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Conserved domains on  [gi|446360463|ref|WP_000438318|]
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MULTISPECIES: RNA polymerase sigma factor [Bacillus]

Protein Classification

RNA polymerase sigma factor( domain architecture ID 11446377)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 6-171 1.03e-46

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


:

Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 150.92  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   6 IEKCNHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFK 85
Cdd:COG1595   11 LRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRR 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  86 RISLIGFFSD-DKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG1595   91 RELLDELAEElPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKK 170


                 ....*..
gi 446360463 165 VSKLIGE 171
Cdd:COG1595  171 LREALEE 177
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 6-171 1.03e-46

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 150.92  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   6 IEKCNHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFK 85
Cdd:COG1595   11 LRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRR 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  86 RISLIGFFSD-DKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG1595   91 RELLDELAEElPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKK 170


                 ....*..
gi 446360463 165 VSKLIGE 171
Cdd:COG1595  171 LREALEE 177
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 12-169 5.91e-41

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: 135.17  E-value: 5.91e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   12 DELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIG 91
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463   92 FFSDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:TIGR02937  81 LEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRELL 158
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 33-171 1.75e-34

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 119.53  E-value: 1.75e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  33 TKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYL-------KSSYFKRISLIGFFSDD--KQSQSAE 103
Cdd:PRK09652  31 TRDPADAEDLVQETFIKAYRALHSFRGGAAFYTWLYRIARNTAINYLrkqgrrpPASDVDAEEAEDFDLADalRDISTPE 110

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446360463 104 QEFFKQEEMNDVWKVVLKLPKKHREIIILdAKYE-LSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK09652 111 NELLSAELEQRVRAAIESLPEELRTAITL-REIEgLSYEEIAEIMGCPIGTVRSRIFRAREALRAKLQP 178
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 115-165 1.29e-12

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 59.39  E-value: 1.29e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446360463  115 VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:pfam08281   4 LLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
Sigma70_r4 cd06171
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ...
 117-165 2.17e-11

Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP).


Pssm-ID: 100119 [Multi-domain]  Cd Length: 55  Bit Score: 56.34  E-value: 2.17e-11
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 446360463 117 KVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:cd06171    6 EALDKLPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 127-164 4.75e-04

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 36.74  E-value: 4.75e-04
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 446360463   127 REIIILDAKYE-LSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:smart00421   7 REREVLRLLAEgLTNKEIAERLGISEKTVKTHLSNIMRK 45
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 6-171 1.03e-46

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 150.92  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   6 IEKCNHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFK 85
Cdd:COG1595   11 LRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGRGSFRAWLYRIARNLAIDHLRKRRRR 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  86 RISLIGFFSD-DKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG1595   91 RELLDELAEElPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKK 170


                 ....*..
gi 446360463 165 VSKLIGE 171
Cdd:COG1595  171 LREALEE 177
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 12-169 5.91e-41

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: 135.17  E-value: 5.91e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   12 DELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIG 91
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEGSFKAWLFRIARNLILDYLRRKRRLRRELDL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463   92 FFSDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:TIGR02937  81 LEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKKLRELL 158
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 33-171 1.75e-34

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 119.53  E-value: 1.75e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  33 TKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYL-------KSSYFKRISLIGFFSDD--KQSQSAE 103
Cdd:PRK09652  31 TRDPADAEDLVQETFIKAYRALHSFRGGAAFYTWLYRIARNTAINYLrkqgrrpPASDVDAEEAEDFDLADalRDISTPE 110

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446360463 104 QEFFKQEEMNDVWKVVLKLPKKHREIIILdAKYE-LSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK09652 111 NELLSAELEQRVRAAIESLPEELRTAITL-REIEgLSYEEIAEIMGCPIGTVRSRIFRAREALRAKLQP 178
PRK09415 PRK09415
RNA polymerase factor sigma C; Reviewed
 14-172 1.55e-32

RNA polymerase factor sigma C; Reviewed


Pssm-ID: 181835 [Multi-domain]  Cd Length: 179  Bit Score: 114.46  E-value: 1.55e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  14 LDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRIsligFF 93
Cdd:PRK09415  18 IDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGKSSLKTWLYRIAINHCKDYLKSWHNKKV----IV 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  94 SDDK------QSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:PRK09415  94 TEDIftymesQKESVEEEVIQNAEDERLASAVMSLPIKYREVIYLFYYEELSIKEIAEVTGVNENTVKTRLKKAKELLKK 173


                 ....*
gi 446360463 168 LIGEG 172
Cdd:PRK09415 174 GLEEE 178
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 10-175 3.21e-32

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 113.53  E-value: 3.21e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  10 NHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSsyfKRISL 89
Cdd:PRK11924  11 DKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFNGKGSARTWLLTIARNVCYDLLRR---RRREK 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  90 IGFFSDDKQSQSA------EQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARS 163
Cdd:PRK11924  88 AVLSDDALEPEFAetaetpEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILGVPVGTVKSRLRRARQ 167

                        170
                 ....*....|..
gi 446360463 164 KVsKLIGEGSSD 175
Cdd:PRK11924 168 LL-RECLEAQWE 178
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 19-167 3.85e-27

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: 99.94  E-value: 3.85e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   19 KDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKR---ISLIGFFSD 95
Cdd:TIGR02985   8 RRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWENRETLEISESIKAYLFTIVKNRCLNYLRHKQVEEkyqEELAEIEER 87

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446360463   96 DKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:TIGR02985  88 ELSEADPEEELEAKELEEIIEEAIEKLPEQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKFLRK 159
PRK09639 PRK09639
RNA polymerase sigma factor SigX; Provisional
 11-168 4.43e-26

RNA polymerase sigma factor SigX; Provisional


Pssm-ID: 236602 [Multi-domain]  Cd Length: 166  Bit Score: 97.33  E-value: 4.43e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  11 HDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKnwNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLI 90
Cdd:PRK09639   2 DETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYR--SDFKGIENEKGWLIKSARNVAYNYLRSEKRRRARIL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  91 GFF--SDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILdaKYE-LSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:PRK09639  80 GEFqwQEVDNEPSPEEIWIRKEEITKVQEVLAKMTERDRTVLLL--RFSgYSYKEIAEALGIKESSVGTTLARAKKKFRK 157


                 .
gi 446360463 168 L 168
Cdd:PRK09639 158 I 158
SigM_subfam TIGR02950
RNA polymerase sigma factor, SigM family; This family of RNA polymerase sigma factors is a ...
 21-169 3.98e-25

RNA polymerase sigma factor, SigM family; This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot:


Pssm-ID: 274361 [Multi-domain]  Cd Length: 154  Bit Score: 94.83  E-value: 3.98e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   21 YWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFrKESSIKTWILKITRNTAINYLKSSYFKRISLIGFFSDDKQS- 99
Cdd:TIGR02950   4 YMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSF-KDSSIKPWLFRIARNAFIDWYRKDKKIQTIDDDAIGDLEQHp 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446360463  100 -QSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:TIGR02950  83 vESPEHHLLIKIEQEEITHHLSRLPENYRTVLILREFKEFSYKEIAELLNLSLAKVKSNLFRARKELKKLL 153
PRK09638 PRK09638
RNA polymerase sigma factor SigY; Reviewed
 27-167 8.39e-24

RNA polymerase sigma factor SigY; Reviewed


Pssm-ID: 182010 [Multi-domain]  Cd Length: 176  Bit Score: 92.00  E-value: 8.39e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  27 NYSFI------ITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSyfKRISLI-GFFSDDKQS 99
Cdd:PRK09638  27 HYSFLykyllkLTLDPDLAEDLVQETMLKAIENLSSFQGRSKFSTWLISIASRLYKDHLRKQ--KREKLRlQRAKEETLR 104

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 100 QSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:PRK09638 105 KEKWEAAIKGAEWSEMLDALSKLDPEFRAPVILKHYYGYTYEEIAKMLNIPEGTVKSRVHHGIKQLRK 172
PRK12546 PRK12546
RNA polymerase sigma factor; Provisional
 32-170 6.23e-21

RNA polymerase sigma factor; Provisional


Pssm-ID: 139055 [Multi-domain]  Cd Length: 188  Bit Score: 84.89  E-value: 6.23e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  32 ITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTainyLKSSYFKRISLIgffsDDKQSQSAEQEFFKQE- 110
Cdd:PRK12546  27 LTRNVAVADDLVQDTIVKAWTNFDKFQEGTNLRAWLFTILRNT----FYSDRRKHKREV----PDPEGVHAASLAVKPAh 98

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446360463 111 ----EMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK12546  99 dgrlAMSDFRAAFAQLPDEQREALILVGASGFSYEEAAEMCGVAVGTVKSRANRARARLAELLQ 162
SigE-fam_strep TIGR02983
RNA polymerase sigma-70 factor, sigma-E family; This group of similar sigma-70 factors ...
 33-172 8.96e-21

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: 83.59  E-value: 8.96e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   33 TKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAInylksSYFKRISLIGFFSDDKQSQSAEQEFFKQEEM 112
Cdd:TIGR02983  27 TGDPHEAEDLVQEALVRTYVRWDRIRDPDAPDAYVRRVLVNLAR-----SRWRRRRLLELPTRELPDAAAPDPAPDVALR 101

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  113 NDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGEG 172
Cdd:TIGR02983 102 AALARALRRLPARQRAVVVLRYYEDLSEAQVAEALGISVGTVKSRLSRALARLRELLEEP 161
PRK12540 PRK12540
RNA polymerase sigma factor; Provisional
 39-175 3.56e-19

RNA polymerase sigma factor; Provisional


Pssm-ID: 183579 [Multi-domain]  Cd Length: 182  Bit Score: 80.01  E-value: 3.56e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNtainYLKSSYFKRISLI----GFFSDDKQSQSAEQEFFKQEEMND 114
Cdd:PRK12540  32 ADDLVQETLLRALANIDSFQPGSNLPAWLFTILRN----LFRSDYRKRRREVedadGSYAKTLKSQPGQNAHLEFEEFRA 107

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446360463 115 VWKvvlKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG-EGSSD 175
Cdd:PRK12540 108 ALD---KLPQDQREALILVGASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYvDGAED 166
PRK09641 PRK09641
RNA polymerase sigma factor SigW; Provisional
 6-170 6.99e-19

RNA polymerase sigma factor SigW; Provisional


Pssm-ID: 182012 [Multi-domain]  Cd Length: 187  Bit Score: 79.35  E-value: 6.99e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   6 IEKCNHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYL---KSS 82
Cdd:PRK09641  12 VKKGDQNAFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINRKFSTWLYRIATNLTIDRLrkrKPD 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  83 YFKRISLIGFFSDDKQSQSA------EQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKS 156
Cdd:PRK09641  92 YYLDAEVAGTEGLTMYSQLAaddalpEEQVVSLELQETIQEAILQLPEKYRTVIVLKYIEDLSLKEISEILDLPVGTVKT 171

                        170
                 ....*....|....
gi 446360463 157 RLSRARSKVSKLIG 170
Cdd:PRK09641 172 RIHRGREALRKQLR 185
PRK09637 PRK09637
RNA polymerase sigma factor SigZ; Provisional
 29-169 9.04e-19

RNA polymerase sigma factor SigZ; Provisional


Pssm-ID: 236601 [Multi-domain]  Cd Length: 181  Bit Score: 78.87  E-value: 9.04e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  29 SFIITK--DPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYlkssYFKRISLIGFFSDDKQSQSAEQEF 106
Cdd:PRK09637  16 AFLHSRvsNEADVDDLLQEVLIKTHSNLHSLKDGSSIKSWLYQIANNTIIDF----YRKKNRSEELPDDLLFEDEEREEN 91

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446360463 107 FKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:PRK09637  92 AKKELAPCLRPFIDALPEKYAEALRLTELEGLSQKEIAEKLGLSLSGAKSRVQRGRVKLKELL 154
PRK09644 PRK09644
RNA polymerase sigma factor SigM; Provisional
 13-174 1.99e-18

RNA polymerase sigma factor SigM; Provisional


Pssm-ID: 170033 [Multi-domain]  Cd Length: 165  Bit Score: 77.61  E-value: 1.99e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  13 ELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFrKESSIKTWILKITRNTAINYLKSSyfKRISLIGF 92
Cdd:PRK09644   2 EIEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDY-DNQKVKPWLFKVAYHTFIDFVRKE--KKVSFVGT 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  93 FSDDKQSQSAEQEFFKQEEMNDVWKVVL-KLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK09644  79 DEIEAIQAESTEEYVVAKNSYEKLIQIIhTLPVIEAQAILLCDVHELTYEEAASVLDLKLNTYKSHLFRGRKRLKALLKE 158


                 ...
gi 446360463 172 GSS 174
Cdd:PRK09644 159 EKS 161
PRK12516 PRK12516
RNA polymerase sigma factor; Provisional
 37-175 2.00e-18

RNA polymerase sigma factor; Provisional


Pssm-ID: 183568 [Multi-domain]  Cd Length: 187  Bit Score: 78.08  E-value: 2.00e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  37 HLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFFSddkQSQSAEQEFFKQEEMNDVW 116
Cdd:PRK12516  35 DRADDLVQDTIMKAWAKQDHFEVGTNMKAWLFTILRNEFYSQMRKRGREVQDTDGMFT---EQLAVHPSQYGTLDLQDFR 111

