1EXI,1JBG


Conserved Protein Domain Family
HTH_BmrR-like

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cd04768: HTH_BmrR-like 
Click on image for an interactive view with Cn3D
Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators
Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Statistics
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PSSM-Id: 133396
View PSSM: cd04768
Aligned: 8 rows
Threshold Bit Score: 120.92
Threshold Setting Gi: 16800165
Created: 25-Jan-2007
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 7 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding residues [nucleic acid binding site]
Evidence:
  • Structure:1EXI; Bacillus subtilis BmrR bound to DNA; defined at 3.5A contacts.
    View structure with Cn3D
  • Comment:these residues contact two consecutive major grooves

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1         ###             #                 ###                                          
1EXI_A         6 YSIGEVSKLANVSIKALRYYDKIDLFkPAYVDPdtSYRYYTdSQLIHLDLIKSLKyIGTPLEEMKKAQDleme-elfAFY 84
1JBG_A         3 YQVKQVAEISGVSIRTLHHYDNIELLnPSALTDa-GYRLYSdADLERLQQILFFKeIGFRLDEIKEMLDhpnf-drkAAL 80
gi 1303700     9 FTTGEFSKLCRVKKQTLFHYDEIGLFsPEIKKEn-GYRYYSyHQFETFQVISLFKeLGVPLKEIKCLIKgktpdkilHVL 87
gi 16800165    4 LSTGEIAQLFQISKYKIRHYIDEGILvPKRNPEn-GYYYFEeADIYRLYQIILFRkIGFSIQEIKESLLsek---vtPML 79
gi 116333464   2 LTIRKFAELAGTTRRTLLFYDQEDVFkPAHIADn-GYRYYSyDQLYQLKFILQLRhLDLPLATIKELLAtndatqlnEQL 80
gi 37496916    7 LSISEFAKIAQTTRRTLIFYDQKDIFkPAKIAEn-GYRYYSyGQLYQIGFILGLRdLGLSVEEIKDYLSddssdalnKKL 85
gi 116492197   6 VTISTLARLLKTTNHTIRYYEDEGLFkPAEIAPn-GYRKYGmSQAYQLSFILFLRqLDFSVASIKQILQtnp--svtDLL 82
gi 81428423    6 LTISAFAKLFKTTQYTIRYYEDKGLLlPAKIAEn-GYRQYGmAEAYQLSFILFLRaLDLSVAEIKLILTtdy--peqTML 82
                         90
                 ....*....|....*...
Feature 1                          
1EXI_A        85 TEQERQIREKLDFLSALE 102
1JBG_A        81 QSQKEILMKKKQRMDEMI 98
gi 1303700    88 KEKSIEIDKKINELKQLQ 105
gi 16800165   80 EQAEQDLQQKIEELVEIQ 97
gi 116333464  81 RTVLSHIQTEIDNLTLLK 98
gi 37496916   86 IPLRQKIEQRIQNLQQIL 103
gi 116492197  83 LAKKIAIQTERHRLEQLE 100
gi 81428423   83 LNKKQALQQEIARLQALE 100

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