Conserved Protein Domain Family
PBP2_TRAP_Dctp3_4
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cd13665: PBP2_TRAP_Dctp3_4 
Periplasmic substrate-binding component of TRAP-type C4-dicarboxylate transport system DctP3 and DctP4; the type 2 periplasmic-binding protein fold
This group includes uncharacterized DctP3 and DctP 4 subfamilies of TRAP Transporters specific to C4-dicarboxylates such as succinate, malate and fumarate. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. This CD also included some eukaryotic homologs that have not been functionally characterized. TRAP transporters are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.
Links
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Statistics
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PSSM-Id: 270383
Aligned: 74 rows
Threshold Bit Score: 238.634
Created: 2-Feb-2012
Updated: 2-Oct-2020
Structure
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Aligned Rows:
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putative
Feature 1:putative chemical substrate binding site [chemical binding site]
Evidence:
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                                  #            
goetting:HRM2_21500  40 SLNYANFppa--ptfPCVQMEQWKTVVETrtd----navRINTFPGgtllgpkeMMDGVISGqaDIGClcmayqPGRFTV 113 Desulfob...
ZP_03735211          41 NLQFATFwpsv-hfqVEGGHKVWAEEISQrvaaetphtiNFDFHYQgsllgpteIYEGVASGaaDIGStapmytMGMFPL 119 Dethioba...
EGJ51754             39 RLTYSCFfpp--thvQSQLAEAWCKEVEKrtn----gevAVDFFPGgtltkaeeAYDGVVQGmsDLGFsvlgysRGRFPV 112 Desulfov...
YP_753043            57 ELRLAHFwpst-hpaEVELVQPWSKAIEEatg----gkvKIVSYPNqtllqadsIYDGVLNGiaDIGIscfsytRNGFPV 131 Syntroph...
NP_953104            31 TLTYANFppa--atfPCIQMERWAKEVEKrtg----gkvKVKTFPGgtllnaknMFEGVTSGiaDIGNfamsyqPGRFPV 104 Geobacte...
ABB39013             29 RLTYSSFfpp--shvQSVLAEEWAREVEKrta----gavVIDFYPAgtltgarqAYDGVVQGisDIGLsalaysRGRFPL 102 Desulfov...
EFK05705             33 KLTYANFppa--ptfPCIQMERWKKEVEKrtn----gkvAVQTFPGgtllkakaMMDGVINGvaDIGClcmayqPGRFKI 106 delta pr...
EFI33524             40 ELSMVTFwpas-hpqVEKGHNSWIEEVETrtq----grvKINLHAGesllgareIFSGVEDGvaDIGStcpaytPGMFPL 114 Desulfon...
ADG83254             39 KLTYAFFapa--ntfPAKQMEKWKEEVEKrtn----gkvQVELFPGgtlltdknMYDGVRDGvaDIGLscptyePGRFGL 112 Therminc...
YP_064093            26 TIILKYIrsaavshfSSQQMQHWSTEVEQrta----grvKIIDASPapls-aknPYDSLIAGttDIAIfcttdkPDRFPV 100 Desulfot...

Feature 1                                                                 #                    # #      
goetting:HRM2_21500 114 TNavsLPLGIp-dSKVGSLVLt----dLFNAYKPKAFDKVKVLAlFTTAPANIMSRkrv-atlGDLKGMDLRAS-GGAAE 186 Desulfob...
ZP_03735211         120 TMgleLPGYNndnALVASLTMye--awKQSPHLQAEYEDVEVMFlWATGPGDFITNkpi-relEDLSGQQIRAAgGSAMA 196 Dethioba...
EGJ51754            113 MAavdLPLGYr-sGWAATQVAn----qVYAHFKPAEFNDVQPMYfHAHGPGLLHTAkkevrklEDLQGLKLRAT-GNSGQ 186 Desulfov...
YP_753043           132 LEvfeLPGITyesSRVASTVAw----eGIKELNPKEVQDSKLMMvLTTGPGDIYSKvpv-rnlQDLKGLEIRAT-GLSAK 205 Syntroph...
NP_953104           105 SEavdLPLGFt-sARVASLVLy----dLIEKYKPREFEKVKVLTvFTCPPTNFMTKapv-rrlADLKGVELRVA-GTSAE 177 Geobacte...
ABB39013            103 MEavdLPLGYtsgAQATRVANs-----VYSHFVPRELQDVHVLYfHAHGPGLLHTRqkavrslEDMQGLKLRAT-GNSAS 176 Desulfov...
EFK05705            107 TNataLPLGLs-nSEVASLTLw----dLYEKYQPKPFQKVKVLTmFTTAPSNIMSKipi-knlEDLKGVSLRAS-GGAAQ 179 delta pr...
EFI33524            115 TEvfeLPGYRnanSIAASLTVhegykkFKEDLEVDEFSSVKVLMfWATGPGDIMSKipv-etlEDMQRLEMRAA-GGSAV 192 Desulfon...
ADG83254            113 IGisdLPSGFp-nSKVSSQVFy----dLVREFPPDALKDYKIIAaFATEPAHLMTKkpv-kslDDLKGMQIRIS-GALTP 185 Therminc...
YP_064093           101 TNsiaLPFGFa-dAKTASAAMr----dLVLKYAQEEFSNTTLLTvFTGAPSNFISIkpi-kyaSDLKNISLGIPkESTRK 174 Desulfot...

Feature 1                            #                #                            #                    
goetting:HRM2_21500 187 ILKIWGANQIGMPMsaTPEALQKGvVQGLFSSLEVMKDLkfAEECPYAT--LTNTVVYPFAVVMNLDRWnalPQAVKTVM 264 Desulfob...
ZP_03735211         197 ITELGGTPVSLPMSd-AYVALDNGnVDGILGPTDTLDGFrlAEVTQYITktPFVGYNVVFAKVMNQDTWnsfPPSVQEIF 275 Dethioba...
EGJ51754            187 LVKALGGTPVAMSMpdSYQAIQKGvVNGGMYPVETNKGWnmAEVVHFMTetQPVAYTTTFFVVMNKARWeslSPKARQAI 266 Desulfov...
YP_753043           206 TLQALGATPVAMPQsdAYESLSKGvVKANLGPVEVLKGWkqAEVTQYLTq-TPFLYNTLFFVTMNLDKWnslDPETQKAI 284 Syntroph...
NP_953104           178 VAKRLGAVPVAMPQseTPEAIQKGiVKGMISSLEILQDLkfASYTPYAT--IANLPVVSFAVVMNKAKWdslPADVKNAL 255 Geobacte...
ABB39013            177 VVKALGGTPVAMSMpeSYQSIQRGvVDGGMYPAETNKGWkmAEVVDYCTeaVPVAYTTTFFVVMNKDRWeslPGEVQETI 256 Desulfov...
EFK05705            180 ILKAWGATRVGMPMpeTPEALQKGvVKGLFSSLEVMKDFkfAEMCKFVT--MTQVPVYPFAVVMNMDKWnslPKDVQKVF 257 delta pr...
EFI33524            193 PVKTLGAVPHSMPMseAYLALDQGlVNSILGPTDTMKGFrlAEVVQYVTr-TPFLYNIPFVKVMNQDAWnslPEDVQDIF 271 Desulfon...
ADG83254            186 VLRDLGATPVGMGMaeVPEALQTGiIDGLVSSREVLKDLklAESLKYTT--DYPLTVTSFIAVMNKDVWeslPPDVQKVI 263 Therminc...
YP_064093           175 IAKEWGTKPLLTAGadMTEAMEKGrIEGVFTSLAAIRENnlAPNCKFIT--LTNQIVSPFAVVMNQNRFtqlPADIQKIL 252 Desulfot...

Feature 1                                                                                        
goetting:HRM2_21500 265 ENLSREQAVwtgt-ymdnHVNDAVEWSKKthgvEFVElddasaATWNKALAPITQRWIttasekgFDGKAIVD 336 Desulfobacteriu...
ZP_03735211         276 NEVNEKYIVeygk-lftdYTAEGQQFAETefghEVIEleaderERWMEKILPIPRQWVadteadgLPGQETYD 347 Dethiobacter al...
EGJ51754            267 AAINVEWAEkhaq-awdaSDVVGMEFFKSkg-gKVLPlnngeaERWIKATEPLLAQYVqeakakgLDGQAVLN 337 Desulfovibrio a...
YP_753043           285 EKVNEKFFKevaaglwdkQNDEALKWAVDekgmELIQlpadeaQRWIELVKPIQDDFVkrmdkqgFEGAKILN 357 Syntrophomonas ...
NP_953104           256 DTLSRDQAAwtge-yadrHVQESLAWAKKgyqhQVFTlpaadqKQINALLSPMVDDYVkkvsaqgLNGKQIVT 327 Geobacter sulfu...
ABB39013            257 TWISREWAPrhga-awdeSDAEGRAFFAAqg-nSFITleeaemARWKQAVEPVVQEYVrqaakrgVDAEGVVE 327 Desulfovibrio d...
EFK05705            258 DDLRVEQTKwtgn-ymdnHVKEAMDWSVKtqgvTVFDlspeqkAKWDGLLEPITAKWIkdnaakgLPAQAIVD 329 delta proteobac...
EFI33524            272 EELNEEFVIkygq-ifadASREGLQFARDehgiEVIElsgeeeDRWIERLDMVVDDWIeekkargLPAEEAVS 343 Desulfonatronos...
ADG83254            264 DELGPEMARwtgeyhdnhVQEALKWSAREhg-lQVVTlseeekAKWDAKLKPLQDKLVkdlkakgLPAEEYRN 335 Thermincola sp. JR
YP_064093           253 QGLFVEQSEwtae-yidrQVQESVKWAVTehnmQIIHpaqrlsTKLNKTASNSIGLWAinesqygVSTEEILA 324 Desulfotalea ps...

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