Conserved Protein Domain Family
HTH_MerR-like_sg1

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cd04777: HTH_MerR-like_sg1 
Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily
Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. 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: 133404
View PSSM: cd04777
Aligned: 6 rows
Threshold Bit Score: 148.714
Threshold Setting Gi: 106894910
Created: 4-Jan-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 82747152    1 MKIGKFVKANNLTIDTVRHYINMTLIIPEKHGGQYNFDdRCQSDLEDILLLKGMGFSLSEIKSIFMFKRLAKLTKYEENE 80
gi 42781756   28 MKIGKFGEVNNISIDTIRHYMDLSLIIPEKKGGHYFFDeYCQTDLELILYYKDLGFSLNEIKELFFYKNLAKSMNHEKDT 107
gi 77685679    1 MKIGAFSAKHNITIDTVRHYIDLGLLLPHKKGGQYEFTsKDSNDLQGVLELKGLKFTLGEIQKVFSYKRITGMRTIQDQL 80
gi 106893653   1 MRIGEFAKKYDLTIDTIRHYMDIELLLPEKKGGHYFFGeKEEMNLKEILDLKALKFTLSEIQKIIGYSRLSQLRTKEDQK 80
gi 106894910   1 MRIGEFAKKHRITQDTIRYYLDMGLLVSEKKGGQYKFTkADSEDMERIIELKSLDFSLIEIQKILTFQRLSGSNTDVFRN 80
gi 89208460    1 MKIGTFAKLFHVTTDTVRYYIELGLLIPDKKNTQYQMNqLCFDDMTFITELKKFHFSLIEIQRILSYRRVTNFSDHEDID 80
                         90       100
                 ....*....|....*....|....*..
Feature 1                                   
gi 82747152   81 CFKSFFVNKDKEIENKIRELKLMKQKL 107
gi 42781756  108 FYQSLFKLKYDKMEQEIELLEEKRDKL 134
gi 77685679   81 RYKKILEEKTEELVAEQKHLAKTVMYL 107
gi 106893653  81 YIRAILWHKKNTLAEEERSIKNALEIL 107
gi 106894910  81 LYLPFLKNKKEEVEKELIKYNRMNEFL 107
gi 89208460   81 YYNNSLIDKKDELTKKKEDISKAIQLI 107

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