Conserved Protein Domain Family
PBP1_GntR

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cd01575: PBP1_GntR 
Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators
This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding, which in turn changes the DNA binding affinity of the repressor.
Statistics
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PSSM-Id: 107260
View PSSM: cd01575
Aligned: 82 rows
Threshold Bit Score: 264.743
Threshold Setting Gi: 56680721
Created: 21-Jul-2004
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
putative ligandputative
Feature 1:putative ligand binding site [chemical binding site]
Evidence:
  • Comment:based on sequence similarity to other members of the LacI family.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                    ##  #                                            #                  
gi 732051     65 TLGILIpsfqnqLFADILAGIESVTSEHNYQTLIANynydrdseeeSVINLLSYNIDGIILSekyhtirtvkFLRSATIP 144
gi 52306255   76 NIVIVTsslvsvENNLILNSLQKELQPLDLQIIILVank-----kgWLRELINNSPLAVILLnlqcpsteaqWIRNSGLI 150
gi 153092959  74 NLVIVTtsisstENTLILSALRKSVADSALQMVILIadq-----esWFQELINHAPQAIVFLnldcppnvreWIKNSNIP 148
gi 152970300  84 LILAVVptfsspGFLPVSEALQKVLTERGYTMMFMEsghdgqseqkTFEKMLAYNPAAIIQFnidtiesctqLLANVDVP 163
gi 49613220  130 TIAVLYpfqqdrASVRFVQALQQSVGKHNVSLIMGCheyrqhteagMVEKLLQQRPAALVLFsaqlsqrtqdLIQASNVI 209
gi 16765672   72 TIAMVVpnlaeaGCSEMFAGLQQILQPAGYQIMLAEsqhrveqeekLLETLLASNIAAAILLsvehsttvrqWLKNASIP 151
gi 14252935   72 TVAVLVpsltdkASSRFMQSLQQVLNKNEFQLLLGCheynqlketeILMTLLQGNPAALVIFgsqladkthqILEKTNIP 151
gi 145301050  72 TIVVIVpslterGCGDVIAGLQQTLLDEGYQIMLGDaqhlkqqeesLLTSFLQHNPAAVVLFggdpgetiraRLKASRLP 151
gi 149910218  70 TIVLIVpslsngVFADVVRGINDVMLNQGFQILLGHsgyslleeerLIETYLQFGIDGIIISgthhtersnrLLRKSNLP 149
gi 91796145   68 SVALLVpsisnsVFSDVQRGVDEGLREAGYQVLIGHtgysileeerLIDTFLAYGVDGFVLSstrhtdhaqrLLTRARLP 147
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1            #            #                                   #                        # 
gi 732051    145 VVELMdvqgerldmEVGFDNRQAAFDMVCTMLekRVRHKILYLGskddtrDEQRYQGYCDAmmlhn-lsplrMNPRAISS 223
gi 52306255  151 CLEIGskqanplgiNVCVDSKSAVQKVISFLVakGYRDIGLLCAqqeqaiFQQYLACWHSAlhanhlnshqiLHCSEPVS 230
gi 153092959 149 TVEIGaikkepihlSVGIDSHEAMEKMIHFLVkkGYREIGLLSAkqdlsiFKQYLESWHTTlfahhisplkiHHVVEDIS 228
gi 152970300 164 ILEIGalnthpvgmCIGVDYGKAVKQIVTHLAdaSLKNIALLCTpanntmFRQLLSGWNTAmlalnrsphrvVTTHLPST 243
gi 49613220  210 TVNVSgaaalsaniNIDIALADAAEQLTLSLLekGYRHVAYIGAhtdnrlQKQQLNGWNKAmlahyhnadlkITIPEAPS 289
gi 16765672  152 VMEMGairsdpidmNIGIDNVAAMYELTEMLIqrGYQNIGLLCAnqeqwiFQQHLHGWYKAmlrhhmspnrvINAALPPN 231
gi 14252935  152 TINVVgspfspaqiTIETAFFEASHKLTEHLLeqGYKNIGFIGAhmdnrlQRQQLNGWHKAmlshyqntdlvITMPDAAS 231
gi 145301050 152 VVEVGamarnpvdmNVGVSNFDAGYQLTRHLIerGYRNIGFLCArqeqwmLQQRMQGWQKAlldnylspdaiINTSELPS 231
gi 149910218 150 VVEIMecnenaidmSVGLDHAQAGYKMTQHLIgkGYKNIGFAGArmd-lrAQLRLDGWRKAiwetelsdarvLTSSYAST 228
gi 91796145  148 VVETMeltetpldiNVGLDQRAAGRAIGEALIaaGYRRIGFCGArld-yrVQLRLAGWEDAlkaaglstqrcQTTPRPSS 226
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                            #                #          
gi 732051    224 iHLGMQLMRDALSAnPDLDGVFCTNDDIAMGALLLCRERNLaVPEQISIAGFHGLeigrqmiPSLASVITPRFDIGRMAA 303
gi 52306255  231 fSAGAKLFNEAISTwGCIDAFVFLSDELACGALFEAQRQHIgIPYDVAIIGLGDLeisqttyPALTTLNIPYAKLGETAG 310
gi 153092959 229 fSAGATLLTEALLNwEAIDALVFLSDELACGALYEALRRHMsIPKDLAIAGLGGLevgsisyPKLTTIAIPYEQMGKIAG 308
gi 152970300 244 iATGVNIFKDMMITwGDLDALICTSDEMACGCMMACHSAGIkVPNTVAIASLGGGvlstvcsPALTTVEFPWHDIGVKAG 323
gi 49613220  290 lQFGRYAMTELLQNqPELDAIICSHEEIALGALFECQRRLMkVPYDLAIACLDGSeqcehtfPALTAMRLDYEKLGAEVG 369
gi 16765672  232 fSTGASQLPEFLLAwPELDALVCVSDELACGALYECQRRRIkVPDDLAVVGFGDSdvsrvcqPPLTTMAVPHRKIGSEAG 311
gi 14252935  232 lQLGRYALNEILLRqPELDAVICSHEEITLGIMFECQRRLLkIPGNIAVACLDGSdncdqthPTLTSIRIDYKKMGTETG 311
gi 145301050 232 fSTGAAMLGEFLLRwPELDALVCVNDELAAGVLFECQRRHLsVPGKLAIAGFDDLdvaracyPALTSVRIPYRKMGQEAA 311
gi 149910218 229 yQMGADMLTEILGEwPDTDCIFFCNDDLAAGALFECQRRNLkVPKDIALVGFNDLdicsatnPKLTSVCIPRFDIGEQAA 308
gi 91796145  227 yRLGGELLSAMLERwPDMDAVFCCNDDLAAGALFECQRRRLdVPGQLALAGFNGLditdatwPTLTTVVTPRRAIGERAA 306
                        250       260       270
                 ....*....|....*....|....*....|.
Feature 1                                       
gi 732051    304 QMllskik---nndhnhNTVDLGYQIYHGNT 331
gi 52306255  311 KKlaell------qtekDPQTECIQLISTLR 335
gi 153092959 309 KQlltllsg-ktlsaeeMIVKLPTKLVIRDS 338
gi 152970300 324 KAllelln----dkpgeKFIEIPSVLKVRAS 350
gi 49613220  370 RLvlammd---nddrppVLEKVTFIFEPRAS 397
gi 16765672  312 RAllerln----qgnwsDRKSIASSLCMRES 338
gi 14252935  312 KLligllnnnhdeseesRIVQFNYQIELRQS 342
gi 145301050 312 ELilrqla---gepvmgTALTLDFQLQKRKS 339
gi 149910218 309 KLllkrin---depiesKHLDLGFIISERAS 336
gi 91796145  307 STliarlr---gqprepCRHDMGFEIVLRQS 334

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