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463 117 KVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG-EGSSD 175
Cdd:PRK12516 112 AALDQLPDDQREAIILVGASGFAYEEAAEICGCAVGTIKSRVNRARQRLQEILQiEGEAD 171
PRK12518 PRK12518
RNA polymerase sigma factor; Provisional
 35-167 2.02e-18

RNA polymerase sigma factor; Provisional


Pssm-ID: 237124 [Multi-domain]  Cd Length: 175  Bit Score: 77.84  E-value: 2.02e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  35 DPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYlKSSYFKRISLIGFFSDDKQSQSAEQE-FFKQEEMN 113
Cdd:PRK12518  33 GRELLDDLVQEVFLRVWKGLPKLRNPAYFSTWLYRITWNVATDA-RRQFAQRPSRIQDDSLNDQPSRPSDTpDLMQLHYQ 111

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446360463 114 DVWKVVLK-LPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:PRK12518 112 DLVQQGLQtLSLEHRAVLVLHDLEDLPQKEIAEILNIPVGTVKSRLFYARRQLRK 166
algU PRK11923
RNA polymerase sigma factor AlgU; Provisional
 34-169 5.17e-18

RNA polymerase sigma factor AlgU; Provisional


Pssm-ID: 171347 [Multi-domain]  Cd Length: 193  Bit Score: 77.15  E-value: 5.17e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  34 KDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFK------RISLIGFFSDD---KQSQSAEQ 104
Cdd:PRK11923  42 HDTAEAQDVAQEAFIKAYRALGNFRGDSAFYTWLYRIAINTAKNHLVSRGRRppdsdvSSEDAEFYDGDhalKDIESPER 121

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446360463 105 EFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:PRK11923 122 ALLRDEIEGTVHRTIQQLPEDLRTALTLREFDGLSYEDIASVMQCPVGTVRSRIFRAREAIDKAL 186
PRK12515 PRK12515
RNA polymerase sigma factor; Provisional
 28-169 9.14e-18

RNA polymerase sigma factor; Provisional


Pssm-ID: 183567 [Multi-domain]  Cd Length: 189  Bit Score: 76.31  E-value: 9.14e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  28 YSFI--ITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFFSDDKQSQSAEQE 105
Cdd:PRK12515  36 YRFGlrLVRDEQTAEDLVSEVFLDVWRQAGQFEGRSQVSTWLLSIARFKALSALRRRKHEEIDDEAAAAIEDGADTPEVA 115

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446360463 106 FFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:PRK12515 116 LQKSDTSAALRACLAKLSPAHREIIDLVYYHEKSVEEVGEIVGIPESTVKTRMFYARKKLAELL 179
PRK12522 PRK12522
RNA polymerase sigma factor; Provisional
 12-162 5.19e-17

RNA polymerase sigma factor; Provisional


Pssm-ID: 183571 [Multi-domain]  Cd Length: 173  Bit Score: 74.14  E-value: 5.19e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  12 DELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAIN-YLKSSYFKRISLI 90
Cdd:PRK12522   3 EKVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVENYKKWITTICVRTFYDfYRKKKRWKDRILD 82

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463  91 GFFSDDK------QSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRAR 162
Cdd:PRK12522  83 LFHKEDGgeiefaDDVNISEEFIQKVEAEMIREVIQLLNEKYKTVLVLYYYEQYSYKEMSEILNIPIGTVKYRLNYAK 160
PRK12547 PRK12547
RNA polymerase sigma factor; Provisional
 39-170 7.31e-17

RNA polymerase sigma factor; Provisional


Pssm-ID: 139056 [Multi-domain]  Cd Length: 164  Bit Score: 73.37  E-value: 7.31e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFFSddkQSQSAEQEFFKQEEMNDVWKV 118
Cdd:PRK12547  33 AEDLVQDTLMKAWAKQDSFEMGTNLKAWLFTILRNEFYSQMRKRGREVQDSDGVFT---ARVAVHPAQYGSLDLQDFKKA 109

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446360463 119 VLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK12547 110 LNLLSADQREAIILIGASGFSYEDAAAICGCAVGTIKSRVSRARNRLQELLK 161
PRK12513 PRK12513
RNA polymerase sigma factor; Provisional
 28-171 1.04e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 183566 [Multi-domain]  Cd Length: 194  Bit Score: 73.96  E-value: 1.04e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  28 YSFII--TKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISligffSDDK-------- 97
Cdd:PRK12513  40 YRFLLrlARDRALAEDIFQETWLRVIRARAQYQPRARFRTWLYQIARNLLIDHWRRHGARQAP-----SLDAdeqlhala 114

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446360463  98 -QSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK12513 115 dDGAAPEQQLSLFRDRRRLQAALETLPDEQREVFLLREHGDLELEEIAELTGVPEETVKSRLRYALQKLRELLAE 189
PRK12511 PRK12511
RNA polymerase sigma factor; Provisional
 28-163 1.18e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 237123 [Multi-domain]  Cd Length: 182  Bit Score: 73.28  E-value: 1.18e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  28 YSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKS--SYFKRISLIGFFSDDkqSQSAEQE 105
Cdd:PRK12511  20 YARSLTRDSAEAEDLVHDALVRALERRASFRSGGNLRTWLMSILHNAFIDELRRrrVEARRADELAVLADA--SLPAAQE 97

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 106 ffKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARS 163
Cdd:PRK12511  98 --HAVRLAQIRDAFFDLPEEQRAALHLVAIEGLSYQEAAAVLGIPIGTLMSRIGRARA 153
PRK12541 PRK12541
RNA polymerase sigma factor; Provisional
 14-168 1.70e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 183580 [Multi-domain]  Cd Length: 161  Bit Score: 72.66  E-value: 1.70e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  14 LDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESsIKTWILKITRNTAIN-YLKSSYFKRISLIGF 92
Cdd:PRK12541   7 LEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGEE-IRPWLFTIAYNAFIDwYRKEKKYKTTTIEEF 85

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446360463  93 FSDDKQSqsAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKL 168
Cdd:PRK12541  86 HLPNVPS--TEHEYFIKHEIASWLDSLSSLPLERRNVLLLRDYYGFSYKEIAEMTGLSLAKVKIELHRGRKETKSI 159
PRK11922 PRK11922
RNA polymerase sigma factor; Provisional
 41-175 3.98e-16

