Conserved Protein Domain Family
HTH_MerR-like_sg6

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cd04781: HTH_MerR-like_sg6 
Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily
Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, 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 two 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: 133408
View PSSM: cd04781
Aligned: 15 rows
Threshold Bit Score: 151.667
Threshold Setting Gi: 113939822
Created: 13-Nov-2006
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
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 13474484    1 MDIAEVSRRTGVPASTLRYYEEKGLVASIGRRGQRRLFDpAVLDRLALIALGRAGGFTLDDISSMLTPdg----lPKMDR 76
gi 33595967    1 MDIAEVARRTGVPASTLRYYDKVGLIAPVSPPGARRRYApAVLEQLALVALGQAGGLSLDDIRAMLSPqg----aPRVDR 76
gi 26990964    1 MDIADVAKRTGVPASTLRYYEKKGLLKSLAGRGQRRQFAaDVADRLALIALGQAAGFSLDEVGAMLVD-------LQVDR 73
gi 86136658    4 LDIAEVASQSGLAPSTLRYYEKRGLITSDGRRGLRREYDdSVLMRLALISLGRRAGYSLEEIRALFRPqg---gkYDLNR 80
gi 50085947    4 ITMSELARQTGLKSSAIRYYEKEKLIHPIGRKGLQRVFSiQIIDQLALIHLAKQAGFSIQEIRSMLEKp-----qSPIDK 78
gi 83643985    7 LDIAEVAKLSGLPASTLRYYEEKGLIKSIGREGLKRIFRsTVIDQLGLISLGQYAGFSLEEIGAMFSHdg----kPKIDR 82
gi 56698552    4 LDIGEIAAQSGVPPSTLRYYEEQGLIAPIGRKGLRRQYGpQTLLRLTLISMGKAAGFSLPEIAQMLGAdg----rPDLPR 79
gi 28900640    5 MDIAEVVIKSGLPTSTLRYYEQLGLIRSIGRNGLRRQYSpEVLNKLNLISLGRIAGISLNEMAEMLNHseg--skPYIDR 82
gi 83951186    4 LDIGEVAEATGLRVSALRYYEEKGLIEALGRKGLRRQYGpEVLQQLALVALGRQAGFSLDEIGGMFGAgg----aPALPR 79
gi 113939822   4 LSISMVAKQAGIKASTIRYYEEINLLPPAARQNGRRYYDqQIFERLAFIRTTQRLGFSLNEIQLLFQHeqqqaplAGLWR 83
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
Feature 1                                                    
gi 13474484   77 GRLDAKANELDQIIQRLRAIRKALRHAAKCPAArpMECPTFCRA 120
gi 33595967   77 QVLLAKAEEIDATVKQLQAMSRGLRHAAACPAPshAQCPTFRRL 120
gi 26990964   74 QMLMAKADELDARIKRLQAMSKGLRHAAQCPEKdhLACPKFQQL 117
gi 86136658   81 QELRSQANTLRRQAQELCATAELLDHIAACTAPsyLECPRFQDI 124
gi 50085947   79 NQLKQKALQIEEKIVEMKVLSKTLRHVAQCSFDnpLNCPKFQKI 122
gi 83643985   83 AQLIEKASELDQLIQRMETMRDSIIHVANCPEPnqLECPRFQTL 126
gi 56698552   80 DELHARADDLGRQIRRLQLLQETLRHVADCPAPshLDCPSFQKL 123
gi 28900640   83 DLLAKKALEIDEQITRLKAVRDSLNHVASCPHEshMDCSSFQRL 126
gi 83951186   80 AELKTRAAAMRDQARQLEALAQMLGHVADCPEPnhLDCPKFQQL 123
gi 113939822  84 QLAKQKLADLSQLLEQASHVQQLLQRGLRCRCAtlEMCVHCVLQ 127

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