1A99,4JDF,3TTL,3TTN,3TTK,3TTM


Conserved Protein Domain Family
PBP2_PotF

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cd13659: PBP2_PotF 
Click on image for an interactive view with Cn3D
The periplasmic substrate-binding component of an ABC putrescine transport system and related proteins; contains the type 2 periplasmic-binding fold.
This group represents the periplasmic substrate-binding domain that serves as the primary polyamine receptor of ABC-type putrescine-preferential transporter from gram-negative bacteria. Polyamine transport plays an essential role in the regulation of intracellular polyamine levels which are known to be elevated in rapidly proliferating cells and tumors. Natural polyamines are putrescine, spermindine, and spermine. They are polycations that play multiple roles in cell growth, survival and proliferation, and plant stress and disease resistance. They can interact with negatively charged molecules, such as nucleic acids, to modulate their functions. Members of this family belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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.
Statistics
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PSSM-Id: 270377
Aligned: 17 rows
Threshold Bit Score: 422.127
Created: 15-Mar-2011
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 6 residues -Click on image for an interactive view with Cn3D
Feature 1:chemical substrate binding site [chemical binding site]
Evidence:
  • Structure:1A99; Escherichia coli putrescine receptor (PotF) binds putrescine, contacts at 4A.
  • Citation:PMID 9651355

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1              #                                                                         
1A99_A         5 TLHIYNWsdYIAPDTVANFEKEtgiKVVYDVFDSNevLEGKLMagstGFDLVVPsasFLERQLTAGvfqpldksklpewk 84  Escherichia coli
AEB58886      22 VVRVYGWkdYLAPEVLRDFQTQtgiVVDYQTYTNTseLRQAISdg-sRYDLVMPshfMLEQLIEEKrlmpldtrqlthyn 100 Pseudomonas men...
EFY06430      25 DLYIMNWsdYIAPDTIENFEKEtgiKVHYSLIDSNemLEAKLMagnsGYDIITPslhVLKRLGDAGllleldknklpnlq 104 Succinatimonas ...
YP_983356    195 TVRVLNWpdYIDAGVLQDFEKEnniRVVYDIFTSNddLQARLRaggtPYDVVFPtanAVPAMAAKGllgkldkaslknlg 274 Polaromonas nap...
NP_107020     28 VVNVFNWsdYIDSSVIEGFTKQtgiKVVYDTFDSNeiLETKLLaggsGYDVVVPsgnFLARQIQAGvfqkldksklpnis 107 Mesorhizobium l...
NP_274600     37 VLKIYNWseYVDPETVADFEKKngiKVTYDVYDSDetLESKVLtgksGYDIVAPsnaFVGRQIKAGayqkidkslipnyk 116 Neisseria menin...
EFY06155      24 DLNIWNWsdYIAEDTVDNFIKEtkiDANYVLFDSNelVEARLLsgssGFDACMMtsyYVPRLAKAGaiekidktkipnws 103 Succinatimonas ...
EDZ46265      26 RVLLYNWsgYIAPETAGKFQDAtgkRLVLDTYGEAdeAEARLLargtGYDLAVVsseTVGRLVEAGairqiglsgipnaa 105 Rhodobacterales...
YP_002354564  25 ILNVYNWndYIAADTIPAFEKAsgiEVRYDLYDSNatLQGKLLtggsGYDVVYPsveYAGKQIQAGifqpldksrlpnlv 104 Thauera sp. MZ1T
YP_001676982  44 QLNFTNWadYISPDIVPCFSELsntRVKYIYTSDDnmTRAKIMtgssGFDLIEQgalYLNSEIASNalikldksklpnld 123 Francisella phi...
Feature 1                                                                                        
1A99_A        85 n-ldpellklvakhdpdNKFAMPYmWATTGIGYNvdkvkavlgenapvds-wdlilkpenleklksCGVSFLDAPeeVFA 162 Escherichia coli
AEB58886     101 e-ldpwllsilagipaaNRHTVPYlWSSMGLVIApplaeaaygkplpns--wsfafepaevaklssCGVAMVDSVdeVAS 177 Pseudomonas men...
EFY06430     105 h-ldkdkmakiaqvdkdNTFGIPYmELSTGIGYNerlikevmgndfkvds-wdvffkpeilsklnkCGATVLDSPsdMIC 182 Succinatimonas ...
YP_983356    275 n-idprvdatlrawdkdGSYSLPYmWYTVGIAWNpkltakaypghamds--lgnvfdpetarrfqsCGVGVVDSAsdVMP 351 Polaromonas nap...
NP_107020    108 n-mwdvisertakydpgNEYSVNYmWGTVGIGYNvkkvkaalgtdkids--wdvffnpeslaklkdCGVYVLDSPadIIP 184 Mesorhizobium l...
NP_274600    117 h-lnpemmrlmdgvdpgHEYAVPFyWGTNTFAINtervkkalgtdklpdnqwdlvfdpeytsklkqCGISYLDSAaeIYP 195 Neisseria menin...
EFY06155     104 h-leekrmkllatldpnNDYAYPYtEISLGIGYNkekiaeifgpeykvds-wdflfkkensdklkkCGIAVLDSPieIVS 181 Succinatimonas ...
EDZ46265     106 aidqqlmqlyldatpqaAGYALPYlWGTTGIAYDrgavlerlpdaplds--walvfdpanaskladCGITIVDSVeeVVA 183 Rhodobacterales...
YP_002354564 105 h-idplileavavadpgNRYLVPYmWFTIGVAINvdkvmkaldgklpdna-wdllfdpaltarlkgCGIALMDEAsdVIP 182 Thauera sp. MZ1T
YP_001676982 124 yrnkiiydkvsqindpgNNYAVVYsYGTTGLAYNkqeieqrlgkdvvpns-wkyvfdkkylkqiapCGVSLLDEPeqIFG 202 Francisella phi...
Feature 1                                                               #  #                     
1A99_A       163 TVLNYLGkdpnstkadDYTGPATDLLLKLRPNIRYFhssqYINDLANgdiCVAIGWaGDVWQASnrakeakngvnVSFSI 242 Escherichia coli
AEB58886     178 LLLNYRGrrls-qttnRQLVQQLASLKTVTPFVRQLnnwnFVDDLINgklCLAMAWsGHAVRAMqgn------ptLIYRI 250 Pseudomonas men...
EFY06430     183 TALIYLNkdpq-stdkNDYKEAEKLLKTMIQNVTYMhssqYANDLAGgevCISVGWsGDIQLANqrsqe-agldaIKYVI 260 Succinatimonas ...
YP_983356    352 LAAIAGGqakw--ngkNSVNAASQVLERLKGIVKVIptdqYIDALASgkiCVAIGFsGDAVQAQaks-----rgtVEYRV 424 Polaromonas nap...
NP_107020    185 AALKYVGldpn-stspDDIAKAEEALMKVRPFIRKFhsseYINALANgdiCLAIGFsGDVFQARnraqeakqgveIGYSV 263 Mesorhizobium l...
NP_274600    196 MVLNYLGknpn-ssntEDIREATALLKKNRPNIKRFtssgFIDDLARgdtCVTIGFgGDLNIAKrraeeaggkekIRVMM 274 Neisseria menin...
EFY06155     182 AVMHYLGkdpa-seksSDYKEAKALLTAFASNVAYFhssrYINDLASgeiCAAIGYsGDILQAAnraalanqnytIEYTF 260 Succinatimonas ...
EDZ46265     184 AALAYLGldpq-srseQDMEAAFDVLSAIAPYVRSFdv-dQYDALLRgevCLAVTWsTDGLAPLleqg----tdrYHYAM 257 Rhodobacterales...
YP_002354564 183 AAMLDAGldpv-kmdpADIRAAVEHIRPVRKDIRSFnt-aPIEQMAKgslCVAMMFsGDARIAArraqiggsevrLQYLI 260 Thauera sp. MZ1T
YP_001676982 203 NYFFYHGidpntnskaEYEKAALDIIKNVRPYIKYFdsnkYQNDFTAgnlCLVMGYsGDVVRSVeraktvnpdvtLAYVI 282 Francisella phi...
Feature 1               # #                                   #                                  
1A99_A       243 PKEGaMAFFDVFAMPAdakNKDEAYQFLNYLLrPDVVAHISDHVfYANANKAATPlvsaevrenpgiyppadvraKLFTl 322 Escherichia coli
AEB58886     251 PDEGaAAIIDTLAIPAnapNPQLAYRLINFLItPDIAMRNALNSnYYPPLPSDTPamkafakvhpdhvltreqrrRSYLl 330 Pseudomonas men...
EFY06430     261 PKEGaLMGYDMFAIPKdarNVNNAHLFLNYIMrPEVIADISNYVrYANANADATKfvdkeitnnpgiyypkemleRMHIv 340 Succinatimonas ...
YP_983356    425 PTEGgLLAIDAMAVPAnakNRRAAHLFIDYLMrPQVIAKISNSVgFANANLKAGEfmsesiksnpavvpstaslsRSSPi 504 Polaromonas nap...
NP_107020    264 PKEGaQIWFDQMAIPAdapHVAEAHEFINYMMkPEVIAKSSNFVlYANGNKASQQfvdkailddpsiypdeatvqKLYTv 343 Mesorhizobium l...
NP_274600    275 PKEGvGIWVDSFVIPKdakNVANAHKYINDFLdPEVSAKNGNFVtYAPSSKPARElmedefkndntifpteedlkNSFIm 354 Neisseria menin...
EFY06155     261 PKEGsLLWFDCWTIPRgakNKDNAYKWFNYLMkDDVASSVSNEIkYILPVKGAINllsdnlknnpnvnltdemysKAYFp 340 Succinatimonas ...
EDZ46265     258 PREGtNLWADLFVIPSdagDLGAPEQLMDFMLaPEMMAAAARFTnAISSVSFPEAgagepgydspaaalppdargRLYLl 337 Rhodobacterales...
YP_002354564 261 PAVGaMMSVDVMAIPRdapHPHNAHRWIDAMMdPATVARISNETfYISANTAALAltdatlrddpainvpeavkrTLRAk 340 Thauera sp. MZ1T
YP_001676982 283 PKEGtNIWFDMLMIPKgakDLDKAYALMNYIIdPYVAAQNSNYLyQPNAVTQNEKylddifndtn-irptdemikKMYVl 361 Francisella phi...
Feature 1                       
1A99_A       323 kvqdpkiDRVRTRAW 337 Escherichia coli
AEB58886     331 esvsarqRIALDEAW 345 Pseudomonas mendocina NK-01
EFY06430     341 ipp-ngiERILTKSW 354 Succinatimonas hippei YIT 12066
YP_983356    505 pilseqdQQDIAQAW 519 Polaromonas naphthalenivorans CJ2
NP_107020    344 qpydpkaQRVITRTW 358 Mesorhizobium loti MAFF303099
NP_274600    355 vpiqpaaLKFMVRQW 369 Neisseria meningitidis MC58
EFY06155     341 qtptskvSRITNRIW 355 Succinatimonas hippei YIT 12066
EDZ46265     338 psrsgaeKRLLDRRW 352 Rhodobacterales bacterium Y4I
YP_002354564 341 pvlgkdvQRELTQAL 355 Thauera sp. MZ1T
YP_001676982 362 nihdaemQSFISRMW 376 Francisella philomiragia subsp. philomiragia ATCC 25017

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