1XS5,4K3F,4IB2,4GOT,3UP9,4EF1


Conserved Protein Domain Family
PBP2_lipoprotein_Tp32

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cd13597: PBP2_lipoprotein_Tp32 
Click on image for an interactive view with Cn3D
The substrate-binding domain of the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum binds L-methionine; the type 2 periplasmic-binding protein fold
This group includes the lipoprotein Tp32, a periplasmic component of a methionine uptake transporter system, and its closely related homologs. The Tp32 has both structural and sequential homology to the MetQ family of substrate-binding protein, and thus it 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.
Statistics
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PSSM-Id: 270315
Aligned: 23 rows
Threshold Bit Score: 308.05
Created: 17-Aug-2009
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
chemical
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:chemical substrate binding site [chemical binding site]
Evidence:
  • Structure:1XS5; lipoprotein Tp32 from Treponema pallidum binds methionine, contacts at 4A.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                             #                ###  #                    
1XS5_A         4 TVGVGVlsephaRLLEIAKEEVKKqh-iELRIVEftnYVALNEAVMRGdiLMNFFQHvPHMQQFNQehn--gdLVSVGNV 80  Treponema pallidum
YP_003831531  61 TITVGAtpvphaEILDNIVKDVLAedgwTLETVVfsdYVLPNTSLEQGelDANYFQTlGYMNQQNAdag--lhLAAVAGV 138 Butyrivibrio pr...
YP_003917333  41 VIKVGAspvpqaDILNFIDENLAQeagiDIDVVEyddYVLPNTSLADGslDANYFQTeAYLATEMKekg--yeFAHGAGV 118 Arthrobacter ar...
NP_670167     31 ALRVAAdpvphaEILQFVQKLDPSl---NLTIIEipnGVNSNELLAHGdvDANYFQHlPYLHSQEQalg--qkFVVAATV 105 Yersinia pestis...
NP_827968     39 ALVVGAtavpagEVLAYIKKDLAEkaglDLEIKEftdYVLPNTALQEGelDANLYQNqPYLDDFNKakg--tdLVPVVKA 116 Streptomyces av...
YP_003319724  66 RLRVGVtpvpagDILRFVQENLAPqaglELEIIEftdYVAPNLALRDGelDANFFQHvPYMEDFAKqhg--idLVAVVPV 143 Sphaerobacter t...
YP_007452     33 QLEVAAtsvphaEILEFIKPELKEqg-iNLSIITvddYHTPNRALQDKevDANFFQHlPFLEAQIAdfg--yqLEPLVAV 109 Candidatus Prot...
NP_224483     26 KIRIVAsptphaELLESLQEEAKDlg-iKLKILPvddYRIPNRLLLDKqvDANYFQHqAFLDDECErydckgeLVVIAKV 104 Chlamydophila p...
4IB2_A        12 TIKVAAsatphaEILEQAKSILKKeg-yQLEVTVfddYVQPNEVVESGefDANYFQHvPYLESFNEekg--thLVDAGDI 88  Ruminococcus gn...
3UP9_A         8 TLTVGAtpsphaKILTYINDNLAAdagiKLDIVEytdYVQPNTALNDGdlDANFYQTvPYLENAEKqfg--ynFEAGEGI 85  Actinomyces odo...
Feature 1          #                              #  #                                           
1XS5_A        81 HVEPLALYSRtyrhv--sdfpAGAVIAIPndsSNEARALRLLEAAGf-IRMRAgsglfat------vedