|
Name |
Accession |
Description |
Interval |
E-value |
| RpoE |
COG1595 |
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ... |
1-183 |
9.65e-46 |
|
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: 148.60 E-value: 9.65e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 1 MDISKDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEA 80
Cdd:COG1595 1 MSSDEELLERLRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 81 LNRRKKsnlENSRRAEFDESVEANPALREDPVgKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGIN 160
Cdd:COG1595 81 IDHLRK---RRRRRELLDELAEELPDEAADPE-EALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGIS 156
|
170 180
....*....|....*....|...
gi 1085001966 161 INTVRTRLKRAREILIKKVKENG 183
Cdd:COG1595 157 EGTVKSRLSRARKKLREALEEEG 179
|
|
| sigma70-ECF |
TIGR02937 |
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
18-179 |
4.49e-32 |
|
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: 112.83 E-value: 4.49e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKsnlenSRRAEF 97
Cdd:TIGR02937 2 AFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRR-----KRRLRR 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 98 DESVEANPALREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIK 177
Cdd:TIGR02937 77 ELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRE 156
|
..
gi 1085001966 178 KV 179
Cdd:TIGR02937 157 LL 158
|
|
| PRK09652 |
PRK09652 |
RNA polymerase sigma factor RpoE; Provisional |
8-181 |
5.96e-31 |
|
RNA polymerase sigma factor RpoE; Provisional
Pssm-ID: 236608 [Multi-domain] Cd Length: 182 Bit Score: 110.67 E-value: 5.96e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 8 IERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN---RR 84
Cdd:PRK09652 1 VERVQRGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFRGGAAFYTWLYRIARNTAINylrKQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 85 KKSNLENSRRAEFDESVEANPALREDPVGKSV-NENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININT 163
Cdd:PRK09652 81 GRRPPASDVDAEEAEDFDLADALRDISTPENElLSAELEQRVRAAIESLPEELRTAITLREIEGLSYEEIAEIMGCPIGT 160
|
170
....*....|....*...
gi 1085001966 164 VRTRLKRAREILIKKVKE 181
Cdd:PRK09652 161 VRSRIFRAREALRAKLQP 178
|
|
| PRK12518 |
PRK12518 |
RNA polymerase sigma factor; Provisional |
7-185 |
5.26e-26 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237124 [Multi-domain] Cd Length: 175 Bit Score: 97.87 E-value: 5.26e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 7 IIERAARGEIPAFEEIYKSSSGFVYNVALRISASEhEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKK 86
Cdd:PRK12518 1 LILRCQRGDRQSFRQLYRRYQQKVRSTLYQLCGRE-LLDDLVQEVFLRVWKGLPKLRNPAYFSTWLYRITWNVATDARRQ 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 87 SNLENSRRAEFDESVEANPALREDPVGKSVNEnidkDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRT 166
Cdd:PRK12518 80 FAQRPSRIQDDSLNDQPSRPSDTPDLMQLHYQ----DLVQQGLQTLSLEHRAVLVLHDLEDLPQKEIAEILNIPVGTVKS 155
|
170
....*....|....*....
gi 1085001966 167 RLKRAREILIKKVKENGMQ 185
Cdd:PRK12518 156 RLFYARRQLRKFLQQQGVL 174
|
|
| PRK09647 |
PRK09647 |
RNA polymerase sigma factor SigE; Reviewed |
13-175 |
4.71e-25 |
|
RNA polymerase sigma factor SigE; Reviewed
Pssm-ID: 236606 [Multi-domain] Cd Length: 203 Bit Score: 96.01 E-value: 4.71e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 13 RGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNhKSSFNTWLYRVAVNEALNR-RKKSNLen 91
Cdd:PRK09647 24 KATMPSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQ-PGTFEGWLHRITTNLFLDMvRRRARI-- 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 92 sRRAEFDESVEANPALREDPVGKSVNENIDKDKVAELLSLvNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRA 171
Cdd:PRK09647 101 -RMEALPEDYDRVPGDEPNPEQIYHDARLDPDLQAALDSL-PPEFRAAVVLCDIEGLSYEEIAATLGVKLGTVRSRIHRG 178
|
....
gi 1085001966 172 REIL 175
Cdd:PRK09647 179 RQQL 182
|
|
| PRK11922 |
PRK11922 |
RNA polymerase sigma factor; Provisional |
6-175 |
6.19e-25 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237024 [Multi-domain] Cd Length: 231 Bit Score: 96.57 E-value: 6.19e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 6 DIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRK 85
Cdd:PRK11922 19 ELVARVLAGDEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGDASLSTWLSRIVLNEALGRLR 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 86 KSnlenSRRAEFDESVEAN-PALREDPVGKSVNENIDKDKV-AELLSLVN-------EEHRVVLVLREMQGLNYEEMSRV 156
Cdd:PRK11922 99 RR----RRLVNLAEMVMAStIAGGERTPLADPAEDPERAAArREIRALLEraidalpDAFRAVFVLRVVEELSVEETAQA 174
|
170
....*....|....*....
gi 1085001966 157 LGININTVRTRLKRAREIL 175
Cdd:PRK11922 175 LGLPEETVKTRLHRARRLL 193
|
|
| SigW_bacill |
TIGR02948 |
RNA polymerase sigma-W factor; This sigma factor is restricted to certain lineages of the ... |
1-181 |
1.62e-24 |
|
RNA polymerase sigma-W factor; This sigma factor is restricted to certain lineages of the order Bacillales.
Pssm-ID: 131993 [Multi-domain] Cd Length: 187 Bit Score: 94.19 E-value: 1.62e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 1 MD-ISKDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNE 79
Cdd:TIGR02948 1 MDsIIKKRIKEVRKGDENAFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQRKFSTWLYRIATNL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 80 ALNRRKKSN----LENSRRAEFDESVEANPALREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSR 155
Cdd:TIGR02948 81 TIDRLRKRKpdfyLDDEVQGTDGLTMESQLAADEAPPEDQVISLELRDTIQQEIQALPPKYRMVIVLKYMEDLSLKEISE 160
|
170 180
....*....|....*....|....*.
gi 1085001966 156 VLGININTVRTRLKRAREILIKKVKE 181
Cdd:TIGR02948 161 ILDLPVGTVKTRIHRGREALRKQLRH 186
|
|
| algU |
PRK11923 |
RNA polymerase sigma factor AlgU; Provisional |
7-180 |
2.44e-24 |
|
RNA polymerase sigma factor AlgU; Provisional
Pssm-ID: 171347 [Multi-domain] Cd Length: 193 Bit Score: 94.10 E-value: 2.44e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 7 IIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN---- 82
Cdd:PRK11923 10 LVERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDSAFYTWLYRIAINTAKNhlvs 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 83 --RRKKSNLENSRRAEFdesVEANPALR--EDPVGKSVNENIdKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLG 158
Cdd:PRK11923 90 rgRRPPDSDVSSEDAEF---YDGDHALKdiESPERALLRDEI-EGTVHRTIQQLPEDLRTALTLREFDGLSYEDIASVMQ 165
|
170 180
....*....|....*....|..
gi 1085001966 159 ININTVRTRLKRAREILIKKVK 180
Cdd:PRK11923 166 CPVGTVRSRIFRAREAIDKALQ 187
|
|
| PRK09641 |
PRK09641 |
RNA polymerase sigma factor SigW; Provisional |
1-178 |
2.31e-23 |
|
RNA polymerase sigma factor SigW; Provisional
Pssm-ID: 182012 [Multi-domain] Cd Length: 187 Bit Score: 91.30 E-value: 2.31e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 1 MD-ISKDIIERAARGEIPAFEEI---YKSSsgfVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVA 76
Cdd:PRK09641 1 MDlLIKRLIKQVKKGDQNAFAELvdlYKDK---IYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINRKFSTWLYRIA 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 77 VNEALNRRKKSNLENSRRAEFDES--------VEANPALREDPVGKSVNENIDKDKVAELlslvNEEHRVVLVLREMQGL 148
Cdd:PRK09641 78 TNLTIDRLRKRKPDYYLDAEVAGTegltmysqLAADDALPEEQVVSLELQETIQEAILQL----PEKYRTVIVLKYIEDL 153
|
170 180 190
....*....|....*....|....*....|
gi 1085001966 149 NYEEMSRVLGININTVRTRLKRAREILIKK 178
Cdd:PRK09641 154 SLKEISEILDLPVGTVKTRIHRGREALRKQ 183
|
|
| PRK11924 |
PRK11924 |
RNA polymerase sigma factor; Provisional |
18-175 |
1.25e-22 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183384 [Multi-domain] Cd Length: 179 Bit Score: 89.26 E-value: 1.25e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVN---EALNRRKKSNLENSRR 94
Cdd:PRK11924 14 AFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFNGKGSARTWLLTIARNvcyDLLRRRRREKAVLSDD 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 95 AEFDESVEANPALREDPVGKSVNENIDKdKVAELlslvNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREI 174
Cdd:PRK11924 94 ALEPEFAETAETPEAALLAKDDLARIDR-CLDAL----PVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRARQL 168
|
.
gi 1085001966 175 L 175
Cdd:PRK11924 169 L 169
|
|
| PRK09638 |
PRK09638 |
RNA polymerase sigma factor SigY; Reviewed |
5-181 |
4.00e-22 |
|
RNA polymerase sigma factor SigY; Reviewed
Pssm-ID: 182010 [Multi-domain] Cd Length: 176 Bit Score: 87.77 E-value: 4.00e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 5 KDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN-- 82
Cdd:PRK09638 6 KELIQKAKKGDDAALTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIENLSSFQGRSKFSTWLISIASRLYKDhl 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 83 RRKKsnleNSRRAEFDESVEANPALREDPVGKsvneNIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININ 162
Cdd:PRK09638 86 RKQK----REKLRLQRAKEETLRKEKWEAAIK----GAEWSEMLDALSKLDPEFRAPVILKHYYGYTYEEIAKMLNIPEG 157
|
170
....*....|....*....
gi 1085001966 163 TVRTRLKRAREILIKKVKE 181
Cdd:PRK09638 158 TVKSRVHHGIKQLRKEWGQ 176
|
|
| PRK12513 |
PRK12513 |
RNA polymerase sigma factor; Provisional |
10-175 |
5.25e-20 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183566 [Multi-domain] Cd Length: 194 Bit Score: 82.81 E-value: 5.25e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 10 RAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNL 89
Cdd:PRK12513 19 RYRAGDAAAFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPRARFRTWLYQIARNLLIDHWRRHGA 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 90 ENSRRAEFDESVEANPALREDPvGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLK 169
Cdd:PRK12513 99 RQAPSLDADEQLHALADDGAAP-EQQLSLFRDRRRLQAALETLPDEQREVFLLREHGDLELEEIAELTGVPEETVKSRLR 177
|
....*.
gi 1085001966 170 RAREIL 175
Cdd:PRK12513 178 YALQKL 183
|
|
| Sig70_bacteroi1 |
TIGR02985 |
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ... |
18-175 |
7.27e-20 |
|
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Pssm-ID: 274376 [Multi-domain] Cd Length: 161 Bit Score: 81.45 E-value: 7.27e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNLENSRRAEF 97
Cdd:TIGR02985 2 AFEQLYRRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWENRETLEISESIKAYLFTIVKNRCLNYLRHKQVEEKYQEEL 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 98 DESVEanpalREDPVGKSVNENIDKDKVAELLSLVN---EEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREI 174
Cdd:TIGR02985 82 AEIEE-----RELSEADPEEELEAKELEEIIEEAIEklpEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKF 156
|
.
gi 1085001966 175 L 175
Cdd:TIGR02985 157 L 157
|
|
| PRK09639 |
PRK09639 |
RNA polymerase sigma factor SigX; Provisional |
17-177 |
1.10e-19 |
|
RNA polymerase sigma factor SigX; Provisional
Pssm-ID: 236602 [Multi-domain] Cd Length: 166 Bit Score: 81.15 E-value: 1.10e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 17 PAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSglKSFNHKSSFNTWLYRVAVNEALNRRKKsnlENSRRAE 96
Cdd:PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYR--SDFKGIENEKGWLIKSARNVAYNYLRS---EKRRRAR 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 97 FDESVEANPALREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREmQGLNYEEMSRVLGININTVRTRLKRAREILI 176
Cdd:PRK09639 78 ILGEFQWQEVDNEPSPEEIWIRKEEITKVQEVLAKMTERDRTVLLLRF-SGYSYKEIAEALGIKESSVGTTLARAKKKFR 156
|
.