RNA polymerase sigma factor; Provisional


Pssm-ID: 237024 [Multi-domain]  Cd Length: 231  Bit Score: 73.07  E-value: 3.98e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  41 DITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKssyfKRISLIGFFSDDKQSQSAEQEFFKQEEMND------ 114
Cdd:PRK11922  59 DVVQEAYLRAFRALGTFRGDASLSTWLSRIVLNEALGRLR----RRRRLVNLAEMVMASTIAGGERTPLADPAEdperaa 134

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446360463 115 --------VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARS----KVSKLIGEGSSD 175
Cdd:PRK11922 135 arreiralLERAIDALPDAFRAVFVLRVVEELSVEETAQALGLPEETVKTRLHRARRllreSLAREIGPALLD 207
PRK09649 PRK09649
RNA polymerase sigma factor SigC; Reviewed
 14-162 1.86e-15

RNA polymerase sigma factor SigC; Reviewed


Pssm-ID: 137458 [Multi-domain]  Cd Length: 185  Bit Score: 70.45  E-value: 1.86e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  14 LDDVIKDYWQDVWNYSFIITkDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFF 93
Cdd:PRK09649  26 LEAFIKATQQDVWRFVAYLS-DVGSADDLTQETFLRAIGAIPRFSARSSARTWLLAIARHVVADHIRHVRSRPRTTRGAR 104

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446360463  94 SDDKQSQSAEQEFFkqEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRAR 162
Cdd:PRK09649 105 PEHLIDGDRHARGF--EDLVEVTTMIADLTTDQREALLLTQLLGLSYADAAAVCGCPVGTIRSRVARAR 171
PRK12517 PRK12517
RNA polymerase sigma factor; Provisional
 15-169 2.08e-15

RNA polymerase sigma factor; Provisional


Pssm-ID: 183569 [Multi-domain]  Cd Length: 188  Bit Score: 70.10  E-value: 2.08e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  15 DDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFFS 94
Cdd:PRK12517  26 EALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDEKAAKAWLITILRRENARRFERKQFDLVDIEDDSI 105

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446360463  95 DDKQSQSAEqeffkqEEMNDVW--KVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:PRK12517 106 EDDASHSSE------EEMEQEWlrRQIAKLDPEYREPLLLQVIGGFSGEEIAEILDLNKNTVMTRLFRARNQLKEAL 176
PRK12535 PRK12535
RNA polymerase sigma factor; Provisional
 14-174 3.43e-15

RNA polymerase sigma factor; Provisional


Pssm-ID: 237130 [Multi-domain]  Cd Length: 196  Bit Score: 69.93  E-value: 3.43e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  14 LDDVIKDYWQDVWNYsFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLIGFF 93
Cdd:PRK12535  27 LTEFIRETQDDVWRL-LAHLGGHDIADDLTQETYLRVMSALPRFAARSSARTWLLSLARRVWVDNIRHDMARPRKSATEY 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  94 SDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGEGS 173
Cdd:PRK12535 106 EDAAATTASNETTGSWSEWIDVRTLIDALPPERREALILTQVLGYTYEEAAKIADVRVGTIRSRVARARADLIAATATGQ 185


                 .
gi 446360463 174 S 174
Cdd:PRK12535 186 A 186
PRK09647 PRK09647
RNA polymerase sigma factor SigE; Reviewed
 15-163 7.95e-15

RNA polymerase sigma factor SigE; Reviewed


Pssm-ID: 236606 [Multi-domain]  Cd Length: 203  Bit Score: 69.04  E-value: 7.95e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  15 DDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFrKESSIKTWILKITRNTAINYLKssyfkRISLIGF-- 92
Cdd:PRK09647  31 EELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNY-QPGTFEGWLHRITTNLFLDMVR-----RRARIRMea 104

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446360463  93 FSDDKQ-----SQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARS 163
Cdd:PRK09647 105 LPEDYDrvpgdEPNPEQIYHDARLDPDLQAALDSLPPEFRAAVVLCDIEGLSYEEIAATLGVKLGTVRSRIHRGRQ 180
PRK12533 PRK12533
RNA polymerase sigma factor; Provisional
 35-173 3.40e-14

RNA polymerase sigma factor; Provisional


Pssm-ID: 237129 [Multi-domain]  Cd Length: 216  Bit Score: 67.45  E-value: 3.40e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  35 DPHLSDDITQDVFIKVFKNWNSFRKESSiKTWILKITRNT---AINYLKSS----YFKRISLIGFFsDDKQSQSAEQE-- 105
Cdd:PRK12533  41 NASDADDVVQEACMRALRFFDSFRGDNA-RPWLLAIVRHTwysEWRRRANAhevaAPDTLDDADSL-DDWQPAGEDPLal 118

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 106 FFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGEGS 173
Cdd:PRK12533 119 LLRAEDVRLVNAALAKLPVEYREVLVLRELEDMSYREIAAIADVPVGTVMSRLARARRRLAALLGGAS 186
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 25-171 3.63e-13

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 64.31  E-value: 3.63e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  25 VWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYfKRISLIGFFSDDKQSQSAEQ 104
Cdd:PRK12519  42 VYGLALKILGNSQEAEDLTQEIFLSLWRKSSYDPKRGSLSSYLLTLTRSRAIDRLRSRR-SRQRLLERWQQELLGEASED 120

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446360463 105 EFFKQ----EEMNDVWKVVLKLPKKHREIIILdAKYE-LSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK12519 121 TPLEQaslaERSQRVQTALAQLPESQRQVLEL-AYYEgLSQSEIAKRLGIPLGTVKARARQGLLKLRELLQD 191
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 115-165 1.29e-12

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 59.39  E-value: 1.29e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446360463  115 VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:pfam08281   4 LLRALEELPPRQREVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
PRK12543 PRK12543
RNA polymerase sigma factor; Provisional
 23-170 2.44e-12

RNA polymerase sigma factor; Provisional


Pssm-ID: 183582 [Multi-domain]  Cd Length: 179  Bit Score: 62.06  E-value: 2.44e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  23 QDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYfKRISLIgffsDDKQSQSA 102
Cdd:PRK12543  18 QEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNRPFRFWLIGLVIKQIHSWRRKRW-RRFRIF----EKAEEQRK 92

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446360463 103 EQEFFKQEEM------NDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK12543  93 PVSIDFSEDVlskesnQELIELIHKLPYKLRQVIILRYLHDYSQEEIAQLLQIPIGTVKSRIHAALKKLRQKEQ 166
PRK06811 PRK06811
RNA polymerase factor sigma-70; Validated
 37-171 7.64e-12

RNA polymerase factor sigma-70; Validated


Pssm-ID: 180707 [Multi-domain]  Cd Length: 189  Bit Score: 60.72  E-value: 7.64e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  37 HLSDDITQDVFIKVFKNWNSFRKE-SSIKTWILKITRNTAINYLKSSYFKRISLIGFFSDDKQSQSAEQEFFKQEEMNDV 115
Cdd:PRK06811  46 QLIEECVNDIFLSIWNNIDKFDEEkGSFKKWIAAISKYKAIDYKRKLTKNNEIDSIDEFILISEESIENEIILKENKEEI 125

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 116 WKVVLKLPKKHREIIILdaKYELSY--EEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK06811 126 LKLINDLEKLDREIFIR--RYLLGEkiEEIAKKLGLTRSAIDNRLSRGRKKLQKNKLN 181
PRK09640 PRK09640
RNA polymerase sigma factor SigX; Reviewed
 11-161 9.93e-12

RNA polymerase sigma factor SigX; Reviewed


Pssm-ID: 236603 [Multi-domain]  Cd Length: 188  Bit Score: 60.34  E-value: 9.93e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  11 HDEL-------DDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSY 83
Cdd:PRK09640  18 HVELfhvtrayEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGKSKFKTWLYSITYNECITQYRKER 97

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463  84 FKRIsLIGFFSDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK09640  98 RKRR-LMDALSLDPLEEASEEKAPKPEERGGLDRWLVHVNPIDREILVLRFVAELEFQEIADIMHMGLSATKMRYKRA 174
Sigma70_r4 cd06171
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ...
 117-165 2.17e-11

Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP).


Pssm-ID: 100119 [Multi-domain]  Cd Length: 55  Bit Score: 56.34  E-value: 2.17e-11
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 446360463 117 KVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:cd06171    6 EALDKLPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 18-81 3.10e-11

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: 56.44  E-value: 3.10e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446360463   18 IKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFR--KESSIKTWILKITRNTAINYLKS 81
Cdd:pfam04542   2 VERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDpeRGVSFSTWLYTIIRNAIIDYLRK 67
PRK09643 PRK09643
RNA polymerase sigma factor SigM; Reviewed
 26-170 1.73e-10

RNA polymerase sigma factor SigM; Reviewed


Pssm-ID: 236604 [Multi-domain]  Cd Length: 192  Bit Score: 57.03  E-value: 1.73e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  26 WNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISLigfFSDDKQSQSAEQE 105
Cdd:PRK09643  41 WAVARRTSGTREDAADALQDAMLSAHRAAGSFRGDAAVSSWLHRIVVNACLDRLRRAKARPTVP---LDDVYPVAQLERD 117

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446360463 106 FFKQEEMN-DVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK09643 118 PTARVETAlAVQRALMRLPVEQRAALVAVDMQGYSVADAARMLGVAEGTVKSRCARGRARLAELLG 183
PRK12530 PRK12530
RNA polymerase sigma factor; Provisional
 34-162 2.34e-10

RNA polymerase sigma factor; Provisional


Pssm-ID: 237128 [Multi-domain]  Cd Length: 189  Bit Score: 56.70  E-value: 2.34e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  34 KDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKssYFKRISLIGFFSDDK-------QSQSAEQEF 106
Cdd:PRK12530  29 KDADLAEDVVQEALVSAYKNADSFKGQSALKTWIFAILKNKIIDLIR--YRKRFVNESELIEEDspnsffdEKGHWKPEY 106

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446360463 107 FKQEEMNDVWKVVLK-------------LPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRAR 162
Cdd:PRK12530 107 YEPSEWQEVENTVYKeefwlifeaclnhLPAQQARVFMMREYLELSSEQICQECDISTSNLHVLLYRAR 175
PRK09645 PRK09645
ECF RNA polymerase sigma factor SigL;
25-158 5.82e-10

ECF RNA polymerase sigma factor SigL;


Pssm-ID: 236605 [Multi-domain]  Cd Length: 173  Bit Score: 55.47  E-value: 5.82e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  25 VWNYSFIITKDPHLSDDITQDVFIKVFKNWNSF-RKESSIKTWILKITRNTAINYLKSSYFKRISlIGFFSDDKQSQSAE 103
Cdd:PRK09645  22 LWRYALRLTGDRARAEDVVQETLLRAWQHPEVLaDTGRSARAWLFTVARNLVIDERRSARARPVE-GGDDVLGVPEQSAP 100

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446360463 104 QEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRL 158
Cdd:PRK09645 101 DEVDRALDRLLVADALAQLSPEHRAVLVRSYYRGWSTAQIAADLGIPEGTVKSRL 155
PRK12534 PRK12534
RNA polymerase sigma factor; Provisional
 39-165 1.15e-09

RNA polymerase sigma factor; Provisional


Pssm-ID: 183576 [Multi-domain]  Cd Length: 187  Bit Score: 54.68  E-value: 1.15e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKNWNSFRKESSIK-TWILKITRNTAINYLKSSYFKRISLI----GFFSDDKQSQSAEQEFFKQEEMN 113
Cdd:PRK12534  52 AEEVLQDVFTLIWHKAGQFDPSRARGlTWLAMIARNKAIDHLRANAPQRRNVAlddaGELRAADASPLERTERASTRRRI 131

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446360463 114 DVWKVVLKLPkkhREIIILDAKYE-LSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:PRK12534 132 DHCLAELEPP---RSELIRTAFFEgITYEELAARTDTPIGTVKSWIRRGLAKL 181
Sig-70_gvs1 TIGR02989
RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; This group of sigma ...
 32-166 1.50e-09

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: 53.86  E-value: 1.50e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463   32 ITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSsyfKRISLIGFFSDDKQSQSAEQEFFKQEE 111
Cdd:TIGR02989  21 LVADRDDVDDVLQETFVVAWRKFDQFDPGTNFVAWARGIARNKVLNYRRK---LGRDRLVFDDDLLEALAAEAEPTEAER 97

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446360463  112 MNDVWKVVL----KLPKKHREiiILDAKYE--LSYEEMAETLGVSIGTVKSRLSRARSKVS 166
Cdd:TIGR02989  98 LSDDRQALEgcleKLPERQRE--LLDLRYQrgQKATALAEQTGRTVNAVYKALQRIRVSLR 156
PRK12542 PRK12542
RNA polymerase sigma factor; Provisional
 10-176 1.67e-09

RNA polymerase sigma factor; Provisional


Pssm-ID: 183581 [Multi-domain]  Cd Length: 185  Bit Score: 54.29  E-value: 1.67e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  10 NHDELDDVIKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESS--IKTWILKITRNTAINYLKSSYFKRI 87
Cdd:PRK12542   7 DYEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTqeLKRYILRVAKNKAIDSYRKNKRHET 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  88 SLIGFFSDDKQSQSAEQEFFKQEEMNDVW--KVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:PRK12542  87 FLEEYERESIEAVDENIEEWEKRKMSEVQidTLLKELNESNRQVFKYKVFYNLTYQEISSVMGITEANVRKQFERARKRV 166

                        170
                 ....*....|.
gi 446360463 166 SKLIGEGSSDE 176
Cdd:PRK12542 167 QNMIGGIQHDE 177
PRK05602 PRK05602
RNA polymerase sigma factor; Reviewed
 35-171 4.56e-09

RNA polymerase sigma factor; Reviewed


Pssm-ID: 235530 [Multi-domain]  Cd Length: 186  Bit Score: 53.12  E-value: 4.56e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  35 DPHLSDDITQDVFIKVFKNWNSFR-KESSIKTWILKITRNTAINYLKSsyfKRISLIGFFSDDKQSQSAEQEFFKQEEMN 113
Cdd:PRK05602  43 DPAEAEDVAQETFLRIWKQAPSWRpGEARFDTWLHRVVLNLCYDRLRR---RREVPVEDAPDVPDPAPGPDAGLEARQRA 119

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446360463 114 D-VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK05602 120 RrVEQALAALPERQREAIVLQYYQGLSNIEAAAVMDISVDALESLLARGRRALRAQLAD 178
PRK09646 PRK09646
ECF RNA polymerase sigma factor SigK;
34-158 1.47e-08

ECF RNA polymerase sigma factor SigK;


Pssm-ID: 182015 [Multi-domain]  Cd Length: 194  Bit Score: 51.98  E-value: 1.47e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  34 KDPHLSDDITQDVFIKVFKNWNSFR-KESSIKTWILKITRNTAINYLKS--SYFKRISLIGFFSDDKQSQSAEQEFFKQE 110
Cdd:PRK09646  52 RDPGYSEETTQEVYLEVWRTASRFDpARGSALAWLLTLAHRRAVDRVRSeqAASQREVRYGARNVDPAFDQVAEEVEARL 131

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446360463 111 EMNDVWKVVLKLPKKHREIIILdAKYE-LSYEEMAETLGVSIGTVKSRL 158
Cdd:PRK09646 132 ERERVRDCLDALTDTQRESVTL-AYYGgLTYREVAERLAVPLGTVKTRM 179
Sigma70_r4 pfam04545
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 121-167 1.54e-08

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.


Pssm-ID: 461347 [Multi-domain]  Cd Length: 50  Bit Score: 48.58  E-value: 1.54e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 446360463  121 KLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:pfam04545   4 SLPPRERQVLVLRYGEGLTLEEIGERLGISRERVRQIEKRALRKLRK 50
PRK12544 PRK12544
RNA polymerase factor sigma-70;
18-162 1.57e-08

RNA polymerase factor sigma-70;


Pssm-ID: 183583 [Multi-domain]  Cd Length: 206  Bit Score: 52.11  E-value: 1.57e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  18 IKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYfKRISLIGFFSDDK 97
Cdd:PRK12544  24 LEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGRAAFKTWVFAILKNKIIDLLRQKK-RHVSASSLLRDEE 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  98 QSQSAEQEFFKQ---------------EEM---NDVWKV----VLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVK 155
Cdd:PRK12544 103 EEEDFEELFDESghwqkderpqawgnpEESleqEQFWRIfeacLDGLPAKYARVFMMREFIELETNEICHAVDLSVSNLN 182


                 ....*..
gi 446360463 156 SRLSRAR 162
Cdd:PRK12544 183 VLLYRAR 189
PRK12537 PRK12537
RNA polymerase sigma factor; Provisional
 32-161 2.81e-08

RNA polymerase sigma factor; Provisional


Pssm-ID: 171568 [Multi-domain]  Cd Length: 182  Bit Score: 50.93  E-value: 2.81e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  32 ITKDPHLSDDITQDVFIKVFKNWNSFR-KESSIKTWILKITRNTAINYLKSSYfKRISLigffsDDKQSQSAEQeffkQE 110
Cdd:PRK12537  43 IVRDRALAEDIVHDAFIKIWTGAASFDpARGSARGWIYSVTRHLALNVLRDTR-REVVL-----DDDAEETAQT----LH 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446360463 111 EMNDVWKVVLKLPKKHREIIILDAKYEL----------SYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK12537 113 EIIDDFDLWANSGKIHRCLEQLEPARRNcilhayvdgcSHAEIAQRLGAPLGTVKAWIKRS 173
PRK12514 PRK12514
RNA polymerase sigma factor; Provisional
 32-161 8.17e-08

RNA polymerase sigma factor; Provisional


Pssm-ID: 105710 [Multi-domain]  Cd Length: 179  Bit Score: 49.43  E-value: 8.17e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  32 ITKDPHLSDDITQDVFIKVFKNWNSFR-KESSIKTWILKITRNTAINYLKSSYFKRISL--IGFFSDDkqSQSAEQEFFK 108
Cdd:PRK12514  39 VLKDRSEAEEALQDVYVKIWTKADRFAvSGLSPMTWLITIARNHAIDRLRARKAVAVDIdeAHDLADP--SPGPEAEVIA 116

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446360463 109 QEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK12514 117 GDEGQRIDACLEELEKDRAAAVRRAYLEGLSYKELAERHDVPLNTMRTWLRRS 169
PRK13919 PRK13919
putative RNA polymerase sigma E protein; Provisional
 35-171 1.09e-07

putative RNA polymerase sigma E protein; Provisional


Pssm-ID: 184395 [Multi-domain]  Cd Length: 186  Bit Score: 49.53  E-value: 1.09e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  35 DPHLSDDITQDVFIKVFKNWNSFR-KESSIKTWILKITRNTAINYLKSSYFKRISLigffsddkQSQSAEQEFF------ 107
Cdd:PRK13919  46 DGAAAEDVVQEVFIRVWKKAKEFDpRRGSARAWLLALAHHAAVDHVRRRAARPQPL--------EPDEREPEAFdlpgpg 117

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 108 -KQEEMND---VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK13919 118 lDEEGHLDrtrLGRALKALSPEERRVIEVLYYQGYTHREAAQLLGLPLGTLKTRARRALSRLKEVLRE 185
PRK12526 PRK12526
RNA polymerase sigma factor; Provisional
 65-171 1.34e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 237127 [Multi-domain]  Cd Length: 206  Bit Score: 49.41  E-value: 1.34e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  65 TWILKITRNTAINYLKSSYFKRISLIGffsDD--------KQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKY 136
Cdd:PRK12526  92 TWVYTVMRNAAFDMLRKIKAKKEQNLG---DDiwpieqalAESQSESEEFSDHLMDKQILSYIEKLPEAQQTVVKGVYFQ 168

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 446360463 137 ELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK12526 169 ELSQEQLAQQLNVPLGTVKSRLRLALAKLKVQMGE 203
PRK09642 PRK09642
RNA polymerase sigma factor;
18-167 1.50e-07

RNA polymerase sigma factor;


Pssm-ID: 170031 [Multi-domain]  Cd Length: 160  Bit Score: 48.56  E-value: 1.50e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  18 IKDYWQDVWNYSFIITKDPHLSDDITQDVFIKVFKNWNSFRKESsIKTWILKITRNTAINYL--KSSYFKRISLIGFFSD 95
Cdd:PRK09642   1 MQTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFRG-LKTWMARIATNHAIDYKrkKARENEELSLCKETEE 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446360463  96 D-KQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSK 167
Cdd:PRK09642  80 NiKSSHNIEDLLLTKEQKLLIAQKLRELPENYRDVVLAHYLEEKSYQEIALQEKIEVKTVEMKLYRARKWIKK 152
PRK12531 PRK12531
RNA polymerase sigma factor; Provisional
 59-165 4.98e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 105726 [Multi-domain]  Cd Length: 194  Bit Score: 47.62  E-value: 4.98e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  59 KESSIKTWILKITRNTAINYLKSSYFKRISLigfFSDD-----------KQSQSAEQEFFKQEEMndvwKVVLKLPKKHR 127
Cdd:PRK12531  75 QKSALSTWIYTIIRNLCFDLLRKQKGKDLHI---HADDiwpsdyyppdlVDHYSPEQDMLKEQVM----KFLDRLPKAQR 147

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 446360463 128 EIiiLDAKY--ELSYEEMAETLGVSIGTVKSRLSRARSKV 165
Cdd:PRK12531 148 DV--LQAVYleELPHQQVAEMFDIPLGTVKSRLRLAVEKL 185
PRK12524 PRK12524
RNA polymerase sigma factor; Provisional
 39-169 3.21e-06

RNA polymerase sigma factor; Provisional


Pssm-ID: 183573 [Multi-domain]  Cd Length: 196  Bit Score: 45.27  E-value: 3.21e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKNWNSFRK-ESSIKTWILKITRNTAINYLKSSYFKRISLIGF--FSDDkqSQSAEQEFFKQEEMNDV 115
Cdd:PRK12524  53 AEDVTQEAMLRLWRIAPDWRQgEARVSTWLYRVVCNLCTDRLRRRRRASVDLDDApePADA--APGAEEALIEGDRMRAL 130

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446360463 116 WKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLI 169
Cdd:PRK12524 131 DAALAALPERQRQAVVLRHIEGLSNPEIAEVMEIGVEAVESLTARGKRALAALL 184
PRK06704 PRK06704
RNA polymerase subunit sigma-70;
10-172 1.13e-05

RNA polymerase subunit sigma-70;


Pssm-ID: 180663 [Multi-domain]  Cd Length: 228  Bit Score: 44.25  E-value: 1.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  10 NHDELDDVIKDYwQDVWNYSFIITKDPHLSDDITQDVFIKVFKNwnsFRKESSIKTWILKITRNTAINYLKSSYFkrisl 89
Cdd:PRK06704  16 NHSNINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNKDICMTLVYKIARNRWLDQIKSKSV----- 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  90 igffsddkQSQSAEQEFFK--QEEMND----VWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARS 163
Cdd:PRK06704  87 --------HEKIRDQITFEepHEKIADlhemVGKVLSSLNVQQSAILLLKDVFQYSIADIAKVCSVSEGAVKASLFRSRN 158


                 ....*....
gi 446360463 164 KVSKLIGEG 172
Cdd:PRK06704 159 RLKTVSEEG 167
PRK09648 PRK09648
RNA polymerase sigma factor ShbA;
103-170 2.24e-05

RNA polymerase sigma factor ShbA;


Pssm-ID: 236607 [Multi-domain]  Cd Length: 189  Bit Score: 43.03  E-value: 2.24e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446360463 103 EQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK09648 121 EERALRSESSNRMRELLDTLPEKQREILILRVVVGLSAEETAEAVGSTPGAVRVAQHRALARLRAEIE 188
PRK12532 PRK12532
RNA polymerase sigma factor; Provisional
 36-162 3.12e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 171564 [Multi-domain]  Cd Length: 195  Bit Score: 42.61  E-value: 3.12e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  36 PHLSDDITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKSSYFKRISligffSDDKQSQSAEQEF---FKQE-- 110
Cdd:PRK12532  30 PDLAEDLVQETLLSAYSAGDSFQGRALVNSWLFAILKNKIIDALRQIGRQRKV-----FTLLDDELLDEAFeshFSQNgh 104

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446360463 111 -----------------EMNDVWKV----VLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRAR 162
Cdd:PRK12532 105 wtpegqpqhwntpekslNNNEFQKIlqscLYNLPENTARVFTLKEILGFSSDEIQQMCGISTSNYHTIMHRAR 177
PRK12538 PRK12538
RNA polymerase sigma factor; Provisional
 39-175 3.58e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 139048 [Multi-domain]  Cd Length: 233  Bit Score: 42.54  E-value: 3.58e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKN---WNSFRKESSikTWILKITRNTAINYLKSSYFKRISLIGFFSDDKQSQSAEQEffkQEEMNDV 115
Cdd:PRK12538  90 AEDVVQDTMLKVWTHrgrWQHGRAKFS--TWLYRVVSNRCIDLRRKPRTENVDAVPEVADGKPDAVSVIE---RNELSDL 164

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446360463 116 WKVVL-KLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGEGSSD 175
Cdd:PRK12538 165 LEAAMqRLPEQQRIAVILSYHENMSNGEIAEVMDTTVAAVESLLKRGRQQLRDLLRRHERD 225
PRK06930 PRK06930
positive control sigma-like factor; Validated
 122-171 7.64e-05

positive control sigma-like factor; Validated


Pssm-ID: 180757 [Multi-domain]  Cd Length: 170  Bit Score: 41.25  E-value: 7.64e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 446360463 122 LPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK06930 115 LTEREKEVYLMHRGYGLSYSEIADYLNIKKSTVQSMIERAEKKIARQINE 164
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
126-164 1.48e-04

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 40.51  E-value: 1.48e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 446360463 126 HREIIILDAKYE-LSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG2771  130 PREREVLRLLAEgLTLKEIARILGISERTVRTHLKRIYRK 169
PRK09651 PRK09651
RNA polymerase sigma factor FecI; Provisional
 39-161 2.39e-04

RNA polymerase sigma factor FecI; Provisional


Pssm-ID: 182018 [Multi-domain]  Cd Length: 172  Bit Score: 39.79  E-value: 2.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  39 SDDITQDVFIKVFKNwNSFRKESSIKTWILKITRNTAI-----NYLKSSYFKRISLIgffsDDKQSQSAEQEFFKQEEMN 113
Cdd:PRK09651  37 ADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKRVMVdlfrrNALEKAYLEMLALM----PEGGAPSPEERESQLETLQ 111

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 446360463 114 DVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK09651 112 LLDSMLDGLNGKTREAFLLSQLDGLTYSEIAHKLGVSVSSVKKYVAKA 159
PRK04217 PRK04217
hypothetical protein; Provisional
 137-172 3.25e-04

hypothetical protein; Provisional


Pssm-ID: 235258  Cd Length: 110  Bit Score: 38.32  E-value: 3.25e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 446360463 137 ELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGEG 172
Cdd:PRK04217  58 GLTQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEG 93
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 127-164 4.75e-04

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 36.74  E-value: 4.75e-04
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 446360463   127 REIIILDAKYE-LSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:smart00421   7 REREVLRLLAEgLTNKEIAERLGISEKTVKTHLSNIMRK 45
PRK07037 PRK07037
extracytoplasmic-function sigma-70 factor; Validated
 32-150 5.09e-04

extracytoplasmic-function sigma-70 factor; Validated


Pssm-ID: 180803 [Multi-domain]  Cd Length: 163  Bit Score: 38.90  E-value: 5.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  32 ITKDPHLSDDITQDVFIKVfknwNSFRKESSIKT---WILKITRNTAINYLKSSYFKRIsligFFSDDK-------QSQS 101
Cdd:PRK07037  18 IVGCRSRAEDVVQDAFVKL----VEAPNQDAVKQpvaYLFRIVRNLAIDHYRRQALENK----YHGDEEdgldvpsPEAS 89

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446360463 102 AEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVS 150
Cdd:PRK07037  90 PEAALINRDTLRHVADALSELPARTRYAFEMYRLHGETQKDIARELGVS 138
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 127-164 5.44e-04

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 38.33  E-value: 5.44e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 446360463 127 REIIILDAKyELSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG2197   75 REVLRLLAE-GLSNKEIAERLGISERTVKTHVSNILRK 111
FliA COG1191
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ...
 93-164 8.02e-04

DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA polymerase specialized sigma subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440804 [Multi-domain]  Cd Length: 236  Bit Score: 38.65  E-value: 8.02e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446360463  93 FSDDKQSQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSigtvKSRLSRARSK 164
Cdd:COG1191  158 LLDLLESGDPEEELEHEELREALAEAIEQLPERERLVLSLYYFEELTLKEIAEVLGVS----ESRVSRLHKK 225
PRK09047 PRK09047
RNA polymerase factor sigma-70; Validated
 33-171 1.91e-03

RNA polymerase factor sigma-70; Validated


Pssm-ID: 236367 [Multi-domain]  Cd Length: 161  Bit Score: 36.87  E-value: 1.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  33 TKDPHLSDDITQDVFIKVFKNWnSFRKESSIKTWILKITRNTAINYLKSSYFKR--ISLIGFFSDDKQ------------ 98
Cdd:PRK09047   1 VRDDDAALDIVQDAMIKLAEKY-GDRPAAEWPPLFQRILQNRIHDWFRRQKVRNtwVSLFSSFSDDDDdddfdpletlds 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446360463  99 ----SQSAEQEFFKQEEMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRARSKVSKLIGE 171
Cdd:PRK09047  80 adegAESPADKLERAQVLQLIEEAIQKLPARQREAFLLRYWEDMDVAETAAAMGCSEGSVKTHCSRATHALAKALEA 156
PRK12523 PRK12523
RNA polymerase sigma factor; Reviewed
 36-161 1.93e-03

RNA polymerase sigma factor; Reviewed


Pssm-ID: 183572 [Multi-domain]  Cd Length: 172  Bit Score: 37.14  E-value: 1.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  36 PHLSDDITQDVFIKVFKNwNSFRKESSIKTWILKITRNTAINY-----LKSSYFKRISLIgffsDDKQSQSAEQEFFKQE 110
Cdd:PRK12523  34 RQRAEDLSQDTFVRLLGR-PELPTPREPRAFLAAVAKGLMFDHfrraaLEQAYLAELALV----PEAEQPSPEEQHLILE 108

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446360463 111 EMNDVWKVVLKLPKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK12523 109 DLKAIDRLLGKLSSKARAAFLYNRLDGMGHAEIAERLGVSVSRVRQYLAQG 159
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
138-164 1.99e-03

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 37.38  E-value: 1.99e-03
                         10        20
                 ....*....|....*....|....*..
gi 446360463 138 LSYEEMAETLGVSIGTVKSRLSRARSK 164
Cdd:COG2909  138 LSNKEIAERLFISVNTVKTHLRNIYRK 164
PRK12528 PRK12528
RNA polymerase sigma factor; Provisional
 36-161 2.40e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 171561 [Multi-domain]  Cd Length: 161  Bit Score: 36.75  E-value: 2.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  36 PHLSDDITQDVFIKVFknwnSFRKESSI---KTWILKITRNTAINYLKSSYFKRISLigffsdDKQSQSAEQEFFKQEEM 112
Cdd:PRK12528  28 PQSAADLAQDTFVKVL----VARETAQIiepRAFLTTIAKRVLCNHYRRQDLERAYL------EALAQLPERVAPSEEER 97

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446360463 113 NDVWKVVLKL-------PKKHREIIILDAKYELSYEEMAETLGVSIGTVKSRLSRA 161
Cdd:PRK12528  98 AIILETLVELdqlldglPPLVKRAFLLAQVDGLGYGEIATELGISLATVKRYLNKA 153
PRK12536 PRK12536
RNA polymerase sigma factor; Provisional
 36-170 3.60e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237131 [Multi-domain]  Cd Length: 181  Bit Score: 36.57  E-value: 3.60e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446360463  36 PHLSD---DITQDVFIKVFKNWNSFRKESSIKTWILKITRNTAINYLKsSYFKRISLIGFFSDDKQ--SQSAEQEFfkqE 110
Cdd:PRK12536  43 PQLPDeveDLVQEILLAVHNARHTYRADQPLTAWVHAIARYKLMDFLR-SRARREALHDPLDDESElfATSDDEAA---E 118

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446360463 111 EMNDVWKVVLKLPKKHReIIILDAKYE-LSYEEMAETLGVSIGTVKSRLSRARSKVSKLIG 170
Cdd:PRK12536 119 ARRDLGKLLEQLPDRQR-LPIVHVKLEgLSVAETAQLTGLSESAVKVGIHRGLKALAAKIR 178
 
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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