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Conserved domains on  [gi|2104358754|ref|WP_224740478|]
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sigma-70 family RNA polymerase sigma factor [Streptomyces sp. PSKA30]

Protein Classification

sigma-70 family RNA polymerase sigma factor( domain architecture ID 11495650)

sigma-70 family RNA polymerase sigma factor is a general transcription factor that reversibly binds RNA polymerase and mediates transcription.

Gene Ontology:  GO:0003677|GO:0016987|GO:0006352
PubMed:  28117604

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 29-185 1.49e-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: 122.46  E-value: 1.49e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  29 HALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQPAHLDESA 108
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 109 AHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:TIGR02937  81 LEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLE---GLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 29-185 1.49e-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: 122.46  E-value: 1.49e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  29 HALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQPAHLDESA 108
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 109 AHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:TIGR02937  81 LEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLE---GLSYKEIAEILGISVGTVKRRLKRARKKL 154
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 20-185 5.27e-32

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: 121.64  E-value: 5.27e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRD--RAR 97
Cdd:COG1595     8 LERLRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLAIDhlRKR 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  98 RKQPAHLDEsAAHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVR 177
Cdd:COG1595    88 RRRRELLDE-LAEELPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLE---GLSYAEIAEILGISEGTVKSR 163


                  ....*...
gi 2104358754 178 VQRVKERL 185
Cdd:COG1595   164 LSRARKKL 171
PRK09637 PRK09637
RNA polymerase sigma factor SigZ; Provisional
 54-185 1.31e-14

RNA polymerase sigma factor SigZ; Provisional


Pssm-ID: 236601 [Multi-domain]  Cd Length: 181  Bit Score: 72.32  E-value: 1.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  54 ADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQP-AHLDESAAHEATDfaeltvlrlQLEGQRREV 132
Cdd:PRK09637   26 ADVDDLLQEVLIKTHSNLHSLKDGSSIKSWLYQIANNTIIDFYRKKNRsEELPDDLLFEDEE---------REENAKKEL 96

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 133 AEAVR----WLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:PRK09637   97 APCLRpfidALPEKYAEALRLTELE---GLSQKEIAEKLGLSLSGAKSRVQRGRVKL 150
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 34-100 8.66e-13

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: 63.38  E-value: 8.66e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2104358754  34 LVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRD--PDSFRSWLVAIAMRQIRDRARRKQ 100
Cdd:pfam04542   1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPerGVSFSTWLYTIIRNAIIDYLRKQR 69
 
Name Accession Description Interval E-value
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 29-185 1.49e-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: 122.46  E-value: 1.49e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  29 HALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQPAHLDESA 108
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 109 AHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:TIGR02937  81 LEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLE---GLSYKEIAEILGISVGTVKRRLKRARKKL 154
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 20-185 5.27e-32

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: 121.64  E-value: 5.27e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRD--RAR 97
Cdd:COG1595     8 LERLRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLAIDhlRKR 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  98 RKQPAHLDEsAAHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVR 177
Cdd:COG1595    88 RRRRELLDE-LAEELPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLE---GLSYAEIAEILGISEGTVKSR 163


                  ....*...
gi 2104358754 178 VQRVKERL 185
Cdd:COG1595   164 LSRARKKL 171
PRK09637 PRK09637
RNA polymerase sigma factor SigZ; Provisional
 54-185 1.31e-14

RNA polymerase sigma factor SigZ; Provisional


Pssm-ID: 236601 [Multi-domain]  Cd Length: 181  Bit Score: 72.32  E-value: 1.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  54 ADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQP-AHLDESAAHEATDfaeltvlrlQLEGQRREV 132
Cdd:PRK09637   26 ADVDDLLQEVLIKTHSNLHSLKDGSSIKSWLYQIANNTIIDFYRKKNRsEELPDDLLFEDEE---------REENAKKEL 96

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 133 AEAVR----WLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:PRK09637   97 APCLRpfidALPEKYAEALRLTELE---GLSQKEIAEKLGLSLSGAKSRVQRGRVKL 150
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 20-194 2.52e-14

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 71.38  E-value: 2.52e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAM-RQIRDRARR 98
Cdd:PRK09652    1 VERVQRGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFRGGAAFYTWLYRIARnTAINYLRKQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  99 KQPAHLDESAAHEATDFAELTVLR-------LQLEGQ-RREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGIS 170
Cdd:PRK09652   81 GRRPPASDVDAEEAEDFDLADALRdistpenELLSAElEQRVRAAIESLPEELRTAITLREIE---GLSYEEIAEIMGCP 157

                         170       180
                  ....*....|....*....|....
gi 2104358754 171 rqhaavrVQRVKERLETARGIVRA 194
Cdd:PRK09652  158 -------IGTVRSRIFRAREALRA 174
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 34-100 8.66e-13

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: 63.38  E-value: 8.66e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2104358754  34 LVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRD--PDSFRSWLVAIAMRQIRDRARRKQ 100
Cdd:pfam04542   1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPerGVSFSTWLYTIIRNAIIDYLRKQR 69
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 21-194 1.94e-12

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 65.76  E-value: 1.94e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  21 AAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQ 100
Cdd:PRK11924    5 PVDATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFNGKGSARTWLLTIARNVCYDLLRRRR 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 101 PAHLDESAAHEATDFA------ELTVLRLQlegQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISrqha 174
Cdd:PRK11924   85 REKAVLSDDALEPEFAetaetpEAALLAKD---DLARIDRCLDALPVKQREVFLLRYVE---GLSYREIAEILGVP---- 154

                         170       180
                  ....*....|....*....|
gi 2104358754 175 avrVQRVKERLETARGIVRA 194
Cdd:PRK11924  155 ---VGTVKSRLRRARQLLRE 171
PRK05602 PRK05602
RNA polymerase sigma factor; Reviewed
 20-170 9.33e-12

RNA polymerase sigma factor; Reviewed


Pssm-ID: 235530 [Multi-domain]  Cd Length: 186  Bit Score: 63.90  E-value: 9.33e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLR-DPDSFRSWLVAIAMRQIRDRARR 98
Cdd:PRK05602   11 LARVAAGDPAAFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRpGEARFDTWLHRVVLNLCYDRLRR 90

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2104358754  99 KQpaHLDESAAHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGIS 170
Cdd:PRK05602   91 RR--EVPVEDAPDVPDPAPGPDAGLEARQRARRVEQALAALPERQREAIVLQYYQ---GLSNIEAAAVMDIS 157
PRK09638 PRK09638
RNA polymerase sigma factor SigY; Reviewed
 20-144 9.58e-12

RNA polymerase sigma factor SigY; Reviewed


Pssm-ID: 182010 [Multi-domain]  Cd Length: 176  Bit Score: 63.89  E-value: 9.58e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRaLNGHADV-DDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARR 98
Cdd:PRK09638    9 IQKAKKGDDAALTTLFQQHYSFLYKYLLK-LTLDPDLaEDLVQETMLKAIENLSSFQGRSKFSTWLISIASRLYKDHLRK 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2104358754  99 -KQPAHLDESAAHEATDFAELTVLRLQLEGqrREVAEAVRWLDDEDR 144
Cdd:PRK09638   88 qKREKLRLQRAKEETLRKEKWEAAIKGAEW--SEMLDALSKLDPEFR 132
PRK09640 PRK09640
RNA polymerase sigma factor SigX; Reviewed
 27-185 1.26e-11

RNA polymerase sigma factor SigX; Reviewed


Pssm-ID: 236603 [Multi-domain]  Cd Length: 188  Bit Score: 63.80  E-value: 1.26e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  27 DRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIA----MRQIRD--RARRKQ 100
Cdd:PRK09640   24 VTRAYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGKSKFKTWLYSITynecITQYRKerRKRRLM 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 101 PA-HLD--ESAAHEATDFAEltvLRLQLEgqrrevaeavRWL---DDEDRQLLSLWWLevaGELTRRELAAAAGISRQHA 174
Cdd:PRK09640  104 DAlSLDplEEASEEKAPKPE---ERGGLD----------RWLvhvNPIDREILVLRFV---AELEFQEIADIMHMGLSAT 167

                         170
                  ....*....|.
gi 2104358754 175 AVRVQRVKERL 185
Cdd:PRK09640  168 KMRYKRALDKL 178
PRK09641 PRK09641
RNA polymerase sigma factor SigW; Provisional
 20-185 2.37e-11

RNA polymerase sigma factor SigW; Provisional


Pssm-ID: 182012 [Multi-domain]  Cd Length: 187  Bit Score: 62.79  E-value: 2.37e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRK 99
Cdd:PRK09641    9 IKQVKKGDQNAFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINRKFSTWLYRIATNLTIDRLRKR 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 100 QP-AHLD-ESAAHEATDF----------AELTVLRLQLegqRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAA 167
Cdd:PRK09641   89 KPdYYLDaEVAGTEGLTMysqlaaddalPEEQVVSLEL---QETIQEAILQLPEKYRTVIVLKYIE---DLSLKEISEIL 162

                         170
                  ....*....|....*...
gi 2104358754 168 GISRQHAAVRVQRVKERL 185
Cdd:PRK09641  163 DLPVGTVKTRIHRGREAL 180
PRK12513 PRK12513
RNA polymerase sigma factor; Provisional
 21-185 1.48e-10

RNA polymerase sigma factor; Provisional


Pssm-ID: 183566 [Multi-domain]  Cd Length: 194  Bit Score: 60.86  E-value: 1.48e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  21 AAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARR-- 98
Cdd:PRK12513   18 LRYRAGDAAAFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPRARFRTWLYQIARNLLIDHWRRhg 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  99 -KQPAHLD-ESAAHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLslwWLEVAGELTRRELAAAAGISRQHAAV 176
Cdd:PRK12513   98 aRQAPSLDaDEQLHALADDGAAPEQQLSLFRDRRRLQAALETLPDEQREVF---LLREHGDLELEEIAELTGVPEETVKS 174

                         170
                  ....*....|...
gi 2104358754 177 R----VQRVKERL 185
Cdd:PRK12513  175 RlryaLQKLRELL 187
PRK12524 PRK12524
RNA polymerase sigma factor; Provisional
 26-204 4.16e-10

RNA polymerase sigma factor; Provisional


Pssm-ID: 183573 [Multi-domain]  Cd Length: 196  Bit Score: 59.52  E-value: 4.16e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  26 GDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRS-WLVAIAMRQIRDRARRKQPAHL 104
Cdd:PRK12524   23 GDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGEARVStWLYRVVCNLCTDRLRRRRRASV 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 105 DESAAHEATDFAELTVLRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISrqhaavrVQRVkER 184
Cdd:PRK12524  103 DLDDAPEPADAAPGAEEALIEGDRMRALDAALAALPERQRQAVVLRHIE---GLSNPEIAEVMEIG-------VEAV-ES 171

                         170       180
                  ....*....|....*....|
gi 2104358754 185 LeTARGiVRALDGACPGLRE 204
Cdd:PRK12524  172 L-TARG-KRALAALLAGQRA 189
PRK09415 PRK09415
RNA polymerase factor sigma C; Reviewed
 18-187 5.53e-10

RNA polymerase factor sigma C; Reviewed


Pssm-ID: 181835 [Multi-domain]  Cd Length: 179  Bit Score: 58.61  E-value: 5.53e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  18 STIAAAQAGDR-HALDELVEGW----LPLVYNVVgralNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQI 92
Cdd:PRK09415    4 LTIEAFEIEDKeDLIDEIMNEYgqevLQLVYSYV----KNKEVAEDLTQEIFVKCYKSLHTYKGKSSLKTWLYRIAINHC 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  93 RDRA-----RRKQPAHlDESAAHEAT-DFAELTVLrlqLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAA 166
Cdd:PRK09415   80 KDYLkswhnKKVIVTE-DIFTYMESQkESVEEEVI---QNAEDERLASAVMSLPIKYREVIYLFYYE---ELSIKEIAEV 152

                         170       180
                  ....*....|....*....|.
gi 2104358754 167 AGISRQHAAVRVQRVKERLET 187
Cdd:PRK09415  153 TGVNENTVKTRLKKAKELLKK 173
FliA COG1191
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ...
 17-186 1.06e-09

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: 59.07  E-value: 1.06e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  17 RSTIAAAQAGDRHALDELVEGWLPLVYNVVGRALN-GHADVDDVVQETM---LRAVDN-----------------LGSLR 75
Cdd:COG1191     3 EELLRRYQEGDEEAREELIEEYLPLVKKIASRLAGrLPAELDDLIQVGLiglIEAIDRfdpskgvsfetyavpriRGAIL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  76 dpDSFRS--WL------------------------------VAIAM-------RQIRDRARRKQPAHLDESAAHEaTDFA 116
Cdd:COG1191    83 --DYLRDedWVprsvrelarkieeaieeleqelgreptdeeIAEELgisleevQEALEAANAYQLLSLDEPLEDG-DDLL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 117 ELTVL-----RLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGIS-----RQHAAVrVQRVKERLE 186
Cdd:COG1191   160 DLLESgdpeeELEHEELREALAEAIEQLPERERLVLSLYYFE---ELTLKEIAEVLGVSesrvsRLHKKA-LARLREYLK 235
PRK12517 PRK12517
RNA polymerase sigma factor; Provisional
 57-186 1.19e-08

RNA polymerase sigma factor; Provisional


Pssm-ID: 183569 [Multi-domain]  Cd Length: 188  Bit Score: 55.08  E-value: 1.19e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  57 DDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQPAHLDESAAHEATDFAELTVLRLQLEGQRREVAEav 136
Cdd:PRK12517   51 EDLVQETFLRAWRSLDSLKDEKAAKAWLITILRRENARRFERKQFDLVDIEDDSIEDDASHSSEEEMEQEWLRRQIAK-- 128

