Conserved Protein Domain Family
HTH_Cfa

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cd04789: HTH_Cfa 
Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator
Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. 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 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: 133416
View PSSM: cd04789
Aligned: 4 rows
Threshold Bit Score: 142.626
Threshold Setting Gi: 89093143
Created: 23-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 78060378    1 MYRISELATKAGLSRSTLLYYEKMGLISSTRQA-NGYRTYTdQDLQQLKLLQQLQAGGLTLKECQACLEtridrSLLLER 79
gi 37678319   23 MYLISELAAKAGISRTTLLYYEKLGLINGQRLD-NGYRYYSeNDLQRLLLIQQLQSAGLSLKECEQCLDaklsrSLLENR 101
gi 89093143    1 MFTVFQVCETLDISRSTLLYYERRGLITAVRNPaNNYRLFPqSEIDKLRAIKLLQAGGLSLSESLSCLQgkltpGQMHER 80
gi 117560851  70 VMKISELARRCGLARSTLLYYEKLGVIAGTRAA-NGYRHYDdEDLQRLLMVQALQAGGLSLKQCLACLAgeleqATLLAR 148
                         90       100
                 ....*....|....*....|...
Feature 1                               
gi 78060378   80 LQSLEQEIAEKQQSRDLLAAMLG 102
gi 37678319  102 LTQLNHDIDKKIHARELLLALLG 124
gi 89093143   81 LSSLAEQINRLEQAYSILQALSG 103
gi 117560851 149 VRELDEKLAQMQRARDLLADLAG 171

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