Conserved Protein Domain Family
PBP2_ToxR

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cd08465: PBP2_ToxR 
The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold.
In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which 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: 176154
View PSSM: cd08465
Aligned: 16 rows
Threshold Bit Score: 265.327
Threshold Setting Gi: 126464868
Created: 21-Oct-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putativeputative
Feature 1:putative substrate binding pocket [chemical binding site]
Evidence:
  • Comment:based on the sequence-structure comparison with Burkholderia sp. DntR structure (1UTH_A)

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                    # ##   #                                                          #       
AAV52816            98 VFRVSMSDYGARIVLPKLVRMLRANAPGIELVVSQanreaMRMQVMDGEVDLALGVFPpps-peLHTETLFVETFACLAD 176 Burkholde...
NP_252011          101 HFRLGMSDYGAWVVLPALLRQQQALAPGVSFGIVQeprleTARQVAEGQLDCALGVFPllp-egVRARRLFEERFVCVCR 179 Pseudomon...
YP_294401           98 TFRLAMSDYGALVVLPRLLRAVRKAAPNIDLVVTQasreaMTAQVADGEIDMALGVFAhqp-egVHATALFEESYACAVD 176 Ralstonia...
YP_001041844        97 VFRLTMSDYGAGLVLPGLMRQLRRIAPEIRLVVTQksreaMIEAVSEGEADLALGVFPglp-pqLEAELLLTDRYICLLD 175 Rhodobact...
YP_001339356       117 VFRLAMSDYGSRVVLPGLIQILRSRAPGIDLQVIQgsrtsMLTGVYDGEIDMAFGVFNsplsdeLHTHTLFIEHFICAAD 196 Marinomon...
REF_MGH:PA14_21080 101 HFRLGMSDYGAWVVLPALLRQQQALAPGVSFGIVQeprleTARQVAEGQLDCALGVFPllp-egVRARRLFEERFVCVCR 179 Pseudomon...
YP_002871068        98 RFRLAMSDYSAAIFLPDLVRTLRREAPGIDLQIIQasregMVEGVLNGDLDLAAGVFPdmp-aeLRTTPLFDEHYTCLVD 176 Pseudomon...
YP_051951           98 HFRLALSDYGTNAVLPTLMRHLRMQAPGISLAVSHasremMLAQLLDGEIDLSLGVFPerp-peVHAEVLFEEHFACLAD 176 Pectobact...
YP_258162          101 IFTLAMSDYGAALVLPNLMVRLRRDAPNTTLVVTQdtrhgMFEQVSQGKIDLALGVFPnls-gdISTEVLFEETFSCLLD 179 Pseudomon...
YP_347050           98 TFRLAMSDYGAALILPGLIRTLRAEAPGIDLQISHasregMVEGLLNGDIDLAAGVLPelp-geLRSTPLFEERYVCLLD 176 Pseudomon...
Feature 1                                            #                                                 
AAV52816           177 aasmp-asrmLDLEAWLARPHALVamragTDNEIDRALaqlraerriAVILPHWGVANELVVDtDLVLTVARRNLDAvrd 255 Burkholde...
NP_252011          180 rslfd-rpdgLSLDRYLAARHVRVslqdnPAEEVDSALekrglrrqvALTLPHFTVAPALLAGtDLVLTIAERTLERlrl 258 Pseudomon...
YP_294401          177 aatvr-dngkLDQVAYLARSHVLVathseRVDAIDAAVakiggrrkiACVVPHWSVAPALIAGtNLVLTTARRSLAAlea 255 Ralstonia...
YP_001041844       176 pahqpvrsggLTAEAFWSAPHAHVavqgdFTTEIDLHLkdrggprrlALILPHWSIAPKVIAGtDLILTVASRAVPAap- 254 Rhodobact...
YP_001339356       197 kntlp-ktgsLEKTQWLSRPHILVamqtnESNEIENALhregvsrriAMTLPHWGVASHMVANtDLILTAARRSFDLfle 275 Marinomon...
REF_MGH:PA14_21080 180 rslfd-rpdgLSLDRYLAARHVRVslqdnPAEEVDSALekrglrrqvALTLPHFTVAPALLAGtDLVLTIAERILERlrl 258 Pseudomon...
YP_002871068       177 rnslp-asgaLDLPTYLSRPHVLLemrgsGTPEIERALtairqrrhvAISLPHWGVAPQLIQGtDLILTVSSRGLLNid- 254 Pseudomon...
YP_051951          177 rdtlp-engmLSFDAWLERPHILVtmhpdSANEIDSTLaasgrtrnvVLTLPHWHAAINLIAGtDLVLTAARRSMTRin- 254 Pectobact...
YP_258162          180 rrtlp-adgtLDLDSYLARPHILVsmdgsANGEVDSLLrdeglqrriAVSVPHWRTAPSMIHNtDLILTVATRTLDEall 258 Pseudomon...
YP_347050          177 rqslp-aggvLDLPTYLSRPHVLLemrgsGTPEIERTLtalrerrrvAISLPHWSVAPRFISGtDLILTVASRALNEvd- 254 Pseudomon...
Feature 1                               #                        
AAV52816           256 daRLCVFDPPFPVESFEFQQMWHQRRQGDPAHSWLRQMIARV 297 Burkholderia glumae BGR1
NP_252011          259 peELALCEPPLAIPRFDYVQIWRGDAEREAAGAWLREQIQAA 300 Pseudomonas aeruginosa PAO1
YP_294401          256 dpRYAVFDPPFPLDDFTFTMIWHDRTEADPGHTWLRERVQAA 297 Ralstonia eutropha JMP134
YP_001041844       255 -ePLIVTAPPVPLPPIPFSAIHARRRKADPALRWLIARLREV 295 Rhodobacter sphaeroides ATCC 17029
YP_001339356       276 dsPLQLFTPPYPIDPFKFSMVWHSRRESDAGHNWLRHTIIEM 317 Marinomonas sp. MWYL1
REF_MGH:PA14_21080 259 peELAVCEPPLAIPRFDYVQIWRGDAEREAAGAWLREQIQAA 300 Pseudomonas aeruginosa UCBPP-PA14
YP_002871068       255 haHLLAVPPPFHIPSFAFELAWHARRGGDAGLQWLIGRLQGG 296 Pseudomonas fluorescens SBW25
YP_051951          255 tpDLHIFPPPFTIPNFAFQQVWHTRRESDPAHRWLRKAIWES 296 Pectobacterium atrosepticum SCRI1043
YP_258162          259 nqDLIQLRPPLPIPPFPFVQIWHQRFDNEPAHVWLREQVKQV 300 Pseudomonas fluorescens Pf-5
YP_347050          255 dqSLIVLPPPFEIAPFTFVSAWHKRRGGDQALNWLNRRIEQG 296 Pseudomonas fluorescens PfO-1

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