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2104358754 137 rwLDDEDRQLLslwWLEVAGELTRRELAAAAGISRQHAAVRVQR----VKERLE 186
Cdd:PRK12517  129 --LDPEYREPL---LLQVIGGFSGEEIAEILDLNKNTVMTRLFRarnqLKEALE 177
Sig-70_gvs1 TIGR02989
RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; This group of sigma ...
 48-185 1.20e-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: 54.25  E-value: 1.20e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  48 RALNGH-ADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRD--RARRKQPAHLDESAAHEATDFAELTVLRlQ 124
Cdd:TIGR02989  19 RSLVADrDDVDDVLQETFVVAWRKFDQFDPGTNFVAWARGIARNKVLNyrRKLGRDRLVFDDDLLEALAAEAEPTEAE-R 97

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2104358754 125 LEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAAVRVQRVKERL 185
Cdd:TIGR02989  98 LSDDRQALEGCLEKLPERQRELLDLRYQR---GQKATALAEQTGRTVNAVYKALQRIRVSL 155
algU PRK11923
RNA polymerase sigma factor AlgU; Provisional
 20-153 1.32e-08

RNA polymerase sigma factor AlgU; Provisional


Pssm-ID: 171347 [Multi-domain]  Cd Length: 193  Bit Score: 54.81  E-value: 1.32e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRD----R 95
Cdd:PRK11923   11 VERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDSAFYTWLYRIAINTAKNhlvsR 90

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2104358754  96 ARRKQPAHLDESAA------HEATDFA--ELTVLRLQLEGQrreVAEAVRWLDDEDRQLLSLWWLE 153
Cdd:PRK11923   91 GRRPPDSDVSSEDAefydgdHALKDIEspERALLRDEIEGT---VHRTIQQLPEDLRTALTLREFD 153
PRK09645 PRK09645
ECF RNA polymerase sigma factor SigL;
57-180 4.04e-08

ECF RNA polymerase sigma factor SigL;


Pssm-ID: 236605 [Multi-domain]  Cd Length: 173  Bit Score: 53.16  E-value: 4.04e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  57 DDVVQETMLRAVDNLGSL-RDPDSFRSWLVAIAMRQIRD--RARRKQPA----HLDESAAHEATDFAELTVLRLqlegqr 129
Cdd:PRK09645   37 EDVVQETLLRAWQHPEVLaDTGRSARAWLFTVARNLVIDerRSARARPVeggdDVLGVPEQSAPDEVDRALDRL------ 110

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2104358754 130 rEVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGI------SRQHAAVRVQR 180
Cdd:PRK09645  111 -LVADALAQLSPEHRAVLVRSYYR---GWSTAQIAADLGIpegtvkSRLHYALRALR 163
PRK08241 PRK08241
RNA polymerase subunit sigma-70;
21-119 1.04e-07

RNA polymerase subunit sigma-70;


Pssm-ID: 236196 [Multi-domain]  Cd Length: 339  Bit Score: 54.17  E-value: 1.04e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  21 AAAQAGDRHALDELVEgwlPLVynvvgRALNGH--------ADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMR-- 90
Cdd:PRK08241   11 ARAAAGDRDAFAALVE---PHR-----RELLAHcyrmlgsvHDAEDAVQETLLRAWRGYDRFEGRSSLRTWLYRIATNvc 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2104358754  91 --QIRDRARRKQPAHLDESAAHEATDFAELT 119
Cdd:PRK08241   83 ldALEGRARRPLPTDLGAPAADPVDELVERP 113
PRK12511 PRK12511
RNA polymerase sigma factor; Provisional
 54-197 3.07e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 237123 [Multi-domain]  Cd Length: 182  Bit Score: 50.94  E-value: 3.07e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  54 ADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAI-------AMRQIRDRARRKQPAHLDESAAHEAtdfAELTVLRLQle 126
Cdd:PRK12511   29 AEAEDLVHDALVRALERRASFRSGGNLRTWLMSIlhnafidELRRRRVEARRADELAVLADASLPA---AQEHAVRLA-- 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 127 gqrrEVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGI---------SRQHAAVRVQRVKERLETARGIVRALDG 197
Cdd:PRK12511  104 ----QIRDAFFDLPEEQRAALHLVAIE---GLSYQEAAAVLGIpigtlmsriGRARAALRAFEEGTGPARGRAHLRVVGG 176
PRK12533 PRK12533
RNA polymerase sigma factor; Provisional
 12-213 3.36e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 237129 [Multi-domain]  Cd Length: 216  Bit Score: 51.27  E-value: 3.36e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  12 AGRQWRSTIAAAQAGDRHALDELVEGWLPLVYNVvGRALNGHA-DVDDVVQETMLRAVDNLGSLRDpDSFRSWLVAIAMR 90
Cdd:PRK12533    1 ADSDRTAGAAMDAAARGERFRQLVLPHLDAAYNL-ARWLCGNAsDADDVVQEACMRALRFFDSFRG-DNARPWLLAIVRH 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  91 QIRDRARRKQPAH----LDESAAHEATD-----FAELTVLRLQLEGQRReVAEAVRWLDDEDRQLLSLWWLEvagELTRR 161
Cdd:PRK12533   79 TWYSEWRRRANAHevaaPDTLDDADSLDdwqpaGEDPLALLLRAEDVRL-VNAALAKLPVEYREVLVLRELE---DMSYR 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2104358754 162 ELAAAagisrqhAAVRVQRVKERLETAR-GIVRALDGACPGLRELTARWNGRP 213
Cdd:PRK12533  155 EIAAI-------ADVPVGTVMSRLARARrRLAALLGGASAAQAAPGERAAGRP 200
PRK09649 PRK09649
RNA polymerase sigma factor SigC; Reviewed
 22-131 4.27e-07

RNA polymerase sigma factor SigC; Reviewed


Pssm-ID: 137458 [Multi-domain]  Cd Length: 185  Bit Score: 50.42  E-value: 4.27e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  22 AAQAGDRHALDELVEGWLPLVYNVVGRaLNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQ- 100
Cdd:PRK09649   17 SAAKGNGRALEAFIKATQQDVWRFVAY-LSDVGSADDLTQETFLRAIGAIPRFSARSSARTWLLAIARHVVADHIRHVRs 95

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2104358754 101 ---------PAHLDESAAHEA--TDFAELTVLRLQLEGQRRE 131
Cdd:PRK09649   96 rprttrgarPEHLIDGDRHARgfEDLVEVTTMIADLTTDQRE 137
PRK05572 PRK05572
RNA polymerase sporulation sigma factor, SigF/SigG family;
20-70 1.71e-06

RNA polymerase sporulation sigma factor, SigF/SigG family;


Pssm-ID: 180137 [Multi-domain]  Cd Length: 252  Bit Score: 49.58  E-value: 1.71e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQ---ETMLRAVDN 70
Cdd:PRK05572   23 IKKSQDGDQEARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQigcIGLLKAVDK 76
PRK11922 PRK11922
RNA polymerase sigma factor; Provisional
 20-193 1.86e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 237024 [Multi-domain]  Cd Length: 231  Bit Score: 49.19  E-value: 1.86e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAI----AMRQIRDR 95
Cdd:PRK11922   21 VARVLAGDEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGDASLSTWLSRIvlneALGRLRRR 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  96 ARR---------KQPAHLDESAAHEATDFAELTVLRLQLegqRREVAEAVRWLDDEDRqllSLWWLEVAGELTRRELAAA 166
Cdd:PRK11922  101 RRLvnlaemvmaSTIAGGERTPLADPAEDPERAAARREI---RALLERAIDALPDAFR---AVFVLRVVEELSVEETAQA 174

                         170       180
                  ....*....|....*....|....*..
gi 2104358754 167 AGISrqHAAVRVqrvkeRLETARGIVR 193
Cdd:PRK11922  175 LGLP--EETVKT-----RLHRARRLLR 194
PRK12518 PRK12518
RNA polymerase sigma factor; Provisional
 20-193 2.49e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 237124 [Multi-domain]  Cd Length: 175  Bit Score: 47.79  E-value: 2.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLV----YNVVGRALnghadVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAI----AMRQ 91
Cdd:PRK12518    2 ILRCQRGDRQSFRQLYRRYQQKVrstlYQLCGREL-----LDDLVQEVFLRVWKGLPKLRNPAYFSTWLYRItwnvATDA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  92 IRDRARRKQPAHLDESAAHEATDFAELTVLRLQLEGQrreVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISr 171
Cdd:PRK12518   77 RRQFAQRPSRIQDDSLNDQPSRPSDTPDLMQLHYQDL---VQQGLQTLSLEHRAVLVLHDLE---DLPQKEIAEILNIP- 149

                         170       180
                  ....*....|....*....|..
gi 2104358754 172 qhaavrVQRVKERLETARGIVR 193
Cdd:PRK12518  150 ------VGTVKSRLFYARRQLR 165
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 21-197 4.09e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 47.75  E-value: 4.09e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  21 AAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSlrDPD--SFRSWLVAIAM-RQI-RDRA 96
Cdd:PRK12519   21 SALKAGQSAALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRKSSY--DPKrgSLSSYLLTLTRsRAIdRLRS 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  97 RRKQPAHLDESAAHEATDFAELTVL-RLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISRQHAA 175
Cdd:PRK12519   99 RRSRQRLLERWQQELLGEASEDTPLeQASLAERSQRVQTALAQLPESQRQVLELAYYE---GLSQSEIAKRLGIPLGTVK 175

