Conserved Protein Domain Family
HTH_YyaN

?
cd01109: HTH_YyaN 
Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB
Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. 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
?
PSSM-Id: 133384
View PSSM: cd01109
Aligned: 109 rows
Threshold Bit Score: 107.157
Threshold Setting Gi: 28377205
Created: 30-Apr-2009
Updated: 17-Jan-2013
Structure
?
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
?
Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1         ###             #                ###                                           
gi 586840      4 YSISKAAEKTSISSYTLRYYEKIGLLpPPKRKNsGRRFYTeTDIQFMLFLKSLKETGMSLEDINEFVKDGCILekinsdv 83
gi 42783873    2 YKIGEVAELTGMGIHTLRYYEKLGLLpPPTRNS-GIRQYTeGDVRLLKFLYSLKQTGMSLEEMAEFASDGCIIeeirqkk 80
gi 28377205    2 FTITATAQKYGVSNNALRYYESVGLIgPIKRDQnGIRQFSaSDQEMVNRIVHLRQLGASIKEIQQYSFRPEEVtler--- 78
gi 15672221    2 VTIATVAGRTGISAYNLRFYEKEGLI-SVPRTKaGIRDFDeATESRINAIRHYRCAGLSLAQIKEVFANTDKHe------ 74
gi 116490757   2 SSISEIAKQYNFSASAIRYYESQELI-KIPRDEsGQRFFDpKTKERIRLLVHLRQAGLSMAEMKNYLNHLQDHd------ 74
gi 23464890    3 YTIRQVATQFHMQPSTLRYYEDQGLLtNVERTEtGQRIYEdCHIDRLRAICCFKNAGMTIDDLKKFFVYESNEpeh---- 78
gi 56965302    4 YSIKQISEKTGLTEDAIRYYEKIGLLpYAKRKQnGHRIYGdEDKELMELIMCLKKTGMSLNEMKKIIKLPIKEnina--- 80
gi 18073197    5 YTIAETAEKFGISKNALRYYEKEGLLnPVTRNQnGIRFYYkKDLLEINKIVHLRRLGASLKEIKEFNFDEETAtsei--- 81
gi 116491878   1 MKIEEVATQFSISSPTLRYYEHEGLLgPVKRVH-GIRDYSdRDLERLDFILCTKKCGMSLKQIQHFINIYEQGdet---- 75
gi 116511137   2 PTIQEVSRKFKVSSSSIRFYERKGFL-SIPRDKnGNRIFDeESLTRLELVLHYRTAGVSLEDIHEIFKNYMNHq------ 74
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
Feature 1                                                     
gi 586840     84 ksaqlspsinkRIEILTKHLEKMEIKKRELEEVISTTKGKLDTYY 128
gi 42783873   81 e--evpakvkkRISILTTHLERLKEQQEQLQKVVQLTEEKLEIYY 123
gi 28377205   79 --------tvaLKKFLLRLNGDLEAQEAQIKIEKQYLKAKIEHLD 115
gi 15672221   75 ----------mIIGVLKARKKEMEKELAELEKSMAYLDKKINIHQ 109
gi 116490757  75 ----------yEVRLLEQSHKRLTDKIEQMKQTLNFLDYKIEYHK 109
gi 23464890   79 --------ideILDLLESRRESLDEQRRALNEAAMHVQRKLHYYG 115
gi 56965302   81 --------ipeLKRTLLDYKEKIMTQIQDLQRIVAFIDNKLESDS 117
gi 18073197   82 --------iqhRISFLEHLDLKLQQNILSIKEQEAYPQKKIKHLK 118
gi 116491878  76 --------ipeRLAILQEQLAKTQTTLIELTQSMDHLKDKIDDLH 112
gi 116511137  75 ----------vSVQLLKKTAQDLDNKIAELEKTRVFLADKIIFHE 109

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap