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Conserved domains on  [gi|495706834|ref|WP_008431413|]
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MULTISPECIES: RNA polymerase sigma factor [unclassified Pseudomonas]

Protein Classification

RNA polymerase sigma factor( domain architecture ID 11446377)

RNA polymerase sigma factor plays a role in bacterial signal transduction and is regulated by anti-sigma factors. May belong to the ECF-type subfamily. Generally, sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.

CATH:  1.10.1740.10
Gene Ontology:  GO:0016987|GO:0006352|GO:0003677
PubMed:  28575802
SCOP:  4003741

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 24-167 5.05e-20

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: 82.35  E-value: 5.05e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAADRRQADARLLTGSEvEELLQTVDEAQDPSRVV 102
Cdd:COG1595   34 ARRLLGDRADAEDLVQETFLRLwRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLD-ELAEELPDEAADPEEAL 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 495706834 103 GGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLER 167
Cdd:COG1595  113 EAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEE 177
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 24-167 5.05e-20

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: 82.35  E-value: 5.05e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAADRRQADARLLTGSEvEELLQTVDEAQDPSRVV 102
Cdd:COG1595   34 ARRLLGDRADAEDLVQETFLRLwRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLD-ELAEELPDEAADPEEAL 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 495706834 103 GGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLER 167
Cdd:COG1595  113 EAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEE 177
PRK12527 PRK12527
RNA polymerase sigma factor; Reviewed
 24-165 1.32e-17

RNA polymerase sigma factor; Reviewed


Pssm-ID: 171560 [Multi-domain]  Cd Length: 159  Bit Score: 75.58  E-value: 1.32e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPnLAQPNAYLYRMALNIAADRRQAdaRLLTGSEVEELLQTVDEAQDPS--- 99
Cdd:PRK12527  12 LSARLGNRQAAEDVAHDAYLRVlERSSSAQ-IEHPRAFLYRTALNLVVDRHRR--HRVRQAEPLEVLDEEERLHSPSpqt 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 495706834 100 RVVGGQReIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRL 165
Cdd:PRK12527  89 RLDLGQR-LALLQRALAELPPACRDSFLLRKLEGLSHQQIAEHLGISRSLVEKHIVNAMKHCRVRM 153
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 24-165 1.36e-14

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 67.37  E-value: 1.36e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAADR-RQADARLLTGSEVEELLqtvDEAQDPSRV 101
Cdd:TIGR02937  18 ARRYLGDDADAEDLVQEAFLKLlEALDRFDPEGSFKAWLFRIARNLILDYlRRKRRLRRELDLLEELL---DSDPSPEEE 94

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495706834  102 VGGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRL 165
Cdd:TIGR02937  95 LEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRELL 158
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 108-161 2.35e-06

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: 42.83  E-value: 2.35e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 495706834  108 IQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHC 161
Cdd:pfam08281   1 LEALLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 24-167 5.05e-20

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: 82.35  E-value: 5.05e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAADRRQADARLLTGSEvEELLQTVDEAQDPSRVV 102
Cdd:COG1595   34 ARRLLGDRADAEDLVQETFLRLwRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLD-ELAEELPDEAADPEEAL 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 495706834 103 GGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLER 167
Cdd:COG1595  113 EAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEE 177
PRK12527 PRK12527
RNA polymerase sigma factor; Reviewed
 24-165 1.32e-17

RNA polymerase sigma factor; Reviewed


Pssm-ID: 171560 [Multi-domain]  Cd Length: 159  Bit Score: 75.58  E-value: 1.32e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPnLAQPNAYLYRMALNIAADRRQAdaRLLTGSEVEELLQTVDEAQDPS--- 99
Cdd:PRK12527  12 LSARLGNRQAAEDVAHDAYLRVlERSSSAQ-IEHPRAFLYRTALNLVVDRHRR--HRVRQAEPLEVLDEEERLHSPSpqt 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 495706834 100 RVVGGQReIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRL 165
Cdd:PRK12527  89 RLDLGQR-LALLQRALAELPPACRDSFLLRKLEGLSHQQIAEHLGISRSLVEKHIVNAMKHCRVRM 153
PRK07037 PRK07037
extracytoplasmic-function sigma-70 factor; Validated
 25-166 4.95e-15

extracytoplasmic-function sigma-70 factor; Validated


Pssm-ID: 180803 [Multi-domain]  Cd Length: 163  Bit Score: 68.94  E-value: 4.95e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  25 RKRLGSEDLANDVLHETYLRVdrMDMPPNLA--QPNAYLYRMALNIAAD--RRQADARLLTGSEvEELLQTVDEAQDPSR 100
Cdd:PRK07037  16 ARIVGCRSRAEDVVQDAFVKL--VEAPNQDAvkQPVAYLFRIVRNLAIDhyRRQALENKYHGDE-EDGLDVPSPEASPEA 92

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 495706834 101 VVGGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLE 166
Cdd:PRK07037  93 ALINRDTLRHVADALSELPARTRYAFEMYRLHGETQKDIARELGVSPTLVNFMIRDALVHCRKCLD 158
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 24-165 1.36e-14

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 67.37  E-value: 1.36e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   24 LRKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAADR-RQADARLLTGSEVEELLqtvDEAQDPSRV 101
Cdd:TIGR02937  18 ARRYLGDDADAEDLVQEAFLKLlEALDRFDPEGSFKAWLFRIARNLILDYlRRKRRLRRELDLLEELL---DSDPSPEEE 94

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495706834  102 VGGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRL 165
Cdd:TIGR02937  95 LEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRELL 158
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 13-158 1.11e-11

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: 59.88  E-value: 1.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   13 FLASYEDFKVRL----RKRLGSEDLANDVLHETYLRV-DRMDMPPNLAQPNAYLYRMALNIAAD--RRQADARLLTGSEV 85
Cdd:TIGR02985   3 FEQLYRRYYPKLcafaRRYVKDEEDAEDIVQDVFLKLwENRETLEISESIKAYLFTIVKNRCLNylRHKQVEEKYQEELA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495706834   86 EELLQTVDEAQDPSRVVggQREIQSLL-KALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGL 158
Cdd:TIGR02985  83 EIEERELSEADPEEELE--AKELEEIIeEAIEKLPEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKAL 154
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 12-168 1.31e-10

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 57.29  E-value: 1.31e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  12 LFLASYEDFKVRLRKRLGSEDLANDVLHETYLRVDRM-DMPPNLAQPNAYLYRMALNIAAD--RRQADARLLTGSEVEEL 88
Cdd:PRK11924  18 LFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKaDLFNGKGSARTWLLTIARNVCYDllRRRRREKAVLSDDALEP 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  89 LQTVDEAQDPSRVVGgQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLERK 168
Cdd:PRK11924  98 EFAETAETPEAALLA-KDDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRARQLLRECLEAQ 176
PRK12525 PRK12525
RNA polymerase sigma factor; Provisional
 1-166 1.54e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 139037 [Multi-domain]  Cd Length: 168  Bit Score: 48.79  E-value: 1.54e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   1 MKDTGHSMMVSLFLASYEDFKVRLRKRLGSEDLANDVLHETYLRVDRMDMPPNLAQPNAYLYRMALNIAAD--RRQADAR 78
Cdd:PRK12525   3 QGSIKNTLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASIREPRALLTTIARRLMYEgwRRQDLER 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  79 lltgseveELLQTVDEAQDPSRVVGGQRE--IQSLL---KALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKE 153
Cdd:PRK12525  83 --------AYLQSLAEAPEAVQPSPEEQWmvIETLLaidRLLDGLSGKARAAFLMSQLEGLTYVEIGERLGVSLSRIHQY 154

                        170
                 ....*....|...
gi 495706834 154 IKAGLGHCAQRLE 166
Cdd:PRK12525 155 MVEAFKCCYQGFQ 167
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 108-161 2.35e-06

