Conserved Protein Domain Family
HTH_YfmP

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cd04774: HTH_YfmP 
Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator
Helix-turn-helix (HTH) transcription regulator, YfmP, and related proteins; N-terminal domain. YfmP regulates the multidrug efflux protein, YfmO, and indirectly regulates the expression of the Bacillus subtilis copZA operon encoding a metallochaperone, CopZ, and a CPx-type ATPase efflux protein, CopA. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Statistics
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PSSM-Id: 133401
View PSSM: cd04774
Aligned: 4 rows
Threshold Bit Score: 123.391
Threshold Setting Gi: 15807297
Created: 8-Dec-2006
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 2116754    4 MKIDQVAKRSGLTKRTIRFYEEIGLIpaPKRTDgGVRLYSeDDMEELEKVISTKe---vLGFSLQELQHFMEtsrqleln 80
gi 30023403   2 YKIDEVTKQVGLTKRTLRYYEEIGLIhpPERSEgNIRLYTdEDIARIKRIVEAKe---vLGITLQEMQHFLSlkerme-- 76
gi 91783452  20 LTVRDAAERLGVTPRTLKYYEERGLVs-PTRSEgRYRLYDeEDLKRFGRILRLRs----LGFSLHSVTEMLKrplep--- 91
gi 15807297  10 YKVGEVAARLGLTLRTLKYYEELGLVt-PERTDsRYRMYSeADVQRLERIRRMRalglsLGTIQAISTHPQEsdp----- 83
                        90       100
                ....*....|....*....|....*...
Feature 1                                   
gi 2116754   81 kegyllsldPKERKEKLEEIQETLNHQL 108
gi 30023403  77 ---qrrnseNPRDREVIQEIKDMLEKQV 101
gi 91783452  92 -----vdggHRYSAESLRQIHDAIAQQV 114
gi 15807297  84 ------dgrQVLTQEALHTLESDLSSQL 105

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