Conserved Protein Domain Family
HTH_YyaN

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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
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PSSM-Id: 133384
View PSSM: cd01109
Aligned: 109 rows
Threshold Bit Score: 107.157
Threshold Setting Gi: 28377205
Created: 30-Apr-2009
Updated: 2-Oct-2020
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:
Feature 1      ###             #                ###                                           
P37510      4 YSISKAAEKTSISSYTLRYYEKIGLLpPPKRKNsGRRFYTeTDIQFMLFLKSLKETGMSLEDINEFVKDGCILekinsdv 83  Bacillus subtilis
NP_981120   2 YKIGEVAELTGMGIHTLRYYEKLGLLpPPTRNS-GIRQYTeGDVRLLKFLYSLKQTGMSLEEMAEFASDGCIIeeirqkk 80  Bacillus cereus AT...
NP_784097   2 FTITATAQKYGVSNNALRYYESVGLIgPIKRDQnGIRQFSaSDQEMVNRIVHLRQLGASIKEIQQYSFRPEEVtler--- 78  Lactobacillus plan...
NP_266395   2 VTIATVAGRTGISAYNLRFYEKEGLI-SVPRTKaGIRDFDeATESRINAIRHYRCAGLSLAQIKEVFANTDKHe------ 74  Lactococcus lactis...
YP_810301   2 SSISEIAKQYNFSASAIRYYESQELI-KIPRDEsGQRFFDpKTKERIRLLVHLRQAGLSMAEMKNYLNHLQDHd------ 74  Oenococcus oeni PSU-1
NP_695493   3 YTIRQVATQFHMQPSTLRYYEDQGLLtNVERTEtGQRIYEdCHIDRLRAICCFKNAGMTIDDLKKFFVYESNEpeh---- 78  Bifidobacterium lo...
YP_177034   4 YSIKQISEKTGLTEDAIRYYEKIGLLpYAKRKQnGHRIYGdEDKELMELIMCLKKTGMSLNEMKKIIKLPIKEnina--- 80  Bacillus clausii K...
CAC80684    5 YTIAETAEKFGISKNALRYYEKEGLLnPVTRNQnGIRFYYkKDLLEINKIVHLRRLGASLKEIKEFNFDEETAtsei--- 81  Listeria grayi
YP_803613   1 MKIEEVATQFSISSPTLRYYEHEGLLgPVKRVH-GIRDYSdRDLERLDFILCTKKCGMSLKQIQHFINIYEQGdet---- 75  Pediococcus pentos...
YP_808353   2 PTIQEVSRKFKVSSSSIRFYERKGFL-SIPRDKnGNRIFDeESLTRLELVLHYRTAGVSLEDIHEIFKNYMNHq------ 74  Lactococcus lactis...
Feature 1                                                  
P37510     84 ksaqlspsinkRIEILTKHLEKMEIKKRELEEVISTTKGKLDTYY 128 Bacillus subtilis
NP_981120  81 e--evpakvkkRISILTTHLERLKEQQEQLQKVVQLTEEKLEIYY 123 Bacillus cereus ATCC 10987
NP_784097  79 --------tvaLKKFLLRLNGDLEAQEAQIKIEKQYLKAKIEHLD 115 Lactobacillus plantarum WCFS1
NP_266395  75 ----------mIIGVLKARKKEMEKELAELEKSMAYLDKKINIHQ 109 Lactococcus lactis subsp. lactis Il1403
YP_810301  75 ----------yEVRLLEQSHKRLTDKIEQMKQTLNFLDYKIEYHK 109 Oenococcus oeni PSU-1
NP_695493  79 --------ideILDLLESRRESLDEQRRALNEAAMHVQRKLHYYG 115 Bifidobacterium longum NCC2705
YP_177034  81 --------ipeLKRTLLDYKEKIMTQIQDLQRIVAFIDNKLESDS 117 Bacillus clausii KSM-K16
CAC80684   82 --------iqhRISFLEHLDLKLQQNILSIKEQEAYPQKKIKHLK 118 Listeria grayi
YP_803613  76 --------ipeRLAILQEQLAKTQTTLIELTQSMDHLKDKIDDLH 112 Pediococcus pentosaceus ATCC 25745
YP_808353  75 ----------vSVQLLKKTAQDLDNKIAELEKTRVFLADKIIFHE 109 Lactococcus lactis subsp. cremoris SK11

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