gi 1085001966 177 K 177
Cdd:PRK09639 157 K 157
|
|
| PRK09643 |
PRK09643 |
RNA polymerase sigma factor SigM; Reviewed |
5-172 |
1.73e-19 |
|
RNA polymerase sigma factor SigM; Reviewed
Pssm-ID: 236604 [Multi-domain] Cd Length: 192 Bit Score: 81.29 E-value: 1.73e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 5 KDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNR- 83
Cdd:PRK09643 15 AELLAAHVAGDRYAFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGDAAVSSWLHRIVVNACLDRl 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 84 RKKSnlenSRRAEFDESVEANPALREDPVGKsVNENIDkdkVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININT 163
Cdd:PRK09643 95 RRAK----ARPTVPLDDVYPVAQLERDPTAR-VETALA---VQRALMRLPVEQRAALVAVDMQGYSVADAARMLGVAEGT 166
|
....*....
gi 1085001966 164 VRTRLKRAR 172
Cdd:PRK09643 167 VKSRCARGR 175
|
|
| SigM_subfam |
TIGR02950 |
RNA polymerase sigma factor, SigM family; This family of RNA polymerase sigma factors is a ... |
30-181 |
7.50e-18 |
|
RNA polymerase sigma factor, SigM family; This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot:
Pssm-ID: 274361 [Multi-domain] Cd Length: 154 Bit Score: 75.95 E-value: 7.50e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 30 VYNVALRISASEHEASEITQDVFVKLFSGLKSFNHkSSFNTWLYRVAVNEALNR-RKKSNLENSrraefdeSVEANPALR 108
Cdd:TIGR02950 8 VFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD-SSIKPWLFRIARNAFIDWyRKDKKIQTI-------DDDAIGDLE 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1085001966 109 EDPVGKSVNENIDKDKVAELLSLVN---EEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILiKKVKE 181
Cdd:TIGR02950 80 QHPVESPEHHLLIKIEQEEITHHLSrlpENYRTVLILREFKEFSYKEIAELLNLSLAKVKSNLFRARKEL-KKLLE 154
|
|
| PRK09415 |
PRK09415 |
RNA polymerase factor sigma C; Reviewed |
40-183 |
8.00e-18 |
|
RNA polymerase factor sigma C; Reviewed
Pssm-ID: 181835 [Multi-domain] Cd Length: 179 Bit Score: 76.71 E-value: 8.00e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 40 SEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSnleNSRRAEFDESVEANPALREDPVGKSVnen 119
Cdd:PRK09415 39 NKEVAEDLTQEIFVKCYKSLHTYKGKSSLKTWLYRIAINHCKDYLKSW---HNKKVIVTEDIFTYMESQKESVEEEV--- 112
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1085001966 120 IDKDKVAELLSLVNE---EHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIKKVKENG 183
Cdd:PRK09415 113 IQNAEDERLASAVMSlpiKYREVIYLFYYEELSIKEIAEVTGVNENTVKTRLKKAKELLKKGLEEEV 179
|
|
| PRK09640 |
PRK09640 |
RNA polymerase sigma factor SigX; Reviewed |
18-182 |
4.21e-17 |
|
RNA polymerase sigma factor SigX; Reviewed
Pssm-ID: 236603 [Multi-domain] Cd Length: 188 Bit Score: 74.98 E-value: 4.21e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN----RRKKSNLENSR 93
Cdd:PRK09640 27 AYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGKSKFKTWLYSITYNECITqyrkERRKRRLMDAL 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 94 RAEFDESVEANPALREDpvgksvneniDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRARE 173
Cdd:PRK09640 107 SLDPLEEASEEKAPKPE----------ERGGLDRWLVHVNPIDREILVLRFVAELEFQEIADIMHMGLSATKMRYKRALD 176
|
....*....
gi 1085001966 174 ILIKKVKEN 182
Cdd:PRK09640 177 KLREKFAGL 185
|
|
| PRK12522 |
PRK12522 |
RNA polymerase sigma factor; Provisional |
21-180 |
3.48e-15 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183571 [Multi-domain] Cd Length: 173 Bit Score: 69.51 E-value: 3.48e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 21 EIYKSssgFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNR-RKKSNLENSRRAEFDE 99
Cdd:PRK12522 10 DIYKQ---QIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVENYKKWITTICVRTFYDFyRKKKRWKDRILDLFHK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 100 SVEANPALREDP-VGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIKK 178
Cdd:PRK12522 87 EDGGEIEFADDVnISEEFIQKVEAEMIREVIQLLNEKYKTVLVLYYYEQYSYKEMSEILNIPIGTVKYRLNYAKKQMREH 166
|
..
gi 1085001966 179 VK 180
Cdd:PRK12522 167 LE 168
|
|
| PRK05602 |
PRK05602 |
RNA polymerase sigma factor; Reviewed |
6-183 |
9.90e-15 |
|
RNA polymerase sigma factor; Reviewed
Pssm-ID: 235530 [Multi-domain] Cd Length: 186 Bit Score: 68.53 E-value: 9.90e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 6 DIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHK-SSFNTWLYRVAVNEALNRR 84
Cdd:PRK05602 9 ELLARVAAGDPAAFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRPGeARFDTWLHRVVLNLCYDRL 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 85 KKsnlensRRaefdESVEANPALREDPvGKSVNENI----DKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGIN 160
Cdd:PRK05602 89 RR------RR----EVPVEDAPDVPDP-APGPDAGLearqRARRVEQALAALPERQREAIVLQYYQGLSNIEAAAVMDIS 157
|
170 180
....*....|....*....|...
gi 1085001966 161 INTVRTRLKRAREILIKKVKENG 183
Cdd:PRK05602 158 VDALESLLARGRRALRAQLADLP 180
|
|
| PRK12519 |
PRK12519 |
RNA polymerase sigma factor; Provisional |
13-175 |
1.27e-14 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237125 [Multi-domain] Cd Length: 194 Bit Score: 68.55 E-value: 1.27e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 13 RGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGlKSFNHK-SSFNTWLYRVAVNEALN--RRKKSNL 89
Cdd:PRK12519 25 AGQSAALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRK-SSYDPKrGSLSSYLLTLTRSRAIDrlRSRRSRQ 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 90 ENSRRAEFDESVEAnpalREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLK 169
Cdd:PRK12519 104 RLLERWQQELLGEA----SEDTPLEQASLAERSQRVQTALAQLPESQRQVLELAYYEGLSQSEIAKRLGIPLGTVKARAR 179
|
170
....*....|
gi 1085001966 170 RA----REIL 175
Cdd:PRK12519 180 QGllklRELL 189
|
|
| PRK12515 |
PRK12515 |
RNA polymerase sigma factor; Provisional |
6-185 |
5.96e-14 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183567 [Multi-domain] Cd Length: 189 Bit Score: 66.68 E-value: 5.96e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 6 DIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN--- 82
Cdd:PRK12515 11 MLLARIAQGDRTAMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGRSQVSTWLLSIARFKALSalr 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 83 RRKKSNLEnsrraefDESVEANPALREDPvgksvNENIDKDKVAELL----SLVNEEHRVVLVLREMQGLNYEEMSRVLG 158
Cdd:PRK12515 91 RRKHEEID-------DEAAAAIEDGADTP-----EVALQKSDTSAALraclAKLSPAHREIIDLVYYHEKSVEEVGEIVG 158
|
170 180
....*....|....*....|....*..
gi 1085001966 159 ININTVRTRLKRAREILIKKVKENGMQ 185
Cdd:PRK12515 159 IPESTVKTRMFYARKKLAELLKAAGVE 185
|
|
| PRK09649 |
PRK09649 |
RNA polymerase sigma factor SigC; Reviewed |
11-184 |
8.44e-14 |
|
RNA polymerase sigma factor SigC; Reviewed
Pssm-ID: 137458 [Multi-domain] Cd Length: 185 Bit Score: 66.22 E-value: 8.44e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 11 AARGEIPAFEEIYKSSSGFVYNVALRISASEHeASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKsnLE 90
Cdd:PRK09649 18 AAKGNGRALEAFIKATQQDVWRFVAYLSDVGS-ADDLTQETFLRAIGAIPRFSARSSARTWLLAIARHVVADHIRH--VR 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 91 NSRRAEFDesveANPALREDpVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKR 170
Cdd:PRK09649 95 SRPRTTRG----ARPEHLID-GDRHARGFEDLVEVTTMIADLTTDQREALLLTQLLGLSYADAAAVCGCPVGTIRSRVAR 169
|
170
....*....|....
gi 1085001966 171 AREILIKKVKENGM 184
Cdd:PRK09649 170 ARDALLADAEPDDL 183
|
|
| PRK09646 |
PRK09646 |
ECF RNA polymerase sigma factor SigK; |
6-169 |
9.73e-14 |
|
ECF RNA polymerase sigma factor SigK;
Pssm-ID: 182015 [Multi-domain] Cd Length: 194 Bit Score: 66.23 E-value: 9.73e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 6 DIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEALNRR 84
Cdd:PRK09646 19 ALLRRVARGDQDAFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDpARGSALAWLLTLAHRRAVDRV 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 85 KKSNLENSRRAEFDESVEANPAlreDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTV 164
Cdd:PRK09646 99 RSEQAASQREVRYGARNVDPAF---DQVAEEVEARLERERVRDCLDALTDTQRESVTLAYYGGLTYREVAERLAVPLGTV 175
|
....*
gi 1085001966 165 RTRLK 169
Cdd:PRK09646 176 KTRMR 180
|
|
| SigE-fam_strep |
TIGR02983 |
RNA polymerase sigma-70 factor, sigma-E family; This group of similar sigma-70 factors ... |
18-172 |
1.48e-13 |
|
RNA polymerase sigma-70 factor, sigma-E family; This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Pssm-ID: 132028 [Multi-domain] Cd Length: 162 Bit Score: 65.10 E-value: 1.48e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNR-RKKSNLENSRRaE 96
Cdd:TIGR02983 7 EFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRDPDAPDAYVRRVLVNLARSRwRRRRLLELPTR-E 85
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1085001966 97 FDESVEANPALREDpvgksvneniDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAR 172
Cdd:TIGR02983 86 LPDAAAPDPAPDVA----------LRAALARALRRLPARQRAVVVLRYYEDLSEAQVAEALGISVGTVKSRLSRAL 151
|
|
| PRK12538 |
PRK12538 |
RNA polymerase sigma factor; Provisional |
2-175 |
3.95e-13 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 139048 [Multi-domain] Cd Length: 233 Bit Score: 65.26 E-value: 3.95e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 2 DISKDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNH-KSSFNTWLYRVAVNEA 80
Cdd:PRK12538 48 DEDEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHgRAKFSTWLYRVVSNRC 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 81 LNRRKKSNLENsrraefdesVEANPalrEDPVGK-SVNENIDKDKVAELLSL----VNEEHRVVLVLREMQGLNYEEMSR 155
Cdd:PRK12538 128 IDLRRKPRTEN---------VDAVP---EVADGKpDAVSVIERNELSDLLEAamqrLPEQQRIAVILSYHENMSNGEIAE 195
|
170 180
....*....|....*....|
gi 1085001966 156 VLGININTVRTRLKRAREIL 175
Cdd:PRK12538 196 VMDTTVAAVESLLKRGRQQL 215
|
|
| PRK12535 |
PRK12535 |
RNA polymerase sigma factor; Provisional |
10-176 |
1.31e-12 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237130 [Multi-domain] Cd Length: 196 Bit Score: 62.99 E-value: 1.31e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 10 RAARGEIPAFEEIYKSSSGFVYNVALRISASEhEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVA-------VNEALN 82
Cdd:PRK12535 18 AAGRGDRAALTEFIRETQDDVWRLLAHLGGHD-IADDLTQETYLRVMSALPRFAARSSARTWLLSLArrvwvdnIRHDMA 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 83 RRKKSNlensrrAEFDESVEANPAlreDPVGKSVNENIDkdkVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININ 162
Cdd:PRK12535 97 RPRKSA------TEYEDAAATTAS---NETTGSWSEWID---VRTLIDALPPERREALILTQVLGYTYEEAAKIADVRVG 164
|
170
....*....|....
gi 1085001966 163 TVRTRLKRAREILI 176
Cdd:PRK12535 165 TIRSRVARARADLI 178
|
|
| PRK12514 |
PRK12514 |
RNA polymerase sigma factor; Provisional |
2-171 |
1.49e-12 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 105710 [Multi-domain] Cd Length: 179 Bit Score: 62.53 E-value: 1.49e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 2 DISKdIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEA 80
Cdd:PRK12514 5 DIEK-LIVRVSLGDRDAFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAvSGLSPMTWLITIARNHA 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 81 LNR---RKKSNlensrrAEFDES---VEANPALREDPVGKSVNENIDkDKVAELlslvnEEHRVVLVLRE-MQGLNYEEM 153
Cdd:PRK12514 84 IDRlraRKAVA------VDIDEAhdlADPSPGPEAEVIAGDEGQRID-ACLEEL-----EKDRAAAVRRAyLEGLSYKEL 151
|
170
....*....|....*...
gi 1085001966 154 SRVLGININTVRTRLKRA 171
Cdd:PRK12514 152 AERHDVPLNTMRTWLRRS 169
|
|
| PRK12543 |
PRK12543 |
RNA polymerase sigma factor; Provisional |
14-182 |
1.69e-12 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183582 [Multi-domain] Cd Length: 179 Bit Score: 62.44 E-value: 1.69e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 14 GEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKS-----N 88
Cdd:PRK12543 4 GDQEAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNRPFRFWLIGLVIKQIHSWRRKRwrrfrI 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 89 LENSRRAEFDESVEANPALREDPVGKSVNENIDKdkvaellslVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRL 168
Cdd:PRK12543 84 FEKAEEQRKPVSIDFSEDVLSKESNQELIELIHK---------LPYKLRQVIILRYLHDYSQEEIAQLLQIPIGTVKSRI 154
|
170
....*....|....
gi 1085001966 169 KRAreilIKKVKEN 182
Cdd:PRK12543 155 HAA----LKKLRQK 164
|
|
| PRK09644 |
PRK09644 |
RNA polymerase sigma factor SigM; Provisional |
20-182 |
3.31e-12 |
|
RNA polymerase sigma factor SigM; Provisional
Pssm-ID: 170033 [Multi-domain] Cd Length: 165 Bit Score: 61.43 E-value: 3.31e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 20 EEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHkSSFNTWLYRVAVNEALNRRKKSNLENSRRAEFDE 99
Cdd:PRK09644 4 EEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDN-QKVKPWLFKVAYHTFIDFVRKEKKVSFVGTDEIE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 100 SVEANPAlrEDPVgksVNENIdKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIKKV 179
Cdd:PRK09644 83 AIQAEST--EEYV---VAKNS-YEKLIQIIHTLPVIEAQAILLCDVHELTYEEAASVLDLKLNTYKSHLFRGRKRLKALL 156
|
...
gi 1085001966 180 KEN 182
Cdd:PRK09644 157 KEE 159
|
|
| PRK12533 |
PRK12533 |
RNA polymerase sigma factor; Provisional |
31-175 |
4.26e-12 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237129 [Multi-domain] Cd Length: 216 Bit Score: 62.05 E-value: 4.26e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 31 YNVALRISASEHEASEITQDVFVKLFSGLKSFnHKSSFNTWLYRVAVN---EALNRRKKSNlensRRAEFDEsVEANPAL 107
Cdd:PRK12533 32 YNLARWLCGNASDADDVVQEACMRALRFFDSF-RGDNARPWLLAIVRHtwySEWRRRANAH----EVAAPDT-LDDADSL 105
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1085001966 108 R------EDPVGKSVNENiDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12533 106 DdwqpagEDPLALLLRAE-DVRLVNAALAKLPVEYREVLVLRELEDMSYREIAAIADVPVGTVMSRLARARRRL 178
|
|
| PRK13919 |
PRK13919 |
putative RNA polymerase sigma E protein; Provisional |
12-181 |
5.24e-12 |
|
putative RNA polymerase sigma E protein; Provisional
Pssm-ID: 184395 [Multi-domain] Cd Length: 186 Bit Score: 61.47 E-value: 5.24e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 12 ARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEALNRRKksnle 90
Cdd:PRK13919 18 ARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDpRRGSARAWLLALAHHAAVDHVR----- 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 91 nsRRAEFDESVEanPALRE----DPVGKSVNE--NIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTV 164
Cdd:PRK13919 93 --RRAARPQPLE--PDEREpeafDLPGPGLDEegHLDRTRLGRALKALSPEERRVIEVLYYQGYTHREAAQLLGLPLGTL 168
|
170
....*....|....*..
gi 1085001966 165 RTRLKRAREILIKKVKE 181
Cdd:PRK13919 169 KTRARRALSRLKEVLRE 185
|
|
| PRK12517 |
PRK12517 |
RNA polymerase sigma factor; Provisional |
3-177 |
1.42e-11 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183569 [Multi-domain] Cd Length: 188 Bit Score: 60.09 E-value: 1.42e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 3 ISKDIIERAARgeipaFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAvnealn 82
Cdd:PRK12517 14 VSSDMLSKQRR-----YEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDEKAAKAWLITIL------ 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 83 RRkksnlENSRRAE---FDeSVEANPALREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGI 159
Cdd:PRK12517 83 RR-----ENARRFErkqFD-LVDIEDDSIEDDASHSSEEEMEQEWLRRQIAKLDPEYREPLLLQVIGGFSGEEIAEILDL 156
|
170
....*....|....*...
gi 1085001966 160 NINTVRTRLKRAREILIK 177
Cdd:PRK12517 157 NKNTVMTRLFRARNQLKE 174
|
|
| PRK12534 |
PRK12534 |
RNA polymerase sigma factor; Provisional |
2-171 |
2.04e-11 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183576 [Multi-domain] Cd Length: 187 Bit Score: 59.68 E-value: 2.04e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 2 DISKDIIERAARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEA 80
Cdd:PRK12534 10 DETGRLLTATAGGDRHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDpSRARGLTWLAMIARNKA 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 81 LNRRkKSNLENSRRAEFDESVEAnPALREDPVGK----SVNENIDKdKVAELLSLVNEEHRVVLvlreMQGLNYEEMSRV 156
Cdd:PRK12534 90 IDHL-RANAPQRRNVALDDAGEL-RAADASPLERteraSTRRRIDH-CLAELEPPRSELIRTAF----FEGITYEELAAR 162
|
170
....*....|....*
gi 1085001966 157 LGININTVRTRLKRA 171
Cdd:PRK12534 163 TDTPIGTVKSWIRRG 177
|
|
| PRK09637 |
PRK09637 |
RNA polymerase sigma factor SigZ; Provisional |
36-175 |
3.58e-11 |
|
RNA polymerase sigma factor SigZ; Provisional
Pssm-ID: 236601 [Multi-domain] Cd Length: 181 Bit Score: 58.84 E-value: 3.58e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 36 RISASEhEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALN-RRKKSnlensrRAEFDESVEANPalredpvGK 114
Cdd:PRK09637 21 RVSNEA-DVDDLLQEVLIKTHSNLHSLKDGSSIKSWLYQIANNTIIDfYRKKN------RSEELPDDLLFE-------DE 86
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1085001966 115 SVNENIDKDKVAELLSLVN---EEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK09637 87 EREENAKKELAPCLRPFIDalpEKYAEALRLTELEGLSQKEIAEKLGLSLSGAKSRVQRGRVKL 150
|
|
| Sigma70_r4 |
cd06171 |
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ... |
122-175 |
2.83e-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: 2.83e-10
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 1085001966 122 KDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:cd06171 1 RERLEEALDKLPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
|
|
| PRK09645 |
PRK09645 |
ECF RNA polymerase sigma factor SigL; |
22-168 |
3.77e-10 |
|
ECF RNA polymerase sigma factor SigL;
Pssm-ID: 236605 [Multi-domain] Cd Length: 173 Bit Score: 56.24 E-value: 3.77e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 22 IYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHK-SSFNTWLYRVAVNEALNRRKksnlenSRRAEFDES 100
Cdd:PRK09645 14 LYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTgRSARAWLFTVARNLVIDERR------SARARPVEG 87
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1085001966 101 VEANPALREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRL 168
Cdd:PRK09645 88 GDDVLGVPEQSAPDEVDRALDRLLVADALAQLSPEHRAVLVRSYYRGWSTAQIAADLGIPEGTVKSRL 155
|
|
| PRK12524 |
PRK12524 |
RNA polymerase sigma factor; Provisional |
30-171 |
5.15e-10 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183573 [Multi-domain] Cd Length: 196 Bit Score: 56.05 E-value: 5.15e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 30 VYNVALRISASEHEASEITQDVFVKLFSGLKSF-NHKSSFNTWLYRVAVNEALNRrkksnLENSRRAEFDESVEANPAlr 108
Cdd:PRK12524 39 ALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWrQGEARVSTWLYRVVCNLCTDR-----LRRRRRASVDLDDAPEPA-- 111
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1085001966 109 eDPVGKSVNENIDKDKVAEL---LSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRT---RLKRA 171
Cdd:PRK12524 112 -DAAPGAEEALIEGDRMRALdaaLAALPERQRQAVVLRHIEGLSNPEIAEVMEIGVEAVESltaRGKRA 179
|
|
| PRK12537 |
PRK12537 |
RNA polymerase sigma factor; Provisional |
12-171 |
7.05e-10 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 171568 [Multi-domain] Cd Length: 182 Bit Score: 55.55 E-value: 7.05e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 12 ARGEIPAFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEALNrrkksNLE 90
Cdd:PRK12537 18 ARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDpARGSARGWIYSVTRHLALN-----VLR 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 91 NSRRA----EFDESVEANPALREDPVGKSVNENidkdKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRT 166
Cdd:PRK12537 93 DTRREvvldDDAEETAQTLHEIIDDFDLWANSG----KIHRCLEQLEPARRNCILHAYVDGCSHAEIAQRLGAPLGTVKA 168
|
....*
gi 1085001966 167 RLKRA 171
Cdd:PRK12537 169 WIKRS 173
|
|
| PRK06811 |
PRK06811 |
RNA polymerase factor sigma-70; Validated |
1-184 |
3.76e-09 |
|
RNA polymerase factor sigma-70; Validated
Pssm-ID: 180707 [Multi-domain] Cd Length: 189 Bit Score: 53.40 E-value: 3.76e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 1 MDIS-KDIIERAARGEIPAFEEIYKSSSGFVYNVALRI---SASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRV 75
Cdd:PRK06811 1 MKINeDNFIKELKKKNEKALEFIVDTYGNLVKKIVHKVlgtVNYSQLIEECVNDIFLSIWNNIDKFDeEKGSFKKWIAAI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 76 AVNEALNRRKKSNlENSRRAEFDESVEanpaLREDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSR 155
Cdd:PRK06811 81 SKYKAIDYKRKLT-KNNEIDSIDEFIL----ISEESIENEIILKENKEEILKLINDLEKLDREIFIRRYLLGEKIEEIAK 155
|
170 180
....*....|....*....|....*....
gi 1085001966 156 VLGININTVRTRLKRAREILIKKVKENGM 184
Cdd:PRK06811 156 KLGLTRSAIDNRLSRGRKKLQKNKLNISL 184
|
|
| PRK12542 |
PRK12542 |
RNA polymerase sigma factor; Provisional |
20-173 |
6.00e-09 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183581 [Multi-domain] Cd Length: 185 Bit Score: 53.13 E-value: 6.00e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 20 EEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSS--FNTWLYRVAVNEALNRRKKSNLENSRRAEF 97
Cdd:PRK12542 12 EELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTqeLKRYILRVAKNKAIDSYRKNKRHETFLEEY 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 98 D-ESVEAnpalredpvgksVNENID---KDKVAE-----LLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRL 168
Cdd:PRK12542 92 ErESIEA------------VDENIEeweKRKMSEvqidtLLKELNESNRQVFKYKVFYNLTYQEISSVMGITEANVRKQF 159
|
....*
gi 1085001966 169 KRARE 173
Cdd:PRK12542 160 ERARK 164
|
|
| Sigma70_r4_2 |
pfam08281 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
122-175 |
1.16e-08 |
|
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: 48.99 E-value: 1.16e-08
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 1085001966 122 KDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:pfam08281 1 LEALLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
|
|
| PRK09642 |
PRK09642 |
RNA polymerase sigma factor; |
29-181 |
2.02e-08 |
|
RNA polymerase sigma factor;
Pssm-ID: 170031 [Multi-domain] Cd Length: 160 Bit Score: 51.25 E-value: 2.02e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 29 FVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKsSFNTWLYRVAVNEALNRRKKSNLENSRRA---EFDESVEANP 105
Cdd:PRK09642 7 YIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR-GLKTWMARIATNHAIDYKRKKARENEELSlckETEENIKSSH 85
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1085001966 106 ALREDPVGKSvneniDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIKKVKE 181
Cdd:PRK09642 86 NIEDLLLTKE-----QKLLIAQKLRELPENYRDVVLAHYLEEKSYQEIALQEKIEVKTVEMKLYRARKWIKKHWKE 156
|
|
| PRK12511 |
PRK12511 |
RNA polymerase sigma factor; Provisional |
41-175 |
2.12e-08 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 237123 [Multi-domain] Cd Length: 182 Bit Score: 51.32 E-value: 2.12e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 41 EHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNLENSRRAEF-DESVEANPALREDPVGKSvnen 119
Cdd:PRK12511 28 SAEAEDLVHDALVRALERRASFRSGGNLRTWLMSILHNAFIDELRRRRVEARRADELaVLADASLPAAQEHAVRLA---- 103
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 1085001966 120 idkdKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12511 104 ----QIRDAFFDLPEEQRAALHLVAIEGLSYQEAAAVLGIPIGTLMSRIGRARAAL 155
|
|
| PRK08241 |
PRK08241 |
RNA polymerase subunit sigma-70; |
36-175 |
5.02e-08 |
|
RNA polymerase subunit sigma-70;
Pssm-ID: 236196 [Multi-domain] Cd Length: 339 Bit Score: 51.48 E-value: 5.02e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 36 RISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVN---EALNRRkksnlenSRRA----EFDESVEANPALR 108
Cdd:PRK08241 38 RMLGSVHDAEDAVQETLLRAWRGYDRFEGRSSLRTWLYRIATNvclDALEGR-------ARRPlptdLGAPAADPVDELV 110
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 109 ED---------PVGKSVNENIDKDKVAEL-----LSLVNE-EH-----RVVLVLREMQGLNYEEMSRVLGININTVRTRL 168
Cdd:PRK08241 111 ERpevpwlepyPDALLDPAAADPAARVVAresvrLAFVAAlQHlpprqRAVLILRDVLGWSAAEVAELLDTSVAAVNSAL 190
|
....*..
gi 1085001966 169 KRAREIL 175
Cdd:PRK08241 191 QRARATL 197
|
|
| PRK12541 |
PRK12541 |
RNA polymerase sigma factor; Provisional |
18-181 |
5.41e-08 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183580 [Multi-domain] Cd Length: 161 Bit Score: 49.93 E-value: 5.41e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFNHKSsFNTWLYRVAVNEALN-RRKKSNLENSRRAE 96
Cdd:PRK12541 6 SLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGEE-IRPWLFTIAYNAFIDwYRKEKKYKTTTIEE 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 97 FDESveanpalredPVGKSVNENIDKDKVAELLSLVNE---EHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRARE 173
Cdd:PRK12541 85 FHLP----------NVPSTEHEYFIKHEIASWLDSLSSlplERRNVLLLRDYYGFSYKEIAEMTGLSLAKVKIELHRGRK 154
|
....*...
gi 1085001966 174 ILiKKVKE 181
Cdd:PRK12541 155 ET-KSIKE 161
|
|
| PRK12516 |
PRK12516 |
RNA polymerase sigma factor; Provisional |
34-175 |
1.02e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183568 [Multi-domain] Cd Length: 187 Bit Score: 49.58 E-value: 1.02e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 34 ALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNLE-NSRRAEFDESVEANPalredpv 112
Cdd:PRK12516 27 AVSLIGRHDRADDLVQDTIMKAWAKQDHFEVGTNMKAWLFTILRNEFYSQMRKRGREvQDTDGMFTEQLAVHP------- 99
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1085001966 113 gkSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12516 100 --SQYGTLDLQDFRAALDQLPDDQREAIILVGASGFAYEEAAEICGCAVGTIKSRVNRARQRL 160
|
|
| PRK12547 |
PRK12547 |
RNA polymerase sigma factor; Provisional |
34-172 |
1.34e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 139056 [Multi-domain] Cd Length: 164 Bit Score: 49.10 E-value: 1.34e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 34 ALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNLE-NSRRAEFDESVEANPALredpv 112
Cdd:PRK12547 23 AVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMGTNLKAWLFTILRNEFYSQMRKRGREvQDSDGVFTARVAVHPAQ----- 97
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 113 gksvNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAR 172
Cdd:PRK12547 98 ----YGSLDLQDFKKALNLLSADQREAIILIGASGFSYEDAAAICGCAVGTIKSRVSRAR 153
|
|
| PRK12546 |
PRK12546 |
RNA polymerase sigma factor; Provisional |
44-175 |
2.92e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 139055 [Multi-domain] Cd Length: 188 Bit Score: 48.30 E-value: 2.92e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 44 ASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVNEALNRRKKSNLEnsrRAEFDESVEANPALREDPVGKsvnenIDKD 123
Cdd:PRK12546 34 ADDLVQDTIVKAWTNFDKFQEGTNLRAWLFTILRNTFYSDRRKHKRE---VPDPEGVHAASLAVKPAHDGR-----LAMS 105
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|..
gi 1085001966 124 KVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12546 106 DFRAAFAQLPDEQREALILVGASGFSYEEAAEMCGVAVGTVKSRANRARARL 157
|
|
| PRK12532 |
PRK12532 |
RNA polymerase sigma factor; Provisional |
35-175 |
3.31e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 171564 [Multi-domain] Cd Length: 195 Bit Score: 48.39 E-value: 3.31e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 35 LRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRV-------AVNEALNRRKKSNLENSR--RAEFDESVEAN- 104
Cdd:PRK12532 24 LQLPDHPDLAEDLVQETLLSAYSAGDSFQGRALVNSWLFAIlknkiidALRQIGRQRKVFTLLDDEllDEAFESHFSQNg 103
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1085001966 105 -------PALREDPvGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12532 104 hwtpegqPQHWNTP-EKSLNNNEFQKILQSCLYNLPENTARVFTLKEILGFSSDEIQQMCGISTSNYHTIMHRARESL 180
|
|
| PRK12540 |
PRK12540 |
RNA polymerase sigma factor; Provisional |
34-175 |
6.17e-07 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 183579 [Multi-domain] Cd Length: 182 Bit Score: 47.27 E-value: 6.17e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 34 ALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNTWLYRVAVN--EALNRRKKSNLENSRrAEFDESVEANPalredp 111
Cdd:PRK12540 22 AISLSGNGDRADDLVQETLLRALANIDSFQPGSNLPAWLFTILRNlfRSDYRKRRREVEDAD-GSYAKTLKSQP------ 94
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1085001966 112 vgkSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:PRK12540 95 ---GQNAHLEFEEFRAALDKLPQDQREALILVGASGFSYEDAAAICGCAVGTIKSRVNRARSKL 155
|
|
| PRK06930 |
PRK06930 |
positive control sigma-like factor; Validated |
121-181 |
9.32e-07 |
|
positive control sigma-like factor; Validated
Pssm-ID: 180757 [Multi-domain] Cd Length: 170 Bit Score: 46.65 E-value: 9.32e-07
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1085001966 121 DKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREILIKKVKE 181
Cdd:PRK06930 104 DKIRIEDALSVLTEREKEVYLMHRGYGLSYSEIADYLNIKKSTVQSMIERAEKKIARQINE 164
|
|
| sigI |
PRK09635 |
RNA polymerase sigma factor SigI; Provisional |
21-172 |
8.22e-05 |
|
RNA polymerase sigma factor SigI; Provisional
Pssm-ID: 182008 [Multi-domain] Cd Length: 290 Bit Score: 41.88 E-value: 8.22e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 21 EIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGlkSFNHKSSFNTWLYRVAVNEALNRRKKSNLENSRRAEFDES 100
Cdd:PRK09635 9 AAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRA--PVGDIDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAW 86
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1085001966 101 VEANPAL-REDPVGKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAR 172
Cdd:PRK09635 87 HDGDASVsSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRAR 159
|
|
| Sigma70_r4 |
pfam04545 |
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
128-173 |
1.66e-04 |
|
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: 37.79 E-value: 1.66e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 1085001966 128 LLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRARE 173
Cdd:pfam04545 1 ALASLPPRERQVLVLRYGEGLTLEEIGERLGISRERVRQIEKRALR 46
|
|
| HTH_30 |
pfam13556 |
PucR C-terminal helix-turn-helix domain; This helix-turn-helix domain is often found at the ... |
147-175 |
6.46e-04 |
|
PucR C-terminal helix-turn-helix domain; This helix-turn-helix domain is often found at the C-terminus of PucR-like transcriptional regulators such as Swiss:O32138 and is likely to be DNA-binding.
Pssm-ID: 433305 [Multi-domain] Cd Length: 56 Bit Score: 36.28 E-value: 6.46e-04
10 20
....*....|....*....|....*....
gi 1085001966 147 GLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:pfam13556 9 GGNISATARALHVHRNTLRYRLRRIEELL 37
|
|
| CsgD |
COG2771 |
DNA-binding transcriptional regulator, CsgD family [Transcription]; |
116-175 |
2.13e-03 |
|
DNA-binding transcriptional regulator, CsgD family [Transcription];
Pssm-ID: 442052 [Multi-domain] Cd Length: 188 Bit Score: 37.43 E-value: 2.13e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 116 VNENIDKDKVAELLSLVNEEHRVVLVLreMQGLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:COG2771 113 LLLAALARLLARAPGLTPREREVLRLL--AEGLTLKEIARILGISERTVRTHLKRIYRKL 170
|
|
| PRK12531 |
PRK12531 |
RNA polymerase sigma factor; Provisional |
18-175 |
2.21e-03 |
|
RNA polymerase sigma factor; Provisional
Pssm-ID: 105726 [Multi-domain] Cd Length: 194 Bit Score: 37.22 E-value: 2.21e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 18 AFEEIYKSSSGFVYNVALRISASEHEASEITQDVFVKLFSGLKSFN-HKSSFNTWLYRVAVNEALN--RRKKSNLENSRR 94
Cdd:PRK12531 28 AFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDgQKSALSTWIYTIIRNLCFDllRKQKGKDLHIHA 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 95 AEFDESVEANPALREDpvgKSVNENIDKDKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGININTVRTRLKRAREI 174
Cdd:PRK12531 108 DDIWPSDYYPPDLVDH---YSPEQDMLKEQVMKFLDRLPKAQRDVLQAVYLEELPHQQVAEMFDIPLGTVKSRLRLAVEK 184
|
.
gi 1085001966 175 L 175
Cdd:PRK12531 185 L 185
|
|
| PRK07037 |
PRK07037 |
extracytoplasmic-function sigma-70 factor; Validated |
32-159 |
2.66e-03 |
|
extracytoplasmic-function sigma-70 factor; Validated
Pssm-ID: 180803 [Multi-domain] Cd Length: 163 Bit Score: 36.97 E-value: 2.66e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 32 NVALRISASEHEASEITQDVFVKLFSGLKSFNHKSSFNtWLYRVAVNEALNRRKKSNLENSRRAEFDESVEanpALREDP 111
Cdd:PRK07037 13 KIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVKQPVA-YLFRIVRNLAIDHYRRQALENKYHGDEEDGLD---VPSPEA 88
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 1085001966 112 VGKSVNENIDK-DKVAELLSLVNEEHRVVLVLREMQGLNYEEMSRVLGI 159
Cdd:PRK07037 89 SPEAALINRDTlRHVADALSELPARTRYAFEMYRLHGETQKDIARELGV 137
|
|
| PRK09648 |
PRK09648 |
RNA polymerase sigma factor ShbA; |
6-171 |
4.87e-03 |
|
RNA polymerase sigma factor ShbA;
Pssm-ID: 236607 [Multi-domain] Cd Length: 189 Bit Score: 36.10 E-value: 4.87e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 6 DIIERAARGEIPAFEEIYKSssgfVYNVAL-----RISASEH---EASEITQDVFVKLFSGLKSF-NHKSSFNTWLYRVA 76
Cdd:PRK09648 13 ALVAEAVAGDRRALREVLEI----IRPLVVrycraRLGGVERpglSADDVAQEVCLAVITALPRYrDQGRPFLAFVYGIA 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085001966 77 ---VNEALNRRKKSNLENSRRAEFDESVEANP---ALREDpvgksvneniDKDKVAELLSLVNEEHRVVLVLREMQGLNY 150
Cdd:PRK09648 89 ahkVADAHRAAGRDKAVPTEEVPERPSDDAGPeerALRSE----------SSNRMRELLDTLPEKQREILILRVVVGLSA 158
|
170 180
....*....|....*....|.
gi 1085001966 151 EEMSRVLGININTVRTRLKRA 171
Cdd:PRK09648 159 EETAEAVGSTPGAVRVAQHRA 179
|
|
| PucR |
COG2508 |
DNA-binding transcriptional regulator, PucR/PutR family [Transcription]; |
147-175 |
6.07e-03 |
|
DNA-binding transcriptional regulator, PucR/PutR family [Transcription];
Pssm-ID: 441998 [Multi-domain] Cd Length: 257 Bit Score: 36.13 E-value: 6.07e-03
10 20
....*....|....*....|....*....
gi 1085001966 147 GLNYEEMSRVLGININTVRTRLKRAREIL 175
Cdd:COG2508 202 GGNVSATARALHVHRNTVRYRLRRIEELL 230
|
|
| InsA |
COG3677 |
Transposase InsA [Mobilome: prophages, transposons]; |
145-181 |
6.29e-03 |
|
Transposase InsA [Mobilome: prophages, transposons];
Pssm-ID: 442893 [Multi-domain] Cd Length: 241 Bit Score: 36.38 E-value: 6.29e-03
10 20 30
....*....|....*....|....*....|....*..
gi 1085001966 145 MQGLNYEEMSRVLGININTVRTRLKRAREILIKKVKE 181
Cdd:COG3677 73 LNGISLRQIARVLGVSYKTVWRWLHRIREALDELVDE 109
|
|
|