Conserved Protein Domain Family
PBP2_NikA_DppA_OppA_like_20

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cd08519: PBP2_NikA_DppA_OppA_like_20 
The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold.
This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains 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. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.
Statistics
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PSSM-Id: 173884
View PSSM: cd08519
Aligned: 31 rows
Threshold Bit Score: 567.248
Threshold Setting Gi: 148272768
Created: 7-Feb-2010
Updated: 2-Oct-2020
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
CAP46814      61 TLTIGVTdkvtELDPAMAYDffTWEIFYNTMSGLVMYKpgttELIPALATSWEVkdn-gtVWIFHLRHdAKFCDGTPVTA 139 Thermoproteus t...
YP_001733659  52 RLALGTTakprTIDPADSYEiaGLNIIYNVTESLYTYEigttEIKPLLAAALPAisddglTYTIPLREgVTFHDGEPFNA 131 Synechococcus s...
ZP_03273806   59 RIIIGTTqtlrTIDPADAYEviSGNLLYNLGDRLYAYEvgttQLQPQLATDFPTisddrlTYTMPLRQgVLFHDDTPFNA 138 Arthrospira max...
YP_001518258  47 RITLGSTakirTIDPADAYElfPATLLYNMGETLYTYDldntTLQPQLATALPTvsedglTYTIPLRQgVVFHDQTPFNA 126 Acaryochloris m...
YP_001518943  50 RLALGTTgkvrTLDPADALElfSGNLLYNMGDRLYAYKsgttELAPQLATELPKvsedglVYTIPLRTdVVFHDDTPFDA 129 Acaryochloris m...
YP_002484669  29 RVTLGTTarvrTLDPADAYEvfAGTLLYNLGDRLYTYKg--tTLVPQLATALPIvsedglTYRIPLRQgVLFHDGTRFDA 106 Cyanothece sp. ...
YP_171428     34 RIVVGTAarlrTLDPADAYEllSGALLYALGDRLYTTRpdsvEIVPQLATALPEispdglTYRIPLRQdVRFHDGSPFNA 113 Synechococcus e...
CAO89160      38 RLIIGTTlkprSIDPADSYElaGLFIIYNLGETLYTYAegttNLKPLLATELPQispdglTYTIPVRRgVIFHDGTVFNA 117 Microcystis aer...
NP_682248     40 SIVIGTTarlrTLDPADAYEnlAGLLLFNLGDRLYTYKg--nDLIPQLATALPEvsddglTYRIPLRRgVYFHDGTPFNA 117 Thermosynechoco...
NP_893166     29 RIIVASSgkieSLDPARASTlkSLQLLSSLGDTLYELNse-gELIPELAAGMPIfskdklQIIINLKKnVLFHDGTLFNS 107 Prochlorococcus...
CAP46814     140 QNVVWSIERVMRIngdPAWLVTyfVKNVTALDNYTVMFVLKRPvaYFLALLatppyFPVSPkynptq--vdpdqtAGGAG 217 Thermoproteus t...
YP_001733659 132 AAMKFSLDRFMENkgkPSFLLGdiIENIEATGEYELTITLKQPfaAFPALLafagaSAVSPaayeigegafnpsqLVGTG 211 Synechococcus s...
ZP_03273806  139 EAMAFSLRRFIENggpPSSLLSdiVDEITATGEYELTIKLKRPfaAFPSLLafsgaCAVSPsayeigpgkfrpnsFVGTG 218 Arthrospira max...
YP_001518258 127 EAMAFSLRRFMENggqPSFLLAepIADVKATGDYELQITLNQPfaALPALLtffgaCAVSPqaytigpgefkpksFVGTG 206 Acaryochloris m...
YP_001518943 130 KAMEFSLNRFIQNggqPAFLLSdvVDSVTAKSAAELEIQLKKPfaAFTDLLafsglVAVSPkayeigpgkfnpstFVGTG 209 Acaryochloris m...
YP_002484669 107 RAMVFSLERFIKNegqPSALLAgrVESIQATGEYELEIRLKKPfvAFPALLafsglCAVSPktyaigagqflptqFIGTG 186 Cyanothece sp. ...
YP_171428    114 AAMAFSLQRFIKNggrPSYLLGdrVASIQATGDYELTIQLKAPfaPFLALLtfpglCAVSPqayqpaagqflpqqFVGTG 193 Synechococcus e...
CAO89160     118 EAMKFSLERFIKNggePSFLLRdtIDKITASKEDEITIKLTRPfaAFPALLaypgaCAVSPkfyqigegkfkpeeFIGTG 197 Microcystis aer...
NP_682248    118 AAMAFSLQRFISSggqPASLLAgrVKEIKAIADDLLEIRLREPfvAFPHLLafsglCAVSPtaygaagnrflptqFVGTG 197 Thermosynechoco...
NP_893166    108 NAIKFSFDRFKRIg-tMNYILGnkIKSIETPSEYSVIINLNKPssSVNGLLtsinlTPISPtyykdysdkflndkFVGTG 186 Prochlorococcus...
CAP46814     218 PYCISKFVRdQVIILTANPYWYGpQPYYKTVIIRFYsdss-alrlALQSGEIDIAWRTlsppdlqa----lrasgkyEVI 292 Thermoproteus t...
YP_001733659 212 PYKLTAFTS-DTITLDRNDDYWGeTAKNAGVDIQIFnsnaanlfnALQTGAVDIAYQSlepeqvsnl-lreaesgeiQAL 289 Synechococcus s...
ZP_03273806  219 PYVLTEYGV-DLIRLNPFEQYWGdKTANQGVDLQRFsspa-nlfnSFRTNAVDIAYISlepdqiasl-legaeqgrwQAI 295 Arthrospira max...
YP_001518258 207 PYKLVDYRS-DNIRLDVFEQYWGdKPANPGVTLQFFstpa-nlynQFKIGSIDVGYQGletdqiqql-qaeassaewQVI 283 Acaryochloris m...
YP_001518943 210 PYQLVDNRS-DSIRLDRFDKYWGdKPTNPGIDIQSFtssa-nlfnAFRTGSVDIAYQSlnpeqiell-akaadkgdwQAI 286 Acaryochloris m...
YP_002484669 187 PYKLVQLRS-DAIRLEPFADYWGtKPVNQGVDIQVFssga-nlfnAFRTGAVDIATQSldpnqiqal-iqgsqtkgwQAI 263 Cyanothece sp. ...
YP_171428    194 PYRLESFQG-DRLRLAANRDYWGeKPRNEGLDIQIFssps-nlysALGTGLVDVAYQGldaeqirgl-rqqaaegriQIN 270 Synechococcus e...
CAO89160     198 HYRLKAVTS-DSFSLEAFDRYWGePAKNKGVNVQIYlsnpanlfnGFQTGAVDIAYQSllppqvrkl-rteaaqgkwQAI 275 Microcystis aer...
NP_682248    198 PYRLAAYRT-DGVRLEPFADYWGtKPENAGIRVQIFsssa-nlynAFRTGAVDVAIGAldpnqiral-ktqaptrhwQVI 274 Thermosynechoco...
NP_893166    187 KYILKRFSN-EIQIIDPNLNYWSdKPNNEGISFIGYsnss-slfgALKSKQIDVLLSNsiddiqrnnlnllsnnkeiKEG 264 Prochlorococcus...
CAP46814     293 EIPSmfIRYMVINtr--miNNTLVREALAAAVCRSQIINVVFnGTMSPLYTMIPs--gMWGAVPVFKqlygdCNTTLAQQ 368 Thermoproteus t...
YP_001733659 290 EAEGtaVNFMVLNrnqaplDQLEVRQAIAALLDRNLINERVLnGQADPLYSLIPt--sFPASQPLFQsaygdANIEQAKT 367 Synechococcus s...
ZP_03273806  296 TADGntINYIVLNvnseplDRVEVRQAIASLVDRNLINERVLrGQAEPLYSLIPt--tFESYLPVFKeaygdANFEQAKQ 373 Arthrospira max...
YP_001518258 284 EAKGnaVTHMVLNlkqkplDQVSVRRALALLVDRPLITERVYeGQAEPLYSLIPg--tFETARPVFQskygdGDAAQARQ 361 Acaryochloris m...
YP_001518943 287 TGPGsnITYVSLNlrdetlKKPEVRQALALTINRQLIQNRVFnGQVDPLYSLVPs--iFEASKPVFQgd-dqDNVDKAKE 363 Acaryochloris m...
YP_002484669 264 AGSSnsITVLTLNtrqapwDQLATRQALAALINRQILQNRVFqGQADRLFSLIPt--iFTVSQPVFQtqygdGQIETGKE 341 Cyanothece sp. ...
YP_171428    271 NNDGlgIYYLTVNvlspplDRPEVRQALALAINRDVIRDRVFyGQVQPLYSLVPs--eFPVSEPDFPr----NNPEQARA 344 Synechococcus e...
CAO89160     276 ESSGaaINFMSVNlkseptDNILVRQAIASLVDRDLLNDRILqGQGIPLFSLIPt--tFSESQPVFKerygnHNIEQAKQ 353 Microcystis aer...
NP_682248    275 TGAGnaVTVLSINmrqppwDQLAARQVLAASVNRQRLVERVFlGEAEPLYSLVPs--vFPVSEPVFRdrygdGHSSQIEH 352 Thermosynechoco...
NP_893166    265 MSPAteISFISLRtnsyplNNLNVRLAIAKSLNRDFISEKVSyGLRQPSRSLVPpiykKNKKELWPK-----YDPLEAKV 339 Prochlorococcus...
CAP46814     369 LLQKAGYsannKLVIDLWYTpshygstEQDIAALLKQQLEA---TGMIQVNIrs--aEWSTYTDYARKGvMEVYLLGWYP 443 Thermoproteus t...
YP_001733659 368 LLTEAGFtpenPAVIPLWYPsgs--ttRGIIATTLREYANRe-lEGLLQFEPss--vEGATFFQNIAQGiYPAALGNWYP 442 Synechococcus s...
ZP_03273806  374 LLTEAGFtpenPAVVELWYGans--qkRQELAATLKALSDNn--LGGILQLQpq-svDTTTAFQNLEKGiYPTFILDWYA 448 Arthrospira max...
YP_001518258 362 LLTAAGYsaqnPLTLDLWYPsny--vaRRLTANLMKAIVQEr-sQGILKLKLeg--vESTVGNNSLSKGiYPAYLVNWYP 436 Acaryochloris m...
YP_001518943 364 LLNKAGYttekPLEVEFWYRsnv--psDGPAATTIKAFIEKelkDLAKVELKs---iESATAYNNLDKGtYPMFMLDWSG 438 Acaryochloris m...
YP_002484669 342 FLSRAGYsaaqPLKINLWYRsnv--psNVLAATVLKAAIER---DWGELAAVelsgvESATAYQNLDKGvYPLMMLDWYG 416 Cyanothece sp. ...
YP_171428    345 VLTAAGYssskPLKLDLWYRsnl--nsNVLAASTLRASVQQq-lDGLIDLQLqg--vESTTAYENLEKGaYPLFLLDWLP 419 Synechococcus e...
CAO89160     354 LLKTAGYspenPAIVEVWHSsgs--itSSSVAAVMKALAKR---DLDNMIQFepnsiLGAAFFRNISRGlYTTALSNWYP 428 Microcystis aer...
NP_682248    353 WLQKTTIsaqqPLVVNLWYRanv--psNVLAATVLKASLER---DLGDRVQVqldsaDAATIYRNLESGaYPLVLLDWYG 427 Thermosynechoco...
NP_893166    340 LLQKEGYcngnVLDFPLTYRsnv--paDKLIALSWQEQIKN---ILNECINIklngvESTTIYKNLSLGiYTAVILDWTG 414 Prochlorococcus...
CAP46814     444 DYLDPDDYMVPFFrtgan-----------swlgNGYSNPTVDALLDKAsvlvNQTQRAQIYAEVQYIIAREAPIVPLFQG 512 Thermoproteus t...
YP_001733659 443 DFLDADNYIHPLLncevgspetgcesggaqnqgSFYWNEAMNQLIDAQrtetDPTKRLEIFTQIQEQMVADVPYIPIWQG 522 Synechococcus s...
ZP_03273806  449 DFLDPDNYIHPFLdcangspetgcvegasqyhgSFYYSDRMNQLIRQQrteaNPETRQAIFHEIQQLLAEDVPFIPLWQD 528 Arthrospira max...
YP_001518258 437 DFFDPDTYIQPFLscgkgtekngcedgasrslgSFYYNSKVNQLIEQQrqtqDAQERQTLLTQIQEILAEDIPYIPLVQR 516 Acaryochloris m...
YP_001518943 439 DYYDPDTYIHPFLdcsegnveegckegatvgqgSFYFSEKMNQLIDQQrqeqDPDKRQKTFEAIQDLLAQDVPFIPLWQR 518 Acaryochloris m...
YP_002484669 417 DFYDPDNYIEPFLaceqgsvqtgceagasaswgSFFYSNQANQLIDQQrrqaDPAERQQLFAQLQGILVQNVPFIPLWQS 496 Cyanothece sp. ...
YP_171428    420 DFLDADNYLQPFLacsqgnpqqgcqsgssyyqgSFYYSDRANQLLQQAgestDPQARDRLLRELQQLSAEDLPFIPLWQN 499 Synechococcus e...
CAO89160     429 DFLDADNYIYPFLdcakgspetgceeggsqsqgSFFYSQEMNQLISQSrresNPAKRKQIFGKIQEILADEVPYIPLWQT 508 Microcystis aer...
NP_682248    428 DFYDADNYLEPFLscdrgsvatgcergasaawgSFFYSPEANDLIAASrreaNPQRRGALLRQLQELNAEAVAFLPLWQS 507 Thermosynechoco...
NP_893166    415 AYSDPEAYLTPLLscseidgknc-ikgesvysgSFWGSNTVEDLFLDSen-lNGKERLAKLIEIEKIASESIPYIPIWIS 492 Prochlorococcus...
CAP46814     513 KlFIVAKPGIKIV 525 Thermoproteus tenax
YP_001733659 523 KeYVFAQANIQGL 535 Synechococcus sp. PCC 7002
ZP_03273806  529 KiHVFAQNNIQGV 541 Arthrospira maxima CS-328
YP_001518258 517 KeYAFSGKGIAGV 529 Acaryochloris marina MBIC11017
YP_001518943 519 KeYAFARPDIQGV 531 Acaryochloris marina MBIC11017
YP_002484669 497 KsYVFAQKEIQGV 509 Cyanothece sp. PCC 7425
YP_171428    500 ReYLFSQPYIQGG 512 Synechococcus elongatus PCC 6301
CAO89160     509 KeYAFARNGITGV 521 Microcystis aeruginosa PCC 7806
NP_682248    508 EtTLFAQPPLRGL 520 Thermosynechococcus elongatus BP-1
NP_893166    493 SqKAWSQNEISKP 505 Prochlorococcus marinus subsp. pastoris str. CCMP1986
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