                         170       180
                  ....*....|....*....|..
gi 2104358754 176 VRVQRVKERLetaRGIVRALDG 197
Cdd:PRK12519  176 ARARQGLLKL---RELLQDLLE 194
PRK12543 PRK12543
RNA polymerase sigma factor; Provisional
 26-186 4.28e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 183582 [Multi-domain]  Cd Length: 179  Bit Score: 47.42  E-value: 4.28e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  26 GDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQET---MLRAVDNLGSLRdpdSFRSWLVAIAMRQI----RDRARR 98
Cdd:PRK12543    4 GDQEAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIyiqLWESLRKYDSNR---PFRFWLIGLVIKQIhswrRKRWRR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  99 KQPAHLDESAAHEATDFAELTVLrlqLEGQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGI------SRQ 172
Cdd:PRK12543   81 FRIFEKAEEQRKPVSIDFSEDVL---SKESNQELIELIHKLPYKLRQVIILRYLH---DYSQEEIAQLLQIpigtvkSRI 154

                         170
                  ....*....|....
gi 2104358754 173 HAAVRVQRVKERLE 186
Cdd:PRK12543  155 HAALKKLRQKEQIE 168
PRK12542 PRK12542
RNA polymerase sigma factor; Provisional
 27-190 1.47e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 183581 [Multi-domain]  Cd Length: 185  Bit Score: 45.81  E-value: 1.47e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  27 DRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLR--DPDSFRSWLVAIAMRQIRDRARR-KQPAH 103
Cdd:PRK12542    7 DYEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHslNTQELKRYILRVAKNKAIDSYRKnKRHET 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 104 LDESAAHEATDFAELTVlrlqLEGQRREVAEA-----VRWLDDEDRQLLSlwwLEVAGELTRRELAAAAGISRQHAAVRV 178
Cdd:PRK12542   87 FLEEYERESIEAVDENI----EEWEKRKMSEVqidtlLKELNESNRQVFK---YKVFYNLTYQEISSVMGITEANVRKQF 159

                         170
                  ....*....|..
gi 2104358754 179 QRVKERLETARG 190
Cdd:PRK12542  160 ERARKRVQNMIG 171
PRK09643 PRK09643
RNA polymerase sigma factor SigM; Reviewed
 20-149 2.62e-05

RNA polymerase sigma factor SigM; Reviewed


Pssm-ID: 236604 [Multi-domain]  Cd Length: 192  Bit Score: 45.09  E-value: 2.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRK 99
Cdd:PRK09643   18 LAAHVAGDRYAFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGDAAVSSWLHRIVVNACLDRLRRA 97

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2104358754 100 --QPAHLDESAAHEATDFAELTVlRLQLegqRREVAEAVRWLDDEDRQLLSL 149
Cdd:PRK09643   98 kaRPTVPLDDVYPVAQLERDPTA-RVET---ALAVQRALMRLPVEQRAALVA 145
PRK12546 PRK12546
RNA polymerase sigma factor; Provisional
 22-189 2.78e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 139055 [Multi-domain]  Cd Length: 188  Bit Score: 45.22  E-value: 2.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  22 AAQAGDRHALDELVEGwLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIaMRQIRDRARRKqp 101
Cdd:PRK12546    1 KAPAKHRDPRDELVEH-LPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEGTNLRAWLFTI-LRNTFYSDRRK-- 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 102 aHLDESAAHEATDFAELTVL-----RLQLEGQRREVAEavrwLDDEDRQLLSlwwlevageltrreLAAAAGISRQHAA- 175
Cdd:PRK12546   77 -HKREVPDPEGVHAASLAVKpahdgRLAMSDFRAAFAQ----LPDEQREALI--------------LVGASGFSYEEAAe 137

                         170
                  ....*....|....*..
gi 2104358754 176 ---VRVQRVKERLETAR 189
Cdd:PRK12546  138 mcgVAVGTVKSRANRAR 154
PRK09648 PRK09648
RNA polymerase sigma factor ShbA;
12-178 3.29e-05

RNA polymerase sigma factor ShbA;


Pssm-ID: 236607 [Multi-domain]  Cd Length: 189  Bit Score: 44.96  E-value: 3.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  12 AGRQWRSTIAAAQAGDRHALDELVEGWLPLVYNV----VGRALNGHADVDDVVQETMLRAVDNLGSLRDPD-SFRSWLVA 86
Cdd:PRK09648    7 TGEELDALVAEAVAGDRRALREVLEIIRPLVVRYcrarLGGVERPGLSADDVAQEVCLAVITALPRYRDQGrPFLAFVYG 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  87 IAMRQIRD--RARRKQPAHLDESAAHEATDFA--ELTVLRLQLegqRREVAEAVRWLDDEDRQLLSlwwLEVAGELTRRE 162
Cdd:PRK09648   87 IAAHKVADahRAAGRDKAVPTEEVPERPSDDAgpEERALRSES---SNRMRELLDTLPEKQREILI---LRVVVGLSAEE 160

                         170
                  ....*....|....*.
gi 2104358754 163 LAAAAGISRqhAAVRV 178
Cdd:PRK09648  161 TAEAVGSTP--GAVRV 174
PRK09646 PRK09646
ECF RNA polymerase sigma factor SigK;
26-169 5.25e-05

ECF RNA polymerase sigma factor SigK;


Pssm-ID: 182015 [Multi-domain]  Cd Length: 194  Bit Score: 44.28  E-value: 5.25e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  26 GDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLrDPD--SFRSWLVAIAMRQIRDRARRKQPAH 103
Cdd:PRK09646   27 GDQDAFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRF-DPArgSALAWLLTLAHRRAVDRVRSEQAAS 105

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2104358754 104 LDESAAHEAT------DFAELTVLRLqlegQRREVAEAVRWLDDEDRQLLSLWWLevaGELTRRELAAAAGI 169
Cdd:PRK09646  106 QREVRYGARNvdpafdQVAEEVEARL----ERERVRDCLDALTDTQRESVTLAYY---GGLTYREVAERLAV 170
PRK09651 PRK09651
RNA polymerase sigma factor FecI; Provisional
 37-170 1.46e-04

RNA polymerase sigma factor FecI; Provisional


Pssm-ID: 182018 [Multi-domain]  Cd Length: 172  Bit Score: 42.87  E-value: 1.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  37 GWLPlvyNVVGRALNGHADVDDVVQETMLRAV--DNLGSLRDPDSFrswLVAIAMRQIRDRARRK--QPAHLDESAAHEA 112
Cdd:PRK09651   21 GWLK---SWLTRKLQSAFDADDIAQDTFLRVMvsETLSTIRDPRSF---LCTIAKRVMVDLFRRNalEKAYLEMLALMPE 94

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2104358754 113 TDFAELTVLRLQLEgQRREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGIS 170
Cdd:PRK09651   95 GGAPSPEERESQLE-TLQLLDSMLDGLNGKTREAFLLSQLD---GLTYSEIAHKLGVS 148
PRK12534 PRK12534
RNA polymerase sigma factor; Provisional
 1-168 1.90e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 183576 [Multi-domain]  Cd Length: 187  Bit Score: 42.73  E-value: 1.90e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754   1 MSRERTYVDEGAGRqwrsTIAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQEtMLRAVDNLGSLRDPDSF 80
Cdd:PRK12534    1 MSAIPGHDDDETGR----LLTATAGGDRHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQD-VFTLIWHKAGQFDPSRA 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  81 R--SWLVAIAMRQ----IRDRARRKQPAHLDESAAHEATDFAELTvlRLQLEGQRREVAEAVRWLDDEDRQLLSLWWLEv 154
Cdd:PRK12534   76 RglTWLAMIARNKaidhLRANAPQRRNVALDDAGELRAADASPLE--RTERASTRRRIDHCLAELEPPRSELIRTAFFE- 152

                         170
                  ....*....|....
gi 2104358754 155 agELTRRELAAAAG 168
Cdd:PRK12534  153 --GITYEELAARTD 164
PRK13919 PRK13919
putative RNA polymerase sigma E protein; Provisional
 20-186 4.08e-04

putative RNA polymerase sigma E protein; Provisional


Pssm-ID: 184395 [Multi-domain]  Cd Length: 186  Bit Score: 41.44  E-value: 4.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLrDPD--SFRSWLVAIA----MRQIR 93
Cdd:PRK13919   14 LALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEF-DPRrgSARAWLLALAhhaaVDHVR 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  94 DRARRKQPAHLDESAAhEATDfaeLTVLRLQLEGQ--RREVAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISR 171
Cdd:PRK13919   93 RRAARPQPLEPDEREP-EAFD---LPGPGLDEEGHldRTRLGRALKALSPEERRVIEVLYYQ---GYTHREAAQLLGLPL 165

                         170
                  ....*....|....*
gi 2104358754 172 QHAAVRVQRVKERLE 186
Cdd:PRK13919  166 GTLKTRARRALSRLK 180
PRK12522 PRK12522
RNA polymerase sigma factor; Provisional
 31-193 6.16e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 183571 [Multi-domain]  Cd Length: 173  Bit Score: 41.01  E-value: 6.16e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  31 LDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQ------PAHL 104
Cdd:PRK12522    5 VEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVENYKKWITTICVRTFYDFYRKKKrwkdriLDLF 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754 105 DESAAHEATDFAELTVLRLQLEGQRRE-VAEAVRWLDDEDRQLLSLWWLEvagELTRRELAAAAGISrqhaavrVQRVKE 183
Cdd:PRK12522   85 HKEDGGEIEFADDVNISEEFIQKVEAEmIREVIQLLNEKYKTVLVLYYYE---QYSYKEMSEILNIP-------IGTVKY 154

                         170
                  ....*....|
gi 2104358754 184 RLETARGIVR 193
Cdd:PRK12522  155 RLNYAKKQMR 164
PRK12540 PRK12540
RNA polymerase sigma factor; Provisional
 49-113 7.37e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 183579 [Multi-domain]  Cd Length: 182  Bit Score: 40.72  E-value: 7.37e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2104358754  49 ALNGHAD-VDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMRQIRDRARRKQPAHLDESAAHEAT 113
Cdd:PRK12540   24 SLSGNGDrADDLVQETLLRALANIDSFQPGSNLPAWLFTILRNLFRSDYRKRRREVEDADGSYAKT 89
Lrp COG1522
DNA-binding transcriptional regulator, Lrp family [Transcription];
139-193 3.31e-03

DNA-binding transcriptional regulator, Lrp family [Transcription];


Pssm-ID: 441131 [Multi-domain]  Cd Length: 138  Bit Score: 38.22  E-value: 3.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2104358754 139 LDDEDRQLLSLwwLEVAGELTRRELAAAAGISRqhAAVRvQRVKeRLEtARGIVR 193
Cdd:COG1522     3 LDEIDRRILRL--LQEDGRLSFAELAERVGLSE--STVL-RRVR-RLE-EAGVIR 50
PRK06811 PRK06811
RNA polymerase factor sigma-70; Validated
 26-146 3.43e-03

RNA polymerase factor sigma-70; Validated


Pssm-ID: 180707 [Multi-domain]  Cd Length: 189  Bit Score: 38.77  E-value: 3.43e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  26 GDRHALDELVEGWLPLVYNVVGRALNG---HADVDDVVQETMLRAVDNLGSLR-DPDSFRSWLVAIAMRQIRD--RARRK 99
Cdd:PRK06811   15 KNEKALEFIVDTYGNLVKKIVHKVLGTvnySQLIEECVNDIFLSIWNNIDKFDeEKGSFKKWIAAISKYKAIDykRKLTK 94

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2104358754 100 QPaHLDESAAHEATDFAELTVLRLQLEgQRREVAEAVRWLDDEDRQL 146
Cdd:PRK06811   95 NN-EIDSIDEFILISEESIENEIILKE-NKEEILKLINDLEKLDREI 139
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
20-92 4.32e-03

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 38.74  E-value: 4.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  20 IAAAQAGDRHALDELVEGWLPLVYNVVGRA-LNGhADVDDVVQETML---RAVdnlgslRDPD-----SFRS--WLVAIa 88
Cdd:PRK08295   15 VELARSGDKEALEYLIEKYKNFVRAKARSYfLIG-ADREDIVQEGMIglyKAI------RDYDkdklsSFKSfaELCIT- 86


                  ....
gi 2104358754  89 mRQI 92
Cdd:PRK08295   87 -RQI 89
PRK12535 PRK12535
RNA polymerase sigma factor; Provisional
 22-131 4.45e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237130 [Multi-domain]  Cd Length: 196  Bit Score: 38.72  E-value: 4.45e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  22 AAQAGDRHALDELVEGWLPLVYNVVGRaLNGHADVDDVVQETMLRAVDNLGSLRDPDSFRSWLVAIAMR----QIR-DRA 96
Cdd:PRK12535   18 AAGRGDRAALTEFIRETQDDVWRLLAH-LGGHDIADDLTQETYLRVMSALPRFAARSSARTWLLSLARRvwvdNIRhDMA 96

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2104358754  97 R-RKQPAHLDESAAHEAT--------DFAELTVLRLQLEGQRRE 131
Cdd:PRK12535   97 RpRKSATEYEDAAATTASnettgswsEWIDVRTLIDALPPERRE 140
PRK12514 PRK12514
RNA polymerase sigma factor; Provisional
 26-137 4.71e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 105710 [Multi-domain]  Cd Length: 179  Bit Score: 38.26  E-value: 4.71e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2104358754  26 GDRHALDELVEGWLPLVYNVVGRALNGHADVDDVVQETMLRAVDNLGSLRDPD-SFRSWLVAIAMRQIRDRARRKQPAHL 104
Cdd:PRK12514   16 GDRDAFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSGlSPMTWLITIARNHAIDRLRARKAVAV 95

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2104358754 105 DESAAHEATDFA---ELTVLrLQLEGQR-----REV----AEAVR 137
Cdd:PRK12514   96 DIDEAHDLADPSpgpEAEVI-AGDEGQRidaclEELekdrAAAVR 139
HTH_AsnC-type pfam13404
AsnC-type helix-turn-helix domain;
140-180 6.42e-03

AsnC-type helix-turn-helix domain;


Pssm-ID: 433180 [Multi-domain]  Cd Length: 41  Bit Score: 34.65  E-value: 6.42e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2104358754 140 DDEDRQLLSLwwLEVAGELTRRELAAAAGISRQHAAVRVQR 180
Cdd:pfam13404   1 DEIDRKILRL--LQEDARISFAELAERVGLSESTVLRRIRR 39
 
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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