Conserved Protein Domain Family
PBP2_TrpI

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cd08482: PBP2_TrpI 
The C-terminal substrate binding domain of LysR-type transcriptional regulator TrpI, which is involved in control of tryptophan synthesis, contains type 2 periplasmic binding fold.
TrpI and indoleglycerol phosphate (InGP), are required to activate transcription of the trpBA, the genes for tryptophan synthase. The trpBA is induced by the InGp substrate, rather than by tryptophan, but the exact mechanism of the activation event is not known. This substrate-binding domain of TrpI 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: 176171
View PSSM: cd08482
Aligned: 8 rows
Threshold Bit Score: 270.042
Threshold Setting Gi: 254521880
Created: 19-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 Vibrio Parahaemolyticus GcdR-like structure (2QSX_A).

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1              ## #                                                                      
P11720        95 PFVLGVPGsLLARWFIPRLDQLNRALPdLRLQLSTsegeFDPRRPGlDAMLWFaeppwpadMQVFELAPERMGPVVSPrl 174 Pseudomonas aer...
CAY46322      95 PFVLGCSGsLLARWLIPRLGRLNADLPdLRLHLSAgdgdLDPRRPGlDALLVFaeppwpadMQVYELASERIGPVMSPry 174 Pseudomonas flu...
ZP_05133935   96 ALVLGCSGsVLARWMIPRLPALQAALPgVRLQWSAldgsFTEAQAAlDAVLLLaqgpwprgWQVRELAPERVGVVVAPsh 175 Stenotrophomona...
ZP_01737876   98 PLVLSCSGsFLARWFIPRLGRLRQDCPgLDIHLTTtd-eELHLPAGvDAALGFtsapapsgQNLIVLGPERIGPVMAPgl 176 Marinobacter sp...
NP_887584     90 PLSLSCSAsIMMRWLIPRLANFKKMRPdIDLRVSAdhgpVDLLREGiDVAIRNnvvptpqdVVIKPLMREWVGPVCSPey 169 Bordetella bron...
YP_002543720 111 SLDVSCPGtFTMRWLIPRLYRFQAEYPdIEVRLTAssrpVDFTRDGfDVAIRVgaapwpegAEVIALFPEQTGPVLSPsl 190 Agrobacterium r...
ZP_02893465  109 RWVLSCEPtLLMRWLIPRWPAFQATYPrVDIHLAAag-gPFSFDHGiDIAIRRndfawpagYHAERLFTERVGPVCRPdr 187 Burkholderia am...
YP_001478046 107 PLVLSCEPtLLMRWLIPRLPAFQLAHPdINLQLVAgg-gPFSFKDGiSAAIRRndfdwgdkLHSVTLFDERVGPVCKSem 185 Serratia protea...
Feature 1                                                          ###                   #       
P11720       175 aqetglaq-apaarllqePLLHTasrpqAWPAWaasqglaaealryGQGFEHLYYLLEAAVAGLGVAIAPepLVRDDLAA 253 Pseudomonas aer...
CAY46322     175 agyehlrq-apaqalcdeALLHTtsrpqAWPSWaqqhgiapgalkhGQGFEHLYYLLEAAVAGLGVAIAPepLVAEDLRA 253 Pseudomonas flu...
ZP_05133935  176 paaqrlrh-vppsallqeTLLHTssrpqAWPAWaqahgldasklqlGTAFEHLYYLLEAAVAGLGPAIAPepLVAEDLAA 254 Stenotrophomona...
ZP_01737876  177 apanpdm---pasallelPLLETlsrpqAWPQWckhqqldtqslpiRQSFEHLNYMLEAALVGLGVAIAPqyLVEEDLRS 253 Marinobacter sp...
NP_887584    170 assvplr---aladlgaaRLLTTssrpdAWSDWaalsgwageplaeHESFEHFYLVLHAAACGLGVAMAPrfLVADDLAS 246 Bordetella bron...
YP_002543720 191 agtvt-------anfagvPQLHTrtrlrAWGDWlsrsgv-pveagtRVEYEHFYFMLEAASAGLGVCVAPwpYVTDDIRF 262 Agrobacterium r...
ZP_02893465  188 vdtwfsggrdgraltrgaPRLHTrtrpdAWKEWaaaahq-pagsgrGQMFDHFYFSLQAAVAGLGVAIGPwhLVRDDLES 266 Burkholderia am...
YP_001478046 186 vprfiavndgqpslnhdaVLLHSatrpdAWRQWaqqqgv-alkgqpEQRFDHFYFSLQAAVAGVGVAIGPwqQVRDDVAS 264 Serratia protea...
Feature 1                                             
P11720       254 GRLAAPWGFieTDARLALWVPARlhd-prAGRLAQWL 289 Pseudomonas aeruginosa
CAY46322     254 GRLVAPWGFseTPAHLALWLPKRaad-grAGQLAQWL 289 Pseudomonas fluorescens SBW25
ZP_05133935  255 GRLIAPWGFtaTGGFWVLARPEGlad-arVDALTDWV 290 Stenotrophomonas sp. SKA14
ZP_01737876  254 GRLLAPWGFieTRDTLCLRLPGDtvs-prAQRLADWL 289 Marinobacter sp. ELB17
NP_887584    247 GRLVAPFGFleGRRTVVLWITPQlrtredIRALSDWL 283 Bordetella bronchiseptica RB50
YP_002543720 263 GRLTAPLGFidSGHHYVALRRARrn--rkSTLFCEWL 297 Agrobacterium radiobacter K84
ZP_02893465  267 GVLVAPMGFveDGSHYCLLTPEPvkdgsaQSALLDWL 303 Burkholderia ambifaria IOP40-10
YP_001478046 265 GLLSAPFGFmpDGSGYCLLTPQEirpgsaLARLADWL 301 Serratia proteamaculans 568

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