Conserved Protein Domain Family
PBP1_LacI_like_6

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cd06284: PBP1_LacI_like_6 
Click on image for an interactive view with Cn3D
Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria
This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and 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 sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. 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.
Statistics
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PSSM-Id: 107279
View PSSM: cd06284
Aligned: 36 rows
Threshold Bit Score: 317.966
Threshold Setting Gi: 114766019
Created: 6-Jan-2008
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand bindingdimerization
Conserved site includes 4 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:3C3K_A; Actinobacillus succinogenes transcriptional regulator binds glycerol, contacts calculated at 3.5 A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                  #                                                                     
3C3K_A        10 MLLVMVSNIaNPFCAAVVKGIEKTAeknGYRILLCNtesdl--arsrsCLTLLSGKMVDGVITMdalselp---elqnii 84
gi 16265172   66 MILVVAPDIgDPNFSSILVGLENEArshGYGVLIGHtqnda--qraveYLKFLNSNQAAGLILFtgilpfg---hetiaa 140
gi 69934819   69 CVVALVPNLgNPFFAKILDGMGRELagaGYDLLVADtleds--grhtrLDRFLDPSRADGIILLdglapfg---dlagra 143
gi 163757593  65 AIVVMVPDLgNPFFSRILSGIEEGLsksDLNMLVVDtrqah--lkpqlLLNYLHATRADGIIALdgslpdtvlsatlsgp 142
gi 84500044   64 SILILAPNLsNTFFSRIFAAIQEEAsavGLTVQISDsrig-----rdrLLSLGYDGRADGIVLLdgsldp-----elvng 133
gi 89053950   65 AVLILVPNLgKPFYSEILQGISDGFagsDYAVLIADtesrp--lhkaeLAGNFISGRIDGVVSLdgglspaaldackaag 142
gi 77389239   65 SILALVPNLaNPFFSEILSGLASVLtpaGYGLLIADthtd----pagrLTYYLESGLADGVVVFdgtlpee----alatr 136
gi 114766019  67 GVLALVPNLaNPFFSSILAGIADALreeGLSLLVLDtrradtgsptggIRSYLTRSRADGLIVLdgsldpa----lfsqp 142
gi 15890610   66 TVILLVRDIgNPFYLEIYKGVEEAAgeaGFKVLMGDarnde--hrvatHIDMVRQKHADGLILMtgqfpse---lldqad 140
gi 16263765   64 TVLMVVRDVgNPFYLDILKGVEATAreaGYAVLMGNtendp--areteYFSMLRDGHADGMILMtgklps------agdw 135
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                 #                      
3C3K_A        85 gAFPWVQCAeydplstvsSVSIDDVAASEYVVDQLVksGKKRIALINHdlayqyAQHRESGYLNRlkfhg-ldysRISYA 163
gi 16265172  141 rLPPSVGIFepvfnggipYVGVDDVEGARKVVDLLIaeGHRKIAFIGDsrtrlaYKRRRSGYDAGldaagvpaelRLVQE 220
gi 69934819  144 dLPPVITACewiegadmpRVMLDNREGGRLAVAHLRdlGHAHIGLIGGppgnvlHKARRKGAMQAagq-----arITEFP 218
gi 163757593 143 dAPPIIFACewtpadrfpSVRVNNERGARLAIAHLTdlGHRSIGMISGprdnvlTGTRSQGVAAEmaarnlaldpAHVFD 222
gi 84500044  134 wHLPLVQLSewndaydapRLGIDNRAAAGLAVDHLAdlGHRALLHVSGpednvlALTRREGFLDTaesr---dlaRIVLP 210
gi 89053950  143 vDGRIVFACewvegytfpSIQSDNAEGARLAIRHLTelGHRKIAHITGpqgnvlTGVRRRGMMEErtrlglpareDWIIR 222
gi 77389239  137 rRPPVILACewmg-etlpSVRVDNAAGAEIAIRHLYemGHRRIGHAMGpvgnvlTESRLAGARRElealglplreDWIFR 215
gi 114766019 143 sCPPVVQACewidglagpRVLADNAAGARFAVEHLLglGHRRIMHVTGpsentlSQSRAAGVAQAlaal--glapVARME 220
gi 15890610  141 aLPPIVIASetvpglalpTVKVDNRAASMNAMRHLIaaGHQRIVHLAGpvpeslAQERFDGYRAAlaeagiayadELVVT 220
gi 16263765  136 nHLPVVVALemiegsglpHVQVDNVAAARGAVQHLIslGHRRIAHISGpvpepmSVYRREGFRLAmrdagltipaGYEVR 215
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                  #                #    
3C3K_A       164 ENLdYMAGKLATFSLLKsa--vkPDAIFAiSDVLAAGAIQALTESGlsiPQDVAVVGFDGVdisqitvPALTTVQQPsEQ 241
gi 16265172  221 GDGtLESGRAAVERLFVrd--tlPTAFMCvNDQTALGVMIGLKARGydiPRDFSVTGFDDVpqatfmtPALTTIRQPrTL 298
gi 69934819  219 GDFtLQSGQQAALAWRAlppsdrPTGIFAfSDEMACAFMSGLQRAGhhvPRDVSIVGFDDIelvshlaPALTTIRQPkRE 298
gi 163757593 223 GDFsIEAGAKAAAAWLGlp--nrPSAMFCqSDQMAFGFISELTRLGistPEDVSVVGFDDIdiarrfiPALTTVHQPrTA 300
gi 84500044  211 GDFtLEAGAEAARRWSRlr--drPTGVFCaSDECALGFISECVHMGfdvPGEVSVMGFDDIdfadrflPSLTTIHQPrKE 288
gi 89053950  223 GDFsLQSGHEAAAKILFmd--drPTAVFCaADMVAFGLMAGLQAGGvrvPDDISVVGFDDIdmsefyvPALTTIRQDrVR 300
gi 77389239  216 GDFgLASGSAAAMTWLGlk--erPTAVFCaSDEAACGFMGALQHAGisvPSAVSVVGFDDIevaahlvPPLTTIRQPrRQ 293
gi 114766019 221 GAFtLASGHAAAAALMAep--erPTAVFCdNDEMAIGLMAGLQARGlrvPDDVSIVGFDNIemaayanVPLTTVRQKrAH 298
gi 15890610  221 GDYsIEAGRQAIAGLLEgg--iaFTAIFAsSDQMAIGAISELRGRGlsvPADVSVIGFDDIifanafePPLTTVRQPrQE 298
gi 16263765  216 GDFlIESGEECCRSLFSls--dpPTALFVaNDEMAYGAVHELRRIGrdvPGDVSVVGFDDLylskafyPPLTTVGQPrSE 293
                        250       260       270
                 ....*....|....*....|....*....|....*....
Feature 1                                               
3C3K_A       242 IGMKAVSLLLeqihsd----vlaktVHHLLPWKFVRRQS 276
gi 16265172  299 IGKHAMALLLellsd-----rrpaeTEIFLRPDLVVRNS 332
gi 69934819  299 IGRKAARIVLdrisg------reipAVTLLEPRLMERET 331
gi 163757593 301 LGLAAAEIIIrhigap----ddrssKPNILDVELIARDS 335
gi 84500044  289 MGRAAARRITqmmqgsegtlrrslpPATPIAARLVKRSS 327
gi 89053950  301 LGRTAAARLLerisap----qaplpPEDLLSVDLVVRAS 335
gi 77389239  294 IGRRAGELLSamiea-----ralggPSELLPVELIRRQS 327
gi 114766019 299 LGRRAAEMLLahraa------pkldEELILPVELVIRQS 331
gi 15890610  299 MGRRAMALMVdrlng------krtaETIVLDTELVVRGS 331
gi 16263765  294 IGRTAMAVLLgilag-----gsevaEPIVLPTVLKVRGS 327

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