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Conserved domains on  [gi|2507793314|ref|WP_283139936|]
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sigma-70 family RNA polymerase sigma factor [Bacteroides congonensis]

Protein Classification

sigma-70 family RNA polymerase sigma factor( domain architecture ID 1001859)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Sig70_bacteroi1 super family cl37203
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 12-168 3.19e-33

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.


The actual alignment was detected with superfamily member TIGR02985:

Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 115.74  E-value: 3.19e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHR-AFVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:TIGR02985   3 FEQLYRRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWENReTLEISESIKAYLFTIVKNRCLNYLRHKQVEEKYQEELA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2507793314  91 NKVEDSAR-NTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:TIGR02985  83 EIEERELSeADPEEELEAKELEEIIEEAIEKLPEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKFLRKEL 161
 
Name Accession Description Interval E-value
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 12-168 3.19e-33

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: 115.74  E-value: 3.19e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHR-AFVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:TIGR02985   3 FEQLYRRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWENReTLEISESIKAYLFTIVKNRCLNYLRHKQVEEKYQEELA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2507793314  91 NKVEDSAR-NTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:TIGR02985  83 EIEERELSeADPEEELEAKELEEIIEEAIEKLPEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKFLRKEL 161
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 12-171 1.52e-26

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: 98.91  E-value: 1.52e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRA-FVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:COG1595    19 FEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDsFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLDELA 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  91 NKVEDSArNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQN 170
Cdd:COG1595    99 EELPDEA-ADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEE 177


                  .
gi 2507793314 171 E 171
Cdd:COG1595   178 E 178
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 12-171 1.24e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 73.08  E-value: 1.24e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRA-FVNKDTVWSLLFTIARNIVTDKIRR-YYKQEDFIAYI 89
Cdd:PRK11924   15 FSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADlFNGKGSARTWLLTIARNVCYDLLRRrRREKAVLSDDA 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  90 YNKVEDSARNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQ 169
Cdd:PRK11924   95 LEPEFAETAETPEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRARQLLRECLE 174


                  ..
gi 2507793314 170 NE 171
Cdd:PRK11924  175 AQ 176
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 26-78 7.13e-07

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: 44.50  E-value: 7.13e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2507793314  26 YIAIRICH-PHEAEDLAQDVFVRLWEHRAFVNKDTVWSL---LFTIARNIVTDKIRR 78
Cdd:pfam04542  11 SLARRYLGdGADAEDLVQEGFLGLWRAIERFDPERGVSFstwLYTIIRNAIIDYLRK 67
 
Name Accession Description Interval E-value
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 12-168 3.19e-33

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: 115.74  E-value: 3.19e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHR-AFVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:TIGR02985   3 FEQLYRRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWENReTLEISESIKAYLFTIVKNRCLNYLRHKQVEEKYQEELA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2507793314  91 NKVEDSAR-NTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:TIGR02985  83 EIEERELSeADPEEELEAKELEEIIEEAIEKLPEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKFLRKEL 161
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 12-171 1.52e-26

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: 98.91  E-value: 1.52e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRA-FVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:COG1595    19 FEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDsFRGRGSFRAWLYRIARNLAIDHLRKRRRRRELLDELA 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  91 NKVEDSArNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQN 170
Cdd:COG1595    99 EELPDEA-ADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEE 177


                  .
gi 2507793314 171 E 171
Cdd:COG1595   178 E 178
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 12-168 8.34e-19

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: 78.54  E-value: 8.34e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVN-KDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIY 90
Cdd:TIGR02937   3 FEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDpEGSFKAWLFRIARNLILDYLRRKRRLRRELDLLE 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2507793314  91 NKVEDSArnTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:TIGR02937  83 ELLDSDP--SPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRELL 158
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 12-171 1.24e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 73.08  E-value: 1.24e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRA-FVNKDTVWSLLFTIARNIVTDKIRR-YYKQEDFIAYI 89
Cdd:PRK11924   15 FSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADlFNGKGSARTWLLTIARNVCYDLLRRrRREKAVLSDDA 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  90 YNKVEDSARNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQ 169
Cdd:PRK11924   95 LEPEFAETAETPEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRARQLLRECLE 174


                  ..
gi 2507793314 170 NE 171
Cdd:PRK11924  175 AQ 176
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 27-153 5.07e-14

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 66.62  E-value: 5.07e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  27 IAIRIC-HPHEAEDLAQDVFVRLWEHRAF-VNKDTVWSLLFTIARNIVTDKIRRYYKQEDFI-AYIYNKVEDSARNTTED 103
Cdd:PRK12519   45 LALKILgNSQEAEDLTQEIFLSLWRKSSYdPKRGSLSSYLLTLTRSRAIDRLRSRRSRQRLLeRWQQELLGEASEDTPLE 124

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2507793314 104 AVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:PRK12519  125 QASLAERSQRVQTALAQLPESQRQVLELAYYEGLSQSEIAKRLGIPLGTV 174
Sig70_famx2 TIGR02952
RNA polymerase sigma-70 factor, TIGR02952 family; This group of sigma factors are members of ...
 1-168 2.28e-11

RNA polymerase sigma-70 factor, TIGR02952 family; This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.


Pssm-ID: 131997 [Multi-domain]  Cd Length: 170  Bit Score: 59.05  E-value: 2.28e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314   1 MEKQQTTFDDFFSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVR-LWEHRAFVNKDT---VWslLFTIARNIVTDKI 76
Cdd:TIGR02952   2 LERAQDREEDAFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERvLRKIDSFKEQKNsfeAW--LFTIARNVVNDYF 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  77 RRYYKQEDFIAYIY---NKVEDSARNTTEDAVHYRELKklhdKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:TIGR02952  80 RGSKRHPLFSLDVFkelLSNEPNPEEAILKEEANEKLL----KALKILTPKQQHVIALRFGQNLPIAEVARILGKTEGAV 155

                         170
                  ....*....|....*
gi 2507793314 154 ECQLLLACKTVRTYL 168
Cdd:TIGR02952 156 KILQFRAIKKLARQM 170
PRK12518 PRK12518
RNA polymerase sigma factor; Provisional
 12-171 7.43e-09

RNA polymerase sigma factor; Provisional


Pssm-ID: 237124 [Multi-domain]  Cd Length: 175  Bit Score: 52.41  E-value: 7.43e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIaIRICHPHEAEDLAQDVFVRLW------EHRAFVnkdTVWslLFTIARNIVTDKIRRYYKQEDF 85
Cdd:PRK12518   13 FRQLYRRYQQKVRSTL-YQLCGRELLDDLVQEVFLRVWkglpklRNPAYF---STW--LYRITWNVATDARRQFAQRPSR 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  86 IAYIYNKVEDSARNTTED--AVHYRELKKlhdKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKT 163
Cdd:PRK12518   87 IQDDSLNDQPSRPSDTPDlmQLHYQDLVQ---QGLQTLSLEHRAVLVLHDLEDLPQKEIAEILNIPVGTVKSRLFYARRQ 163


                  ....*...
gi 2507793314 164 VRTYLQNE 171
Cdd:PRK12518  164 LRKFLQQQ 171
PRK09641 PRK09641
RNA polymerase sigma factor SigW; Provisional
 35-153 1.37e-08

RNA polymerase sigma factor SigW; Provisional


Pssm-ID: 182012 [Multi-domain]  Cd Length: 187  Bit Score: 51.62  E-value: 1.37e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  35 HEAEDLAQDVFVrlwehRAFVNKDT--------VWslLFTIARNIVTDKIRR----YYKQEDFIAY----IYNKVEDSAR 98
Cdd:PRK09641   43 HEAEDAAQEAFI-----RAYVNIDSydinrkfsTW--LYRIATNLTIDRLRKrkpdYYLDAEVAGTegltMYSQLAADDA 115

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2507793314  99 nTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:PRK09641  116 -LPEEQVVSLELQETIQEAILQLPEKYRTVIVLKYIEDLSLKEISEILDLPVGTV 169
PRK09645 PRK09645
ECF RNA polymerase sigma factor SigL;
34-169 1.28e-07

ECF RNA polymerase sigma factor SigL;


Pssm-ID: 236605 [Multi-domain]  Cd Length: 173  Bit Score: 48.92  E-value: 1.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  34 PHEAEDLAQDVFVRLWEHRAFVNKDT----VWslLFTIARNIVTDKIR-RYYKQEDFIAYIYNKVEDSARNTTEDAVHYR 108
Cdd:PRK09645   33 RARAEDVVQETLLRAWQHPEVLADTGrsarAW--LFTVARNLVIDERRsARARPVEGGDDVLGVPEQSAPDEVDRALDRL 110

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2507793314 109 ELKklhdKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQ 169
Cdd:PRK09645  111 LVA----DALAQLSPEHRAVLVRSYYRGWSTAQIAADLGIPEGTVKSRLHYALRALRLALQ 167
PRK12528 PRK12528
RNA polymerase sigma factor; Provisional
 16-160 2.29e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 171561 [Multi-domain]  Cd Length: 161  Bit Score: 47.92  E-value: 2.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  16 YLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIYNKVED 95
Cdd:PRK12528   10 YSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQIIEPRAFLTTIAKRVLCNHYRRQDLERAYLEALAQLPER 89

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2507793314  96 SARNTTEDAVHYRELKKLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLA 160
Cdd:PRK12528   90 VAPSEEERAIILETLVEL-DQLLDGLPPLVKRAFLLAQVDGLGYGEIATELGISLATVKRYLNKA 153
PRK12523 PRK12523
RNA polymerase sigma factor; Reviewed
 1-153 4.17e-07

RNA polymerase sigma factor; Reviewed


Pssm-ID: 183572 [Multi-domain]  Cd Length: 172  Bit Score: 47.54  E-value: 4.17e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314   1 MEKQQTTFDDFFSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLW---------EHRAFvnkdtvwslLFTIARNI 71
Cdd:PRK12523    1 MSSAQSPHSELVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLgrpelptprEPRAF---------LAAVAKGL 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  72 VTDKIRRYYKQEDFIAYIYNKVEDSARNTTEDAVHYRELKKLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPR 151
Cdd:PRK12523   72 MFDHFRRAALEQAYLAELALVPEAEQPSPEEQHLILEDLKAI-DRLLGKLSSKARAAFLYNRLDGMGHAEIAERLGVSVS 150


                  ..
gi 2507793314 152 TV 153
Cdd:PRK12523  151 RV 152
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 26-78 7.13e-07

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: 44.50  E-value: 7.13e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2507793314  26 YIAIRICH-PHEAEDLAQDVFVRLWEHRAFVNKDTVWSL---LFTIARNIVTDKIRR 78
Cdd:pfam04542  11 SLARRYLGdGADAEDLVQEGFLGLWRAIERFDPERGVSFstwLYTIIRNAIIDYLRK 67
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 12-153 7.91e-07

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 46.72  E-value: 7.91e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  12 FSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWehRAF--VNKDT---VWslLFTIARNIVTDKIRR-------- 78
Cdd:PRK09652   12 FALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAY--RALhsFRGGAafyTW--LYRIARNTAINYLRKqgrrppas 87

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2507793314  79 -YYKQEDFIAYIYNKVEDSarNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:PRK09652   88 dVDAEEAEDFDLADALRDI--STPENELLSAELEQRVRAAIESLPEELRTAITLREIEGLSYEEIAEIMGCPIGTV 161
Sigma70_ECF pfam07638
ECF sigma factor; These proteins are probably RNA polymerase sigma factors belonging to the ...
 40-173 2.59e-06

ECF sigma factor; These proteins are probably RNA polymerase sigma factors belonging to the extra-cytoplasmic function (ECF) subfamily and show sequence similarity to pfam04542 and pfam04545.


Pssm-ID: 254323 [Multi-domain]  Cd Length: 185  Bit Score: 45.49  E-value: 2.59e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  40 LAQDVFVRLWEHRAFVN---KDTVWSLLFTIARNIVTDKIRRYYKQE---DFIAYIYNKVEDSARNTTEDavhyrELKKL 113
Cdd:pfam07638  52 LVHEAFVRLVDTEDFPDwsgRGHFFAAAAEAMRRILIDHARRRQRQKrggDVQRRELDEVVDNGDSPNPD-----LLLDL 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2507793314 114 HDKV--VETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLAcktvRTYLQNEFS 173
Cdd:pfam07638 127 DEALeqLFSLSPRQARLVELRFFAGLSNDEIAERLGVSERTVERNWALA----RAWLHRELR 184
Sig-70_gvs1 TIGR02989
RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; This group of sigma ...
 17-161 3.28e-06

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: 44.62  E-value: 3.28e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  17 LKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVNKDT---VWslLFTIARNIVTDKIRRYYKQ-EDFIAYIYNK 92
Cdd:TIGR02989   8 TRHERALRAFVRSLVADRDDVDDVLQETFVVAWRKFDQFDPGTnfvAW--ARGIARNKVLNYRRKLGRDrLVFDDDLLEA 85

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2507793314  93 VEDSARNTTEDAVHyRELKKLHDkVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQL------LLAC 161
Cdd:TIGR02989  86 LAAEAEPTEAERLS-DDRQALEG-CLEKLPERQRELLDLRYQRGQKATALAEQTGRTVNAVYKALqrirvsLREC 158
PRK12514 PRK12514
RNA polymerase sigma factor; Provisional
 36-129 3.46e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 105710 [Multi-domain]  Cd Length: 179  Bit Score: 45.20  E-value: 3.46e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  36 EAEDLAQDVFVRLWeHRA---FVNKDTVWSLLFTIARNIVTDKIRRYYKQEDFIAYIYNkVEDSARNTTEDAVHYRELKK 112
Cdd:PRK12514   45 EAEEALQDVYVKIW-TKAdrfAVSGLSPMTWLITIARNHAIDRLRARKAVAVDIDEAHD-LADPSPGPEAEVIAGDEGQR 122

                          90       100
                  ....*....|....*....|.
gi 2507793314 113 LHDkVVETLPAKR----RRIY 129
Cdd:PRK12514  123 IDA-CLEELEKDRaaavRRAY 142
Sig70_famx1 TIGR02943
RNA polymerase sigma-70 factor, TIGR02943 family; This group of sigma factors are members of ...
 37-173 5.26e-06

RNA polymerase sigma-70 factor, TIGR02943 family; This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.


Pssm-ID: 274359 [Multi-domain]  Cd Length: 188  Bit Score: 44.76  E-value: 5.26e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  37 AEDLAQDVFVRLWEHR-AFVNKDTVWSLLFTIARNIVTDKIrRYYKQEDFIAYIYNKVED-------------------S 96
Cdd:TIGR02943  29 AEDAVQETLLAALSHRdSFAGRSALKTWLFAILKNKIIDAL-RAKGREVKVSDLDDELDDeafnalftqnghwaqhgqpQ 107

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2507793314  97 ARNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQNEFS 173
Cdd:TIGR02943 108 HWNTPEKQLENKEFWEVFEACLYHLPEQTARVFMMREVLGFESDEICQELEISTSNCHVLLYRARLSLRACLSINWF 184
PRK12524 PRK12524
RNA polymerase sigma factor; Provisional
 36-154 5.47e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 183573 [Multi-domain]  Cd Length: 196  Bit Score: 44.50  E-value: 5.47e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  36 EAEDLAQDVFVRLW----EHRAFVNKDTVWslLFTIARNIVTDKIRRYYKQEDFIAYIyNKVEDSARNTTEDAVHYRELK 111
Cdd:PRK12524   52 EAEDVTQEAMLRLWriapDWRQGEARVSTW--LYRVVCNLCTDRLRRRRRASVDLDDA-PEPADAAPGAEEALIEGDRMR 128

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2507793314 112 KLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVE 154
Cdd:PRK12524  129 AL-DAALAALPERQRQAVVLRHIEGLSNPEIAEVMEIGVEAVE 170
PRK05602 PRK05602
RNA polymerase sigma factor; Reviewed
 34-168 8.27e-06

RNA polymerase sigma factor; Reviewed


Pssm-ID: 235530 [Multi-domain]  Cd Length: 186  Bit Score: 43.87  E-value: 8.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  34 PHEAEDLAQDVFVRLWEHRA--------FvnkDTvWslLFTIARNIVTDKIRRyyKQEDFIAYIYNKVEDSArnTTEDAV 105
Cdd:PRK05602   44 PAEAEDVAQETFLRIWKQAPswrpgearF---DT-W--LHRVVLNLCYDRLRR--RREVPVEDAPDVPDPAP--GPDAGL 113

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2507793314 106 HYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:PRK05602  114 EARQRARRVEQALAALPERQREAIVLQYYQGLSNIEAAAVMDISVDALESLLARGRRALRAQL 176
PRK09644 PRK09644
RNA polymerase sigma factor SigM; Provisional
 14-171 8.83e-06

RNA polymerase sigma factor SigM; Provisional


Pssm-ID: 170033 [Multi-domain]  Cd Length: 165  Bit Score: 43.71  E-value: 8.83e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  14 ECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVNKDTVWSLLFTIARNIVTDKIRRyYKQEDFIAyiYNKV 93
Cdd:PRK09644    5 EIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQKVKPWLFKVAYHTFIDFVRK-EKKVSFVG--TDEI 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2507793314  94 EDSARNTTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQNE 171
Cdd:PRK09644   82 EAIQAESTEEYVVAKNSYEKLIQIIHTLPVIEAQAILLCDVHELTYEEAASVLDLKLNTYKSHLFRGRKRLKALLKEE 159
PRK07037 PRK07037
extracytoplasmic-function sigma-70 factor; Validated
 27-153 1.08e-05

extracytoplasmic-function sigma-70 factor; Validated


Pssm-ID: 180803 [Multi-domain]  Cd Length: 163  Bit Score: 43.52  E-value: 1.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  27 IAIRI--ChPHEAEDLAQDVFVRLwehRAFVNKDTV---WSLLFTIARNIVTDKIRRYYKQEDfiayiYNKVEDSARN-- 99
Cdd:PRK07037   14 IAARIvgC-RSRAEDVVQDAFVKL---VEAPNQDAVkqpVAYLFRIVRNLAIDHYRRQALENK-----YHGDEEDGLDvp 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2507793314 100 ----TTEDAVHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:PRK07037   85 speaSPEAALINRDTLRHVADALSELPARTRYAFEMYRLHGETQKDIARELGVSPTLV 142
PRK09637 PRK09637
RNA polymerase sigma factor SigZ; Provisional
 18-149 2.27e-05

RNA polymerase sigma factor SigZ; Provisional


Pssm-ID: 236601 [Multi-domain]  Cd Length: 181  Bit Score: 42.66  E-value: 2.27e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  18 KYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVNKDT-VWSLLFTIARNIVTDKIRRYYKQE----DFIAYIYNK 92
Cdd:PRK09637    9 EYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKDGSsIKSWLYQIANNTIIDFYRKKNRSEelpdDLLFEDEER 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2507793314  93 VEDSArnttedavhyRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLS 149
Cdd:PRK09637   89 EENAK----------KELAPCLRPFIDALPEKYAEALRLTELEGLSQKEIAEKLGLS 135
PRK09651 PRK09651
RNA polymerase sigma factor FecI; Provisional
 1-154 6.78e-05

RNA polymerase sigma factor FecI; Provisional


Pssm-ID: 182018 [Multi-domain]  Cd Length: 172  Bit Score: 41.33  E-value: 6.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314   1 MEKQQTTFDDFFSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWEHRAFVNKDTVWSLLFTIARNIVTDKIRRYY 80
Cdd:PRK09651    1 SDRATTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMVDLFRRNA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2507793314  81 KQEDFIAYIYNKVEDSARNTTEDAVHYRELKKLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVE 154
Cdd:PRK09651   81 LEKAYLEMLALMPEGGAPSPEERESQLETLQLL-DSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSVSSVK 153
PRK09415 PRK09415
RNA polymerase factor sigma C; Reviewed
 35-171 7.53e-05

RNA polymerase factor sigma C; Reviewed


Pssm-ID: 181835 [Multi-domain]  Cd Length: 179  Bit Score: 41.27  E-value: 7.53e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  35 HEAEDLAQDVFVRLWEH-RAFVNKDTVWSLLFTIARNIVTDKIRR-YYKQEDFIAYIYNKVEDSARNTTEDAVHYRELKK 112
Cdd:PRK09415   41 EVAEDLTQEIFVKCYKSlHTYKGKSSLKTWLYRIAINHCKDYLKSwHNKKVIVTEDIFTYMESQKESVEEEVIQNAEDER 120

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2507793314 113 LHDKVVeTLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQNE 171
Cdd:PRK09415  121 LASAVM-SLPIKYREVIYLFYYEELSIKEIAEVTGVNENTVKTRLKKAKELLKKGLEEE 178
PRK12515 PRK12515
RNA polymerase sigma factor; Provisional
 37-169 1.75e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 183567 [Multi-domain]  Cd Length: 189  Bit Score: 40.49  E-value: 1.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  37 AEDLAQDVFVRLWEH-RAFVNKDTVWSLLFTIARNIVTDKIRRyYKQEDFIAYIYNKVEDSArNTTEDAVHYRELKKLHD 115
Cdd:PRK12515   49 AEDLVSEVFLDVWRQaGQFEGRSQVSTWLLSIARFKALSALRR-RKHEEIDDEAAAAIEDGA-DTPEVALQKSDTSAALR 126

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2507793314 116 KVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYLQ 169
Cdd:PRK12515  127 ACLAKLSPAHREIIDLVYYHEKSVEEVGEIVGIPESTVKTRMFYARKKLAELLK 180
PRK12511 PRK12511
RNA polymerase sigma factor; Provisional
 34-78 2.16e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 237123 [Multi-domain]  Cd Length: 182  Bit Score: 40.15  E-value: 2.16e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2507793314  34 PHEAEDLAQDVFVRLWEHRAFVNKDT---VWslLFTIARNIVTDKIRR 78
Cdd:PRK12511   28 SAEAEDLVHDALVRALERRASFRSGGnlrTW--LMSILHNAFIDELRR 73
PRK12525 PRK12525
RNA polymerase sigma factor; Provisional
 34-149 2.40e-04

RNA polymerase sigma factor; Provisional


Pssm-ID: 139037 [Multi-domain]  Cd Length: 168  Bit Score: 39.54  E-value: 2.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  34 PHEAEDLAQDVFVRLW---------EHRAFvnkdtvwslLFTIARNIVTDKIRRYYKQEDFIAYIYNKVEDSARNTTEDA 104
Cdd:PRK12525   33 PHSAEDIASETFLQVLalpdpasirEPRAL---------LTTIARRLMYEGWRRQDLERAYLQSLAEAPEAVQPSPEEQW 103

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2507793314 105 VHYRELKKLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLS 149
Cdd:PRK12525  104 MVIETLLAI-DRLLDGLSGKARAAFLMSQLEGLTYVEIGERLGVS 147
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 115-162 4.91e-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.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 36.67  E-value: 4.91e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2507793314 115 DKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACK 162
Cdd:pfam08281   5 LRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARK 52
SigE-fam_strep TIGR02983
RNA polymerase sigma-70 factor, sigma-E family; This group of similar sigma-70 factors ...
 34-168 9.95e-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: 37.75  E-value: 9.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  34 PHEAEDLAQDVFVRLWEHRAFVNKDT-----VWSLLFTIARNIVTDKIRRYYKQEDFIAyiyNKVEDSARNTTEDAVHYR 108
Cdd:TIGR02983  30 PHEAEDLVQEALVRTYVRWDRIRDPDapdayVRRVLVNLARSRWRRRRLLELPTRELPD---AAAPDPAPDVALRAALAR 106

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314 109 ELKKlhdkvvetLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVRTYL 168
Cdd:TIGR02983 107 ALRR--------LPARQRAVVVLRYYEDLSEAQVAEALGISVGTVKSRLSRALARLRELL 158
PRK08241 PRK08241
RNA polymerase subunit sigma-70;
35-78 1.37e-03

RNA polymerase subunit sigma-70;


Pssm-ID: 236196 [Multi-domain]  Cd Length: 339  Bit Score: 38.38  E-value: 1.37e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2507793314  35 HEAEDLAQDVFVRLWEHRA-FVNKDTVWSLLFTIARNIVTDKIRR 78
Cdd:PRK08241   44 HDAEDAVQETLLRAWRGYDrFEGRSSLRTWLYRIATNVCLDALEG 88
PRK09639 PRK09639
RNA polymerase sigma factor SigX; Provisional
 9-78 2.59e-03

RNA polymerase sigma factor SigX; Provisional


Pssm-ID: 236602 [Multi-domain]  Cd Length: 166  Bit Score: 36.85  E-value: 2.59e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314   9 DDFFSECYLKYREYIKNYIAIRICHPHEAEDLAQDVFVRLWeHRAFVNKDTVWSLLFTIARNIVTDKIRR 78
Cdd:PRK09639    2 DETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLY-RSDFKGIENEKGWLIKSARNVAYNYLRS 70
PRK12517 PRK12517
RNA polymerase sigma factor; Provisional
 31-160 5.71e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 183569 [Multi-domain]  Cd Length: 188  Bit Score: 35.82  E-value: 5.71e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  31 ICH-PHEAEDLAQDVFVRLWehRAFVN-KD--TVWSLLFTIARNivtDKIRRY-YKQEDFIAYIYNKVEDSARNTTEDAV 105
Cdd:PRK12517   43 LCKdKHIAEDLVQETFLRAW--RSLDSlKDekAAKAWLITILRR---ENARRFeRKQFDLVDIEDDSIEDDASHSSEEEM 117

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2507793314 106 HYRELKKLHDKvvetLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLA 160
Cdd:PRK12517  118 EQEWLRRQIAK----LDPEYREPLLLQVIGGFSGEEIAEILDLNKNTVMTRLFRA 168
PRK12527 PRK12527
RNA polymerase sigma factor; Reviewed
 19-165 6.73e-03

RNA polymerase sigma factor; Reviewed


Pssm-ID: 171560 [Multi-domain]  Cd Length: 159  Bit Score: 35.52  E-value: 6.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  19 YREYIKnYIAIRICHPHEAEDLAQDVFVRLWEH---------RAFvnkdtvwslLFTIARNIVTDKIRRY-YKQEDFIAY 88
Cdd:PRK12527    5 YRELVR-FLSARLGNRQAAEDVAHDAYLRVLERsssaqiehpRAF---------LYRTALNLVVDRHRRHrVRQAEPLEV 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2507793314  89 IYNKVEDSARNTTEDAVHYRELKKLhDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTVECQLLLACKTVR 165
Cdd:PRK12527   75 LDEEERLHSPSPQTRLDLGQRLALL-QRALAELPPACRDSFLLRKLEGLSHQQIAEHLGISRSLVEKHIVNAMKHCR 150
PRK11922 PRK11922
RNA polymerase sigma factor; Provisional
 36-153 6.76e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237024 [Multi-domain]  Cd Length: 231  Bit Score: 35.71  E-value: 6.76e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2507793314  36 EAEDLAQDVFVRLWEHRAFVNKD---TVWslLFTIARNIVTDKIRRYYKQEDF--------IAYIYNKVEDSARNTTEDA 104
Cdd:PRK11922   56 EAEDVVQEAYLRAFRALGTFRGDaslSTW--LSRIVLNEALGRLRRRRRLVNLaemvmastIAGGERTPLADPAEDPERA 133

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2507793314 105 VHYRELKKLHDKVVETLPAKRRRIYELSFNNELSCPAIAGKLSLSPRTV 153
Cdd:PRK11922  134 AARREIRALLERAIDALPDAFRAVFVLRVVEELSVEETAQALGLPEETV 182
 
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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