Conserved Protein Domain Family
HTH_HMRTR_unk

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cd04787: HTH_HMRTR_unk 
Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators
Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal 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. This subgroup lacks one of the conserved, metal-binding cysteines seen in the MerR1 group.
Statistics
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PSSM-Id: 133414
View PSSM: cd04787
Aligned: 13 rows
Threshold Bit Score: 194.444
Threshold Setting Gi: 110593482
Created: 19-Jan-2007
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
DNA bindingdimer interface
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 77951965    1 MKVKEIATAAGVNPDTVRFYTREGLLR-PTRNPdNNYQQYDaEDLRRLRFARKARQLGFSLPEIRQILEQAddHHSPCPM 79
gi 83649350    6 LKVSEMAKRSGVTADTVRFYTKQGLLQ-PTRDPdNGYQLYDrDDLQKLIFAKKARQLGFSVKEINQIMAQAedHHSPCPM 84
gi 92115120    1 MKVSDLARAAGVTGETVRHYTREGLLH-PRRDPgNGYQLYDpDDLNRLRFIQRARTLGFSLREVREILEHAdhGDSPCPM 79
gi 77952366   21 MKVNEIANLADVSPDTVRFYNREGLLR-PRKDPrNGYNLYNsEDLWRLRFVRVANKLGFNLREVKVILSHGteGGLAGSD 99
gi 78367706    1 MRVNQLAKNLNITGDTVRFYTRIGLLS-PAKSSvNGYKDYSdKDQSRMQFILSARNLGFSVDEIKVIFSRTdqGESACGL 79
gi 90021579    1 MRVKELANHLSVSAETVRFYTRQGFLS-PTKNPvNGYKEYGlKDQSRLRFILSARALGFTVKDIAEILSVAeqKRTPCPM 79
gi 88703742   30 VKVIEMARRLGVTADTVRFYTRIKILK-PGKNKaNGYREYSeKDYNRLRFVLSARQLGFSVEDIQEILNHAdkKKSPCPT 108
gi 88794218    1 MKVREIASALATTPDTVRYYTRLQLIT-PAKSD-NGYKFYStKDASRLRFILSARHLGFSVEDIKQILREAdnGKTACPL 78
gi 77359956    1 MYVKQLANKMSVTPDTIRHYTRMQLLK-PVRSVsNGYQEYTkTDQQRLKFIINARQLGFSVKDIQHIITESeqGNCPCPL 79
gi 88794176    1 MRVKQIADALEISADSVRYYTRIGFLV-PSKSH-NGYKYYRpADVTRLRFILSARSLGFSINDIKEILFTSsqTNAPCPT 78
gi 114776673   2 MTVKGLATAVNVTPDTVRYYVRTGLLR-PVRDPvNGYRRFSmLDVDRLRFICRAKSLGFTLAEITDVFADAeaGDSPCPR 80
gi 110593482   1 MQLIECAREAGVTPDTLRHYLRVGLLVpDGRGA-NGYRAFSeRSVARVRFIRNALALGFTLKDAAEFVEMSqrGTSPCPR 79
gi 110834266   1 MRVSELAKQAKTTAETVRHYTNIGLLS-PSRDShNGYRYYRaEDLRLLRFALKARSLGFTLSDIQSLIHASreGETPCGQ 79
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
Feature 1                                                                            
gi 77951965   80 VRDVFQQRLAEVEREISELQKLRARMVSALSTWQEMPDGTPDGHt--------------ICRLIEHWD 133
gi 83649350   85 VRRLFEEKFAEVERQIAELTQLKTRMQEAMSAWEHMPDGDPNGHt--------------ICRLIEHWE 138
gi 92115120   80 VRDLLAARLPDIHARIRELQALATRMERALETWRDMPDGTPDGHs--------------LCRLIESLP 133
gi 77952366  100 LKELFTDRLCRLDQELKELKRLRDDMKTTVQVWRQMPDGAPNGHsvqefsraptsvyayIFGLKISER 167
gi 78367706   80 VRQMIQQKLEETEKQFEEMVKLRRKLSNAVEDWSHKPDKAPTGNm--------------ICHLIEGTY 133
gi 90021579   80 VRMMIEKRLLETEAQYQETVKLRQRMREAVKTWSGLPDAEPTGDm--------------ICHLIESFS 133
gi 88703742  109 VRRLIDQRLHETERQLRETLKLRDRMQQAVLEWSQKPDKAPTGHm--------------LCHLIEEFT 162
gi 88794218   79 VRTLIARRLAETERQFKAMLLLRQNMMLAVRKWGAMGDKAPSSHv--------------VCHLIEEFE 132
gi 77359956   80 TRKLIVKRLAETEALFQETLKLRTRMQAAVKQWQSSPDGATSAD---------------ICSLIESFV 132
gi 88794176   79 VRRLIEQRLKETEQRYQDMHELRLRMRKAISEWENTPDQHPTADt--------------ICHLIEGFT 132
gi 114776673  81 VRAIIRRRIEENRQRIDELLALQDRMELADSQWQSMEDGMPDEGs--------------ICRLIDAMD 134
gi 110593482  80 ARALLSERLDEQARRLKEATELHLRMQQADRDWTRLPDGVPDGHs--------------VCSLIEGAA 133
gi 110834266  80 VRTLIEDRLNQVETRITELQALSDRMRDAMEQWQGAPDCRLDDGr--------------VCGLIDSFV 133

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