Conserved Protein Domain Family
HTH_MerR-like_sg4

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cd04779: HTH_MerR-like_sg4 
Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily
Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). 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: 133406
View PSSM: cd04779
Aligned: 5 rows
Threshold Bit Score: 138.793
Threshold Setting Gi: 68054875
Created: 25-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 42782446   2 YRIGQLALMAHVSKRTIDYYTNLGILk-AERSQS-NYRYYDeTAVETLQFIEKCKeMHMPLCEIKEKIEekkkl----lg 75
gi 16078021  12 YRISELAALAGVTKRTVDYYTNLGLLt-PARSCS-NYRYYDeNALKRLIFIVDCKkQRLALSDIKDRLEnqfpssakldd 89
gi 37521079  89 YRIGELAHLAKVNPRTIDFYTREGLLepLDRADAhQHRYYPaTSLDRLDLIKHLRgRHMSLAEIRDQLKcvqr------p 162
gi 88947231   2 YRIGQFAKLAGVSRRTVDYYTKLGLLe-PVRSES-NYRYYNqDALIRLKLIEMLKsQRLTLEEIKGQIEyisnvmnsdkk 79
gi 68054875   2 LKIGQVAEATGLSKRTIDYYTSLGLLt-TERTPA-GYRLYTeDVVQHIQKIEYLKtQRLSLQEILAFFTerev------k 73
                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                   
gi 42782446  76 inEHVSKQVNEVTDHIHRLEAELTELKplldgltdsqreKISKSLSgQTTALIQTLALLL 135
gi 16078021  90 eiGNLALEIDHMNQNISGILHRFERLKped-------rdKLKSKLPpEKLAVFQSFMLLL 142
gi 37521079 163 eqREVIQTLQLVCRQIDDLQHQLKDLSpiasqtdralvmVMTVEAMqKVATLTAALTTLL 222
gi 88947231  80 kySQRAIDIQYLKDQFKVLETQLGQLQpmvtnmeagqaaAMTKQVLiQSMTIIQSLLLYI 139
gi 68054875  74 tgDAIYQEVQQLQESVNGLEQRLLQSTdye-------kqEIRLELS-QRLTLIASLIAQL 125

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