237123 [Multi-domain] Cd Length: 182 Bit Score: 50.55 E-value: 3.20e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 28 LTRklqSAFDADDIAQDTFLRVMvsETLSTIR---DPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMPEGGAPSPEEr 104
Cdd:PRK12511 24 LTR---DSAEAEDLVHDALVRAL--ERRASFRsggNLRTWLMSILHNAFIDELRRRRVEARRADELAVLADASLPAAQE- 97
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 535290666 105 eSQLETLQLLDSMLDgLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12511 98 -HAVRLAQIRDAFFD-LPEEQRAALHLVAIEGLSYQEAAAVLGIPIGTLMSRIGRA 151
|
|
| PRK12541 |
PRK12541 |
RNA polymerase sigma factor; Provisional |
12-154 |
7.97e-08 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183580 [Multi-domain] Cd Length: 161 Bit Score: 49.16 E-value: 7.97e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 12 TFESLYGTH-HGWLKSWLTRKLQSAFdADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRnalEKAY---- 86
Cdd:PRK12541 6 SLEEIYSEHmQDLFRYLLSLTGDSHF-AEDLMQETFYRMLVHIDYYKGEEIRPWLFTIAYNAFIDWYRK---EKKYkttt 81
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 535290666 87 LEMLALMPeggAPSPEERE-SQLETLQLLDSmLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK12541 82 IEEFHLPN---VPSTEHEYfIKHEIASWLDS-LSSLPLERRNVLLLRDYYGFSYKEIAEMTGLSLAKVK 146
|
|
| PRK09641 |
PRK09641 |
RNA polymerase sigma factor SigW; Provisional |
30-154 |
1.10e-07 |
|
RNA polymerase sigma factor SigW; Provisional
Pssm-ID: 182012 [Multi-domain] Cd Length: 187 Bit Score: 49.31 E-value: 1.10e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 30 RKLQSAFDADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVDLFRRNALEkAYLE----------MLALMPEGGa 98
Cdd:PRK09641 37 RMLGNRHEAEDAAQEAFIRAYVNiDSYDINRKFSTWLYRIATNLTIDRLRKRKPD-YYLDaevagtegltMYSQLAADD- 114
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 535290666 99 PSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK09641 115 ALPEEQVVSLELQETIQEAILQLPEKYRTVIVLKYIEDLSLKEISEILDLPVGTVK 170
|
|
| PRK09645 |
PRK09645 |
ECF RNA polymerase sigma factor SigL; |
5-154 |
1.85e-07 |
|
ECF RNA polymerase sigma factor SigL;
Pssm-ID: 236605 [Multi-domain] Cd Length: 173 Bit Score: 48.54 E-value: 1.85e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 5 ATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLR------VMVSETlstiRDPRSFLCTIAKRVMVDLFR 78
Cdd:PRK09645 3 MATAEAALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRawqhpeVLADTG----RSARAWLFTVARNLVIDERR 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 535290666 79 --RNALEKAYLEMLALmPEggAPSPEERESQLETLQLLDSmLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK09645 79 saRARPVEGGDDVLGV-PE--QSAPDEVDRALDRLLVADA-LAQLSPEHRAVLVRSYYRGWSTAQIAADLGIPEGTVK 152
|
|
| PRK09047 |
PRK09047 |
RNA polymerase factor sigma-70; Validated |
67-170 |
2.13e-07 |
|
RNA polymerase factor sigma-70; Validated
Pssm-ID: 236367 [Multi-domain] Cd Length: 161 Bit Score: 48.04 E-value: 2.13e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 67 TIAKRVMVDLFRRNALEKAYLEML-----------------ALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAF 129
Cdd:PRK09047 36 RILQNRIHDWFRRQKVRNTWVSLFssfsdddddddfdpletLDSADEGAESPADKLERAQVLQLIEEAIQKLPARQREAF 115
|
90 100 110 120
....*....|....*....|....*....|....*....|.
gi 535290666 130 LLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVeHCLLFRLE 170
Cdd:PRK09047 116 LLRYWEDMDVAETAAAMGCSEGSVKTHCSRAT-HALAKALE 155
|
|
| sigI |
PRK09635 |
RNA polymerase sigma factor SigI; Provisional |
20-160 |
4.69e-07 |
|
RNA polymerase sigma factor SigI; Provisional
Pssm-ID: 182008 [Multi-domain] Cd Length: 290 Bit Score: 48.42 E-value: 4.69e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 20 HHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETlSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMpEGGAP 99
Cdd:PRK09635 14 HRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPV-GDIDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAW-HDGDA 91
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 535290666 100 SP-------------EERESQLEtlqlldsMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK09635 92 SVssvdpadrvtlddEVRLALLI-------MLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRA 158
|
|
| PRK12534 |
PRK12534 |
RNA polymerase sigma factor; Provisional |
10-161 |
7.72e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183576 [Multi-domain] Cd Length: 187 Bit Score: 46.97 E-value: 7.72e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 10 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSetlSTIRDPR-----SFLCTIAKRVMVDLFRRNALEK 84
Cdd:PRK12534 24 RHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHK---AGQFDPSrarglTWLAMIARNKAIDHLRANAPQR 100
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 535290666 85 --AYLEMLALMPEGGApSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAV 161
Cdd:PRK12534 101 rnVALDDAGELRAADA-SPLERTERASTRRRIDHCLAELEPPRSELIRTAFFEGITYEELAARTDTPIGTVKSWIRRGL 178
|
|
| PRK12533 |
PRK12533 |
RNA polymerase sigma factor; Provisional |
24-160 |
9.44e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237129 [Multi-domain] Cd Length: 216 Bit Score: 47.03 E-value: 9.44e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 24 LKSWLTrklQSAFDADDIAQDTFLRVMvsETLSTIR--DPRSFLCTIAKRVMVDLFRR--NALEKAYLE--MLALMPEGG 97
Cdd:PRK12533 34 LARWLC---GNASDADDVVQEACMRAL--RFFDSFRgdNARPWLLAIVRHTWYSEWRRraNAHEVAAPDtlDDADSLDDW 108
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 535290666 98 APSPEERESQL---ETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12533 109 QPAGEDPLALLlraEDVRLVNAALAKLPVEYREVLVLRELEDMSYREIAAIADVPVGTVMSRLARA 174
|
|
| PRK12542 |
PRK12542 |
RNA polymerase sigma factor; Provisional |
38-160 |
1.76e-06 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183581 [Multi-domain] Cd Length: 185 Bit Score: 45.81 E-value: 1.76e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMVS----ETLSTiRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMP-EGGAPSPEERESQLETLQ 112
Cdd:PRK12542 36 AEDAVQETFITLYKNleklHSLNT-QELKRYILRVAKNKAIDSYRKNKRHETFLEEYERESiEAVDENIEEWEKRKMSEV 114
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 535290666 113 LLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12542 115 QIDTLLKELNESNRQVFKYKVFYNLTYQEISSVMGITEANVRKQFERA 162
|
|
| PRK12524 |
PRK12524 |
RNA polymerase sigma factor; Provisional |
29-159 |
3.59e-06 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183573 [Multi-domain] Cd Length: 196 Bit Score: 45.27 E-value: 3.59e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 29 TRKLQSAFDADDIAQDTFLRVMvsETLSTIRDPRSFLCTIAKRVMVDLF---RRNALEKAYLEMLALMPEGGAPSPEERE 105
Cdd:PRK12524 44 TRVLGDRAEAEDVTQEAMLRLW--RIAPDWRQGEARVSTWLYRVVCNLCtdrLRRRRRASVDLDDAPEPADAAPGAEEAL 121
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 535290666 106 SQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAK 159
Cdd:PRK12524 122 IEGDRMRALDAALAALPERQRQAVVLRHIEGLSNPEIAEVMEIGVEAVESLTAR 175
|
|
| PRK06930 |
PRK06930 |
positive control sigma-like factor; Validated |
102-160 |
8.77e-06 |
|
positive control sigma-like factor; Validated
Pssm-ID: 180757 [Multi-domain] Cd Length: 170 Bit Score: 43.56 E-value: 8.77e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 535290666 102 EERESQL--ETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK06930 94 EEPESVIseWDKIRIEDALSVLTEREKEVYLMHRGYGLSYSEIADYLNIKKSTVQSMIERA 154
|
|
| PRK12514 |
PRK12514 |
RNA polymerase sigma factor; Provisional |
1-157 |
1.14e-05 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 105710 [Multi-domain] Cd Length: 179 Bit Score: 43.66 E-value: 1.14e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 1 MSDRATttasltFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRD--PRSFLCTIAKRVMVDLFR 78
Cdd:PRK12514 15 LGDRDA------FSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSGlsPMTWLITIARNHAIDRLR 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 79 -RNALEKAYLEMLALMPEggAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYV 157
Cdd:PRK12514 89 aRKAVAVDIDEAHDLADP--SPGPEAEVIAGDEGQRIDACLEELEKDRAAAVRRAYLEGLSYKELAERHDVPLNTMRTWL 166
|
|
| PRK09648 |
PRK09648 |
RNA polymerase sigma factor ShbA; |
33-169 |
2.09e-05 |
|
RNA polymerase sigma factor ShbA;
Pssm-ID: 236607 [Multi-domain] Cd Length: 189 Bit Score: 43.03 E-value: 2.09e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 33 QSAFDADDIAQDTFLRVMVSetLSTIRDP-RSFLC---TIAKRVMVDLFRRNALEKAYleMLALMPEG--GAPSPEERES 106
Cdd:PRK09648 50 RPGLSADDVAQEVCLAVITA--LPRYRDQgRPFLAfvyGIAAHKVADAHRAAGRDKAV--PTEEVPERpsDDAGPEERAL 125
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 535290666 107 QLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKkyVAkavEHCLLFRL 169
Cdd:PRK09648 126 RSESSNRMRELLDTLPEKQREILILRVVVGLSAEETAEAVGSTPGAVR--VA---QHRALARL 183
|
|
| Sigma70_r4 |
pfam04545 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
118-164 |
2.09e-05 |
|
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: 40.10 E-value: 2.09e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 535290666 118 LDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164
Cdd:pfam04545 2 LASLPPRERQVLVLRYGEGLTLEEIGERLGISRERVRQIEKRALRKL 48
|
|
| PRK09644 |
PRK09644 |
RNA polymerase sigma factor SigM; Provisional |
38-160 |
5.78e-05 |
|
RNA polymerase sigma factor SigM; Provisional
Pssm-ID: 170033 [Multi-domain] Cd Length: 165 Bit Score: 41.40 E-value: 5.78e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNalEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSM 117
Cdd:PRK09644 28 AEDLLQETFYRAYIYLEDYDNQKVKPWLFKVAYHTFIDFVRKE--KKVSFVGTDEIEAIQAESTEEYVVAKNSYEKLIQI 105
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 535290666 118 LDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK09644 106 IHTLPVIEAQAILLCDVHELTYEEAASVLDLKLNTYKSHLFRG 148
|
|
| PRK08241 |
PRK08241 |
RNA polymerase subunit sigma-70; |
4-153 |
5.83e-05 |
|
RNA polymerase subunit sigma-70;
Pssm-ID: 236196 [Multi-domain] Cd Length: 339 Bit Score: 42.23 E-value: 5.83e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 4 RATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS----ETLSTIrdpRSFLCTIAKRVMVDLFR- 78
Cdd:PRK08241 12 RAAAGDRDAFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGydrfEGRSSL---RTWLYRIATNVCLDALEg 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 79 --RNAL-------------------EKAYLE-MLALMPEGGAPSPEERESQLETLQL-LDSMLDGLNGKTREAFLLSQLD 135
Cdd:PRK08241 89 raRRPLptdlgapaadpvdelverpEVPWLEpYPDALLDPAAADPAARVVARESVRLaFVAALQHLPPRQRAVLILRDVL 168
|
170
....*....|....*...
gi 535290666 136 GLTYSEIAHKLGVSISSV 153
Cdd:PRK08241 169 GWSAAEVAELLDTSVAAV 186
|
|
| PRK09646 |
PRK09646 |
ECF RNA polymerase sigma factor SigK; |
13-154 |
6.30e-05 |
|
ECF RNA polymerase sigma factor SigK;
Pssm-ID: 182015 [Multi-domain] Cd Length: 194 Bit Score: 41.58 E-value: 6.30e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSetlSTIRDPR-----SFLCTIAKRVMVDLFR--RNALEKA 85
Cdd:PRK09646 32 FAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRT---ASRFDPArgsalAWLLTLAHRRAVDRVRseQAASQRE 108
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 535290666 86 YLEMLALMPEGGAPSPEERESQLETLQLLDSmLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK09646 109 VRYGARNVDPAFDQVAEEVEARLERERVRDC-LDALTDTQRESVTLAYYGGLTYREVAERLAVPLGTVK 176
|
|
| CitB |
COG2197 |
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ... |
72-158 |
9.71e-05 |
|
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];
Pssm-ID: 441799 [Multi-domain] Cd Length: 131 Bit Score: 40.26 E-value: 9.71e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 72 VMVD---LFRRnalekAYLEMLALMPE----GGAPSPEERESQLETLQ----LLDSMLDGLNGKTREAFLLSQ------- 133
Cdd:COG2197 5 LIVDdhpLVRE-----GLRALLEAEPDievvGEAADGEEALELLEELRpdvvLLDIRMPGMDGLEALRRLLTPrerevlr 79
|
90 100
....*....|....*....|....*..
gi 535290666 134 --LDGLTYSEIAHKLGVSISSVKKYVA 158
Cdd:COG2197 80 llAEGLSNKEIAERLGISERTVKTHVS 106
|
|
| PRK05602 |
PRK05602 |
RNA polymerase sigma factor; Reviewed |
29-168 |
1.07e-04 |
|
RNA polymerase sigma factor; Reviewed
Pssm-ID: 235530 [Multi-domain] Cd Length: 186 Bit Score: 40.79 E-value: 1.07e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 29 TRKLQSAFDADDIAQDTFLRVMvsetlstiRDPRSFLCTIAK------RVMVDL-FRRNALEKAYLEMLALMPEGGAPSP 101
Cdd:PRK05602 38 TRMLGDPAEAEDVAQETFLRIW--------KQAPSWRPGEARfdtwlhRVVLNLcYDRLRRRREVPVEDAPDVPDPAPGP 109
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 535290666 102 EERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSIssvkkyvaKAVEhCLLFR 168
Cdd:PRK05602 110 DAGLEARQRARRVEQALAALPERQREAIVLQYYQGLSNIEAAAVMDISV--------DALE-SLLAR 167
|
|
| PRK12516 |
PRK12516 |
RNA polymerase sigma factor; Provisional |
38-160 |
1.10e-04 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183568 [Multi-domain] Cd Length: 187 Bit Score: 40.72 E-value: 1.10e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMV-SETLSTIRDPRSFLCTIAKRVMVDLFRRNALE-----KAYLEMLALMPeggapspeereSQLETL 111
Cdd:PRK12516 37 ADDLVQDTIMKAWAkQDHFEVGTNMKAWLFTILRNEFYSQMRKRGREvqdtdGMFTEQLAVHP-----------SQYGTL 105
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 535290666 112 QLLD--SMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKA 160
Cdd:PRK12516 106 DLQDfrAALDQLPDDQREAIILVGASGFAYEEAAEICGCAVGTIKSRVNRA 156
|
|
| PRK12539 |
PRK12539 |
RNA polymerase sigma factor SigF; |
25-154 |
1.23e-04 |
|
RNA polymerase sigma factor SigF;
Pssm-ID: 237132 [Multi-domain] Cd Length: 184 Bit Score: 40.48 E-value: 1.23e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 25 KSWLTRKLQSAFDADDIAQDTflrVMVSETLSTIRDPRSFLC----TIAKRVMVDLFRRNALEKAYL------EMLALMP 94
Cdd:PRK12539 39 KGKLARIGRGAEEAEDLVQEA---LMAIHTRRHTYDPEQPLTpwvyAIARYKLIDHLRRTRASLADVpiddadELVAHDD 115
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 95 EGGApspeerESQLEtlqlLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVK 154
Cdd:PRK12539 116 HAAV------ESTLD----LGRLLARLPEKMRLAIQAVKLEGLSVAEAATRSGMSESAVK 165
|
|
| FliA |
COG1191 |
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ... |
98-162 |
7.92e-04 |
|
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: 38.65 E-value: 7.92e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 535290666 98 APSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVE 162
Cdd:COG1191 164 SGDPEEELEHEELREALAEAIEQLPERERLVLSLYYFEELTLKEIAEVLGVSESRVSRLHKKALA 228
|
|
| PRK13919 |
PRK13919 |
putative RNA polymerase sigma E protein; Provisional |
38-162 |
2.08e-03 |
|
putative RNA polymerase sigma E protein; Provisional
Pssm-ID: 184395 [Multi-domain] Cd Length: 186 Bit Score: 37.20 E-value: 2.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVM--VSETLSTIRDPRSFLCTIAKRVMVDLFRRNALEKAYLEMLALMPEG-GAPSPE-ERESQLETLQl 113
Cdd:PRK13919 50 AEDVVQEVFIRVWkkAKEFDPRRGSARAWLLALAHHAAVDHVRRRAARPQPLEPDEREPEAfDLPGPGlDEEGHLDRTR- 128
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 535290666 114 LDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVE 162
Cdd:PRK13919 129 LGRALKALSPEERRVIEVLYYQGYTHREAAQLLGLPLGTLKTRARRALS 177
|
|
| PRK12517 |
PRK12517 |
RNA polymerase sigma factor; Provisional |
38-153 |
2.66e-03 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183569 [Multi-domain] Cd Length: 188 Bit Score: 36.97 E-value: 2.66e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 38 ADDIAQDTFLRVMVSetLSTIRDP---RSFLCTIAKRVMVDLFRRNALEKAYLEMlALMPEGGAPSPEERESQletlQLL 114
Cdd:PRK12517 50 AEDLVQETFLRAWRS--LDSLKDEkaaKAWLITILRRENARRFERKQFDLVDIED-DSIEDDASHSSEEEMEQ----EWL 122
|
90 100 110
....*....|....*....|....*....|....*....
gi 535290666 115 DSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISSV 153
Cdd:PRK12517 123 RRQIAKLDPEYREPLLLQVIGGFSGEEIAEILDLNKNTV 161
|
|
| HTH_LUXR |
smart00421 |
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon |
126-162 |
3.03e-03 |
|
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 34.43 E-value: 3.03e-03
10 20 30
....*....|....*....|....*....|....*...
gi 535290666 126 REAFLLSQL-DGLTYSEIAHKLGVSISSVKKYVAKAVE 162
Cdd:smart00421 7 REREVLRLLaEGLTNKEIAERLGISEKTVKTHLSNIMR 44
|
|
| PRK09191 |
PRK09191 |
two-component response regulator; Provisional |
75-162 |
4.39e-03 |
|
two-component response regulator; Provisional
Pssm-ID: 236402 [Multi-domain] Cd Length: 261 Bit Score: 36.36 E-value: 4.39e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 535290666 75 DLFRRNALEkAYLEMLALMPEGGAP---------------SPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTY 139
Cdd:PRK09191 29 DAYVAATLE-ALLADPSIFPEASSPrvglyrlfhrlwssaGANDPEPGSPFEARAERRLAGLTPLPRQAFLLTALEGFSV 107
|
90 100
....*....|....*....|...
gi 535290666 140 SEIAHKLGVSISSVKKYVAKAVE 162
Cdd:PRK09191 108 EEAAEILGVDPAEAEALLDDARA 130
|
|
| PRK12544 |
PRK12544 |
RNA polymerase factor sigma-70; |
100-152 |
7.98e-03 |
|
RNA polymerase factor sigma-70;
Pssm-ID: 183583 [Multi-domain] Cd Length: 206 Bit Score: 35.55 E-value: 7.98e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 535290666 100 SPEERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSISS 152
Cdd:PRK12544 128 NPEESLEQEQFWRIFEACLDGLPAKYARVFMMREFIELETNEICHAVDLSVSN 180
|
|
| transpos_IS630 |
NF033545 |
IS630 family transposase; |
126-165 |
8.08e-03 |
|
IS630 family transposase;
Pssm-ID: 468076 [Multi-domain] Cd Length: 298 Bit Score: 35.69 E-value: 8.08e-03
10 20 30 40
....*....|....*....|....*....|....*....|
gi 535290666 126 REAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHCL 165
Cdd:NF033545 2 RARILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNEGGL 41
|
|
| PRK08295 |
PRK08295 |
RNA polymerase sporulation sigma factor SigH; |
99-153 |
8.70e-03 |
|
RNA polymerase sporulation sigma factor SigH;
Pssm-ID: 181361 [Multi-domain] Cd Length: 208 Bit Score: 35.27 E-value: 8.70e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 535290666 99 PSPEER-ESQLETLQLLDSMLDGLNGKTREAFLLsQLDGLTYSEIAHKLGVSISSV 153
Cdd:PRK08295 133 TDPEELiISKEELEDIEEKIEELLSELEKEVLEL-YLDGKSYQEIAEELNRHVKSI 187
|
|
| |