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: 42.83  E-value: 2.35e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 495706834  108 IQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHC 161
Cdd:pfam08281   1 LEALLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
PRK12528 PRK12528
RNA polymerase sigma factor; Provisional
 24-161 8.86e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 171561 [Multi-domain]  Cd Length: 161  Bit Score: 43.68  E-value: 8.86e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRVDRMDMPPNLAQPNAYLYRMALNIAAD--RRQadarlltgsEVEE-LLQTVdeAQDPSR 100
Cdd:PRK12528  21 LRRRLGCPQSAADLAQDTFVKVLVARETAQIIEPRAFLTTIAKRVLCNhyRRQ---------DLERaYLEAL--AQLPER 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 495706834 101 VVGGQREIQSLLKALYEL--------PARRRQILIaARLEEAPHLEISRRFGISTRMVEKEIKAGLGHC 161
Cdd:PRK12528  90 VAPSEEERAIILETLVELdqlldglpPLVKRAFLL-AQVDGLGYGEIATELGISLATVKRYLNKAAMRC 157
PRK12523 PRK12523
RNA polymerase sigma factor; Reviewed
 24-161 2.37e-05

RNA polymerase sigma factor; Reviewed


Pssm-ID: 183572 [Multi-domain]  Cd Length: 172  Bit Score: 42.53  E-value: 2.37e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  24 LRKRLGSEDLANDVLHETYLRVDRMDMPPNLAQPNAYLYRMALNIAAD--RRQAdarlLTGSEVEELLQtVDEAQDPSrv 101
Cdd:PRK12523  27 LRRNVACRQRAEDLSQDTFVRLLGRPELPTPREPRAFLAAVAKGLMFDhfRRAA----LEQAYLAELAL-VPEAEQPS-- 99

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495706834 102 VGGQREIQSLLKA----LYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHC 161
Cdd:PRK12523 100 PEEQHLILEDLKAidrlLGKLSSKARAAFLYNRLDGMGHAEIAERLGVSVSRVRQYLAQGLRQC 163
PRK12524 PRK12524
RNA polymerase sigma factor; Provisional
 28-151 3.74e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 183573 [Multi-domain]  Cd Length: 196  Bit Score: 42.57  E-value: 3.74e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  28 LGSEDLANDVLHETYLRVDRM--DMPPNLAQPNAYLYRMALNIAADR----RQADARLLTGSEVEELLQTVDEA-QDPSR 100
Cdd:PRK12524  47 LGDRAEAEDVTQEAMLRLWRIapDWRQGEARVSTWLYRVVCNLCTDRlrrrRRASVDLDDAPEPADAAPGAEEAlIEGDR 126

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 495706834 101 VvggqreiQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVE 151
Cdd:PRK12524 127 M-------RALDAALAALPERQRQAVVLRHIEGLSNPEIAEVMEIGVEAVE 170
PRK12529 PRK12529
RNA polymerase sigma factor; Provisional
 4-161 8.30e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 183574 [Multi-domain]  Cd Length: 178  Bit Score: 41.07  E-value: 8.30e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   4 TGHSMMVSLFLASYEDFKVRLRKRLGS--EDLANDVLHETYLRV---DRMDMPPNLAQPNAYLYRMA--LNIAADRRQAD 76
Cdd:PRK12529  10 ADRDKVATLYRENHAWLRNWLAYRLRSwgRGVADDLAHDIFLRIlasRDGGQREAIRQPRAYLARIAncVLVSWRRRQSL 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  77 ARLLTgseveELLQTVDEAQDPSrvvggqREIQSL-LKALYELPA-------RRRQILIAARLEEAPHLEISRRFGISTR 148
Cdd:PRK12529  90 ELAWL-----EALATLPEPLHPS------PEQQSViLETLHEIDAlldtlrpRVKQAFLMATLDGMKQKDIAQALDIALP 158

                        170
                 ....*....|...
gi 495706834 149 MVEKEIKAGLGHC 161
Cdd:PRK12529 159 TVKKYIHQAYVTC 171
PRK09651 PRK09651
RNA polymerase sigma factor FecI; Provisional
 11-161 1.28e-04

RNA polymerase sigma factor FecI; Provisional


Pssm-ID: 182018 [Multi-domain]  Cd Length: 172  Bit Score: 40.56  E-value: 1.28e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  11 SLFLASYEDFKVRLRKRLGSEDLANDVLHETYLRVDRMDMPPNLAQPNAYLYRMALNIAAD--RRQA--DARLltgseve 86
Cdd:PRK09651  14 SLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDlfRRNAleKAYL------- 86

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 495706834  87 ELLQTVDEAQDPS-RVVGGQRE-IQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHC 161
Cdd:PRK09651  87 EMLALMPEGGAPSpEERESQLEtLQLLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSVSSVKKYVAKATEHC 163
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 23-146 2.51e-04

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 39.79  E-value: 2.51e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  23 RLRKRLGS-EDLANDVLHETYLRV----DRMDMPPNLAqpnAYLYRMALNIAAD------RRQADARLLTGS-EVEELLQ 90
Cdd:PRK09652  25 RLLSRLTRdPADAEDLVQETFIKAyralHSFRGGAAFY---TWLYRIARNTAINylrkqgRRPPASDVDAEEaEDFDLAD 101

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 495706834  91 TVDEAQDPSRVVGGQREIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGIS 146
Cdd:PRK09652 102 ALRDISTPENELLSAELEQRVRAAIESLPEELRTAITLREIEGLSYEEIAEIMGCP 157
SigE-fam_strep TIGR02983
RNA polymerase sigma-70 factor, sigma-E family; This group of similar sigma-70 factors ...
 31-166 3.60e-04

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: 39.30  E-value: 3.60e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834   31 EDLANDVLHETYLRVDRMDMPpnlAQPNAYLYRMALNIAADRRQADARLLTGSEveELLQTVDEAQDPsrvvgGQREIQS 110
Cdd:TIGR02983  34 EDLVQEALVRTYVRWDRIRDP---DAPDAYVRRVLVNLARSRWRRRRLLELPTR--ELPDAAAPDPAP-----DVALRAA 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 495706834  111 LLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVEKEIKAGLGHCAQRLE 166
Cdd:TIGR02983 104 LARALRRLPARQRAVVVLRYYEDLSEAQVAEALGISVGTVKSRLSRALARLRELLE 159
PRK05602 PRK05602
RNA polymerase sigma factor; Reviewed
 28-151 1.23e-03

RNA polymerase sigma factor; Reviewed


Pssm-ID: 235530 [Multi-domain]  Cd Length: 186  Bit Score: 38.09  E-value: 1.23e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  28 LGSEDLANDVLHETYLRV--DRMDMPPNLAQPNAYLYRMALNIAADRrqadARLLTGSEVEELLQTVDEAQDPSRVVGGQ 105
Cdd:PRK05602  41 LGDPAEAEDVAQETFLRIwkQAPSWRPGEARFDTWLHRVVLNLCYDR----LRRRREVPVEDAPDVPDPAPGPDAGLEAR 116

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 495706834 106 REIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGISTRMVE 151
Cdd:PRK05602 117 QRARRVEQALAALPERQREAIVLQYYQGLSNIEAAAVMDISVDALE 162
PRK09637 PRK09637
RNA polymerase sigma factor SigZ; Provisional
 17-146 5.36e-03

RNA polymerase sigma factor SigZ; Provisional


Pssm-ID: 236601 [Multi-domain]  Cd Length: 181  Bit Score: 36.12  E-value: 5.36e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495706834  17 YEDFKVRLR----KRLGSEDLANDVLHETYLRvdrmdMPPNLAQPN------AYLYRMALNIAAD--RRQADARLLtgsE 84
Cdd:PRK09637   7 WSEYKAQLKaflhSRVSNEADVDDLLQEVLIK-----THSNLHSLKdgssikSWLYQIANNTIIDfyRKKNRSEEL---P 78

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 495706834  85 VEELLQTVDEAQDPSRVVggqreIQSLLKALYELPARRRQILIAARLEEAPHLEISRRFGIS 146
Cdd:PRK09637  79 DDLLFEDEEREENAKKEL-----APCLRPFIDALPEKYAEALRLTELEGLSQKEIAEKLGLS 135
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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