Conserved Protein Domain Family
HTH_Cfa-like_unk

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cd04790: HTH_Cfa-like_unk 
Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators
Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Statistics
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PSSM-Id: 133417
View PSSM: cd04790
Aligned: 7 rows
Threshold Bit Score: 257.359
Threshold Setting Gi: 84387134
Created: 1-Feb-2007
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
DNA bindingputative dimer
Feature 1:DNA binding residues [nucleic acid binding site]
Evidence:
  • Comment:Based on sequence similarity to BmrR and the structure of Bacillus subtilis BmrR bound to DNA (1EXI).

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          ###             #                ###                                          
gi 83649117    1 MYTIGQMSRKFGVSRSTLLYYDSIGLLsPSARSEaNYRLYSeADLSRMEKIVFYREAGLPLENIAGVLAqphd-gvqAIL 79
gi 94967295    1 MHTVSQLAKHCQLSRSTVLYYESIGLLqPAVRTEsNYRLYGeRELQRLEQIKLYRSVGVSVKDIRAVLNaprg-efsGVL 79
gi 39997872    1 MYRIGQLARQFGLSRSTLLYYDRIGLLsPSGRSEsNYRRYSpADRDRLETICSLRRAGVDIRGIQAILAsagd-gatDVL 79
gi 89092392    1 MYTISQLAKQMNLSRSSLIYYDKIDLLkPSCRSSsNYRLYSeQDKVKLEQINQFRAAGLSLEAIKQLLQqnns-sagLFL 79
gi 84387134    1 MLSIKQFCEQLEVSRTTVLYYERKGLItPAARTPnGYRQYGeRELERFRAILAYRSYGIPVSEIESLLQqsqdedrdVVL 80
gi 90413337    1 MLTVSQLAKMYQISRTTILYYERAGLLlPTSRSDnGYRWYGkNEMKRLEAIIAYRSYGVSITNIAPLLErqddmpqeHIL 80
gi 116620661   2 TLTVTRLARECKLSRSTVLYYESIGLLrRPRRSDgNYRVYGdRDVERLRQICVYRDAGLALADIRSVLDtpps-daaSVL 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 83649117   80 EQRLQSINREIQRLRAQQQVIATILKservr-kksriIDKQGWVAMLAAVGLDEAAMRQWHVEFESMSPEAHQDFLESLG 158
gi 94967295   80 KRRLSQLEKEIEALQAHQRVILKLLNmktlr--rkkdMTKDKWVAVMKDAGFTEDDMHRWHRQFEKSAPTDHQEFLQFLN 157
gi 39997872   80 HRRLLEINREIGALQMKQRMLAGMLRlkgeg-gprtaVDKEMFVAMLRAAGMDDAAMKRLHTEFEQHSPEAHHQFLLSLG 158
gi 89092392   80 EQRLEQINHEICQLRSQQQQIVNLLGqttll-pstrlVNKAQWVEMLEASGMDEADMRQWHIEFERKLPEAHTDFLQSLG 158
gi 84387134   81 RQQFAALDLEIQKLRQQQQSIMALLKepelr--nqglLTKERWTEILKESGMDEQGMINWHKRFEQMEPLGHLKFLQSLN 158
gi 90413337   81 CEQFNSLEQEIQRLRQQKKAIVTLLEqptll--eqnkLTKAAWVEIMKSAGLNEQDMKNWHIQFEKMEPEAHQEFLESLS 158
gi 116620661  81 RRRMAELSVGIERMREHQRAIARLLKgagklskekdmVTKQKWTAIMSAAGFSEDDMRRWHREFEKSAPAEHQEFLEFLH 160
                        170
                 ....*....|....
Feature 1                      
gi 83649117  159 IPAEEIKTIRHWSR 172
gi 94967295  158 IPTDEISRIREWSK 171
gi 39997872  159 IPEHEALSIRAWSA 172
gi 89092392  159 IPEQEIEIIKSWAK 172
gi 84387134  159 IDEDEIEQIRAWSR 172
gi 90413337  159 IDTEEINRIRHWSK 172
gi 116620661 161 IPPDEIKTIRAWSA 174

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