2HXR


Conserved Protein Domain Family
PBP2_CynR

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cd08425: PBP2_CynR 
Click on image for an interactive view with Cn3D
The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold.
CynR is a LysR-like transcriptional regulator of the cyn operon, which encodes genes that allow cyanate to be used as a sole source of nitrogen. The operon includes three genes in the following order: cynT (cyanate permease), cynS (cyanase), and cynX (a protein of unknown function). CynR negatively regulates its own expression independently of cyanate. CynR binds to DNA and induces bending of DNA in the presence or absence of cyanate, but the amount of bending is decreased by cyanate. The CynR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins (PBP2). The PBP2 are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.
Statistics
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PSSM-Id: 176116
View PSSM: cd08425
Aligned: 11 rows
Threshold Bit Score: 284.607
Threshold Setting Gi: 34103193
Created: 8-Oct-2009
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
dimerization
Conserved site includes 26 residues -Click on image for an interactive view with Cn3D
Feature 1:dimerization interface [polypeptide binding site]
Evidence:
  • Structure:2HXR; interface at a dimeric unit of the tetrameric CynR from Escherichia coli, contacts at 4 A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                   #    ## ##  #      ######                                            
2HXR_A        30 GSLRIAVTPTFTSYFIGPLXADFYARYPsITLQLQExsqEKIEDXLCRDeLDVGIAFapvhspeLEAIPLLTESLALVVA 109 Escherichia col...
ABB07331     117 GSLRLAMMPTFAAYLSGSLIDAFHADYPnVALSIDAmpqERIEALLADDrLDAGFAFmpprapdIDALPLWDEPLALVTG 196 Burkholderia sp...
ABF12465     119 GNLRLAITPTFTPYLVAPLIVAFNSAYPnITLSLREmpqERVEPLLADDeVDIGIAFddihlpdLDATPLMEEPLAYMVG 198 Ralstonia metal...
YP_001348594  91 GRLRLGMTPTFTCYLVGALVDPFNQRYPgIELSLEElpqDALEAALIDDrLDLGIAFsepgsveIDTQPLYLERLGLVLG 170 Pseudomonas aer...
YP_349097     91 GSLRLAMTPTFMAYLVGPLVRDYVARYPgIHLEIFElsmDDIEAGLADDsLDIAIAFtpvrnpdIECIPAFVETLGVMVG 170 Pseudomonas flu...
YP_001700809  91 GHLRIAMTPTFTAYFIGPLVHRFHSAHPgITLTVREttqDRIEADLLADrLDLGIAFagphpagIDHCALFTETLRLVVG 170 Mycobacterium a...
YP_002908607  91 GSLRIGITPTFAPYLIGPLLDRYHRRYPsIALSVLEmpqERMEPLLAQDaLDVGIAFsetgspdLEVQALFVEALAVVVG 170 Burkholderia gl...
AAY38516     103 GQLRLGVTPTFSEYLIAPLIDRFSALYPgVAIILTElplEQITEALISDaLDLAIGFagshaveIDSQPLFDEQLCLVMA 182 Pseudomonas syr...
NP_927480     91 GLLRLAMTPTFTTYFIGHWVERFNALYPgISLNIKEmtqDQIEISLAENqLDLGIAFsdvrspdIDSEPLFIETLSLIVG 170 Photorhabdus lu...
AAQ59556     110 GQLRLAMTPTFTAWLAGPLLARFHRRHPgIALTVREmsqEAMEAGLAEDiLDIGIGFapartldVEATPLLDERLALIAG 189 Chromobacterium...
ABC35079     178 GQLRIGFTPTFTEYLIAPVIEHFHERYPgIVIEMTEmslDAVETALGDDqVDLAFGFvdvrsdeIEAEALFPERLMLVAG 257 Burkholderia th...
Feature 1                            #                           ###### ##  ##  ## #             
2HXR_A       110 qhhplavheq-valsrlhdeKLVLLSAEFaTREQIDHYCekaGLHPQVVIEANSiSAVLELIRRTsLSTLLPAAIatqHD 188 Escherichia col...
ABB07331     197 rthrlarrrraltpaelggePLVLLSRAFaTRESIDRYFiehGAQPKIAIETNTiSAVLELVRCGrLATVLPDAVareSA 276 Burkholderia sp...
ABF12465     199 athalarrrtalradvlaaqSMAMLTREFaTRGYIARYFgalGIEPRITFEANSvSAVLDAVRSGrHATVLPAAIaagHP 278 Ralstonia metal...
YP_001348594 171 dgqpaeqvp--laaeelaerPLALLRGDFaTRRHIDGYLreqGVKARVALEANSiSAIVDVVRRGrLASILPEAVarqQS 248 Pseudomonas aer...
YP_349097    171 rehplydsssvltpddiaqlDFALLAPDFiTRLSIDEYFrqrGITPKVQIEVNSvSTLLEVIRHApIATMLPEAIateDR 250 Pseudomonas flu...
YP_001700809 171 tghrlamrhrslpvaqlsreALGLLSPDFaTRQDIDAYFaglGVAPHIAVEANSiSALLEFVKRGsLATVLPDAIaheHS 250 Mycobacterium a...
YP_002908607 171 kshpyagrrtaltlrefagaALVLLNGEFaTRHHLDRYCrrhGVAPRIAMEVNSiSAAVEVVRRGaLATLLPAAIareQA 250 Burkholderia gl...
AAY38516     183 kpasekqaa--ltledlqalRFALLAPGFaTRQLLDAWCqmqNFKPIIGLEANSiAILLKVVAQGrMATILPDAIvrkQP 260 Pseudomonas syr...
NP_927480    171 qshrfigqqtsltakmleheGLALLSKDFaTRSHIDLYFqkqGITPRIAIEANSiSAIVEIVRRGrLATLLPDVIaheQT 250 Photorhabdus lu...
AAQ59556     190 dshplaareavlsladleamPLVLLSADFiTRRHVDDYClrhGIRPTVAVEVNSmGAAVEIIRHGeLAGILPAAVaasQP 269 Chromobacterium...
ABC35079     258 athplttqrdpitpdqlaetPLALLTTSFvSRFYIDSYFqsyDMKPNVALQANSiSAVLKIVRRGkIATILPGTIefeHR 337 Burkholderia th...
Feature 1                                             
2HXR_A       189 GLKAISLappLLERTAVLLRRKnswqtAAAKAFLHXA 225 Escherichia coli K12
ABB07331     277 DLCALEIdppLPARTAALLTRKgayrsVAARAFIERA 313 Burkholderia sp. 383
ABF12465     279 DLCVLKLelpLPPRRAALLQRRgayrtAAARAFVAFA 315 Ralstonia metallidurans CH34
YP_001348594 249 GLRCVALrppLPTRQVALLWRQgshagAARLAFQALA 285 Pseudomonas aeruginosa PA7
YP_349097    251 ALRRLHVeseAPQRGAALLRRQnnyhsAAAEAFMKLV 287 Pseudomonas fluorescens PfO-1
YP_001700809 251 DLHLVPLsppLPIRTVELLRRSsayhsAAARAFTEMV 287 Mycobacterium abscessus
YP_002908607 251 GLRLVGLkpaLPRRTVALLMRRdayrsAALAAFVTMA 287 Burkholderia glumae BGR1
AAY38516     261 GLCEVQTipaLPGRTVALLRRKngyqsAAAKAFAKLV 297 Pseudomonas syringae pv. syringae B728a
NP_927480    251 GLYSIAIqptLPQRNAVLLWRRgayrsAASQAFANLI 287 Photorhabdus luminescens subsp. laumondii TTO1
AAQ59556     270 GLAVLALsptLPGRQAALLTKRdgyrsAAARAFAELA 306 Chromobacterium violaceum ATCC 12472
ABC35079     338 DLQYVPLdppFPVRTVALLRRKgayrtVAATAFAASV 374 Burkholderia thailandensis E264

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