Conserved Protein Domain Family
PBP2_IlvR

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cd08453: PBP2_IlvR 
The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold.
The IlvR is an activator of the upstream and divergently transcribed ilvD gene, which encodes dihydroxy acid dehydratase that participates in isoleucine, leucine, and valine biosynthesis. As in the case of other members of the LysR family, the expression of ilvR gene is repressed in the presence of its own gene product. This substrate-binding domain shows significant homology to 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: 176144
View PSSM: cd08453
Aligned: 12 rows
Threshold Bit Score: 300.047
Threshold Setting Gi: 32815757
Created: 26-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 sequeuce similarity to CatM from Acinetobacter baylyi ADP1

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1              #                                                #                        
P52670        92 YLSLSFVStadySVLPDLVRRYAEAFPgVEIQLVEatsdvQVPAIQAGeRHAGIIIpppnrslpaaLAYRRLVSePLVAV 171 Caulobacter vib...
AAP88274      97 RIRLAFVStvgfEQLPAWVRAFRAVHPqVALELVEatgdvQLQALERGeIDAGLMLhspgf-appgLAHLQVATePLVLA 175 Delftia acidovo...
YP_001099054  94 RLSLAFVStadySVLPPFLREFRESYPgVEIDLREattdvQLDDLMQGrIDVGLLIpplpdkaklqLDYLPVLSePLILA 173 Herminiimonas a...
NP_520532     92 SLSLAFVStadyGILPAMLRHFRDARPdVQVQLREatsdvQIEALLADeIDAGVVIahhigsvpgeLEYRPLAReGLVLA 171 Ralstonia solan...
AAA80550      92 YLSLSFVStadySVLPDLVRRYAEAFPgVEIQLVEatsdvQVPAIQAGeRHAGIIIpppnrslpaaLAYRRLVSePLVAV 171 Caulobacter vib...
YP_548881    119 RLRLAFVStvgfDLLPGWVRTFRERYPkVQLELIEatgdvQLQALERGeIDAGFMLhspgf-appgLTCRRISQdPLVLA 197 Polaromonas sp....
ACV75977      92 HLDLSFVStadfNILPILVRRYRALYPdVELSLSEatsdlQISDLTKGlRHAGIIIpprsselpssLSYKKLVSePLIAA 171 Zymomonas mobil...
YP_001352341  94 RLSLAFVStadySVLPHFLREFREAYPqVEIDLREattdvQLDELAQGrIDVGLLIpplpdkaklqLDYLPVLSePLILA 173 Janthinobacteri...
YP_745760     92 RLELSFVStadySILPSLVRRYAALYPdVEIVLTEatsdvQIDALLHGrGHAGIVIhpdrstlpaaLAYHPLTReKLIAA 171 Granulibacter b...
YP_001265132  92 RLSLAFVStadyNVLPTLVARYSSAFPeVELELVEatsdvQVEDLLSGrINAGILIstrsa-lppaLAYRPLLNePLVAA 170 Sphingomonas wi...
EET09156     108 SLALAFVStadyGLLPELLREFGARYPhVRLQLAEatsdvQIEELVAGrIDAGLVIppvpprhaasLSYLPVLRePLIVA 187 Burkholderia ps...
YP_001790524  93 QLRLAFISsisyGPLPEWLRSFREAHPeVALTLREatldvQLAAFDADeIDAGFVLhapga-appsFAAWSALDePLMMA 171 Leptothrix chol...
Feature 1                                      ##      #                                         
P52670       172 TPEAWgaegp-------ldlaaLADVPLVLFPrtvaPAFHDLVTGYVaa--rGQPVr--iVQEAIQmqTIISLVSAGlGM 240 Caulobacter vib...
AAP88274     176 LPAHHalaeae-----hpawpaVLAEPLVIFPrrivPSLHDAVFGLYpr--aGCLPv--vPQEAIQmqTIVNLVSAGiGV 246 Delftia acidovo...
YP_001099054 174 APKGLkalkgkq----svalqsLAELPLIIFPrriaPAFHDAILSCYrd--aGLTPh--iGQEAIQmqTIIGLVSAGmGI 245 Herminiimonas a...
NP_520532    172 VPAARaaqwgarp-grpialadVAAEPLIIFPrrsaPALYDIITGYHaahggAQEAsariAQEAIQmqTIVSLVSAEmGV 250 Ralstonia solan...
AAA80550     172 TPEAWgaegp-------ldlaaLADVPLVLFPrtvaPAFHDLVTGYVaa--rGQPVr--iVQEAIQmqTIISLVSAGlGM 240 Caulobacter vib...
YP_548881    198 VPEQSvlvgks-----glvlqdLLEQPLVIFPrhilPSLYDAIFAMYha--aGHLPr--vAQEAIQmqTIVNLVSAGlGV 268 Polaromonas sp....
ACV75977     172 VPALWikeqrlslvnrklspnsVRQAPLIIFPrhfaPAFYDIVMDYYqa--cGGYPn--iAQQAIQmqTIISLVAASmGI 247 Zymomonas mobil...
YP_001352341 174 VPKGLkavrgkq----tvalqaVAELPLIIFPrriaPAFHDAILACYrd--aGLTPh--iGQEAIQmqTIIGLVSAGmGI 245 Janthinobacteri...
YP_745760    172 VPDNShdls----------phaIMQSPLIIFPrhsaPAFYDLVTHYHar--yGGGAa--iAQEAIQmqTIISLVSAGmGI 237 Granulibacter b...
YP_001265132 171 VPESWidegrlatgdgtlrddrWMAQPLIIFParvaPDFHDLVMRFYrs--rGHQPf--iRQEAIQmqTIISLVSAGlGM 246 Sphingomonas wi...
EET09156     188 MPAEAaeaadaaa-dapvriadIASLPLVIFPrrlaPGFYDIITGCYga--aGVTPr--iGQEAIQmqTIVSLVSAGmGV 262 Burkholderia ps...
YP_001790524 172 LPQTHpaaaqa-----vlewadVCAEPLVIFPrhiaPSLFDALLGAYra--qGATPh--iAQEAIQmqTIVNLVSAGmGV 242 Leptothrix chol...
Feature 1                                                                     
P52670       241 ALAPASlrklaRVGVRYVDLVdp---------pILETGLVWRRdea----aptLQGLLRLV 288 Caulobacter vibrioides
AAP88274     247 AWVPESvmqfrRQGVVYRVPDtrrrkgqpratpVCETSLVWRAqpdgsgvapaLARFVDFV 307 Delftia acidovorans
YP_001099054 246 ALVPQSvsnlkRPGVDYKPLAnk--------tpLVETGLAWRRdna----spvLKAFLELL 294 Herminiimonas arsenicoxydans
NP_520532    251 ALVPASlcnlqRTGVVYLELAep--------spVIETGLVWRRdav----spvVPWFVASA 299 Ralstonia solanacearum GMI1000
AAA80550     241 ALAPASlrklaRVGVRYVDLVdp---------pILETGLVWRRdea----aptLQGLLRLV 288 Caulobacter vibrioides
YP_548881    269 AWVPDSvrqfqRPGVVYRELKrgkg----qvvpGCETSLVWAAgaa----spaLQRFMAFA 321 Polaromonas sp. JS666
ACV75977     248 AIVPRSlrhmaRRDVRYIELQkp--------aaLLETGIAWRKddq----tptLTRFLDVT 296 Zymomonas mobilis subsp. mobilis N...
YP_001352341 246 ALVPQSvsnlkRPGVDYKALAdk--------tpLVETGMAWRRdnt----spvLNAFLELL 294 Janthinobacterium sp. Marseille
YP_745760    238 ALVPASlrhlaRTGVRYVDLEed--------apILETGMIWRRddt----apiLSRLLEVA 286 Granulibacter bethesdensis CGDNIH1
YP_001265132 247 ALVPASlrhlaRTGVRYLPLAga---------pELETGLAWRErdd----sptLAAFLGIA 294 Sphingomonas wittichii RW1
EET09156     263 ALVPQSlrnlrRTGVVYRALAdp--------apVVETGLVWRTddv----spvLAGFIDVV 311 Burkholderia pseudomallei 1710a
YP_001790524 243 AWVPESvtrlqRPGVVYRPVRgl--------alRCETSLIWREpas-----pvVARFVGHV 290 Leptothrix cholodnii SP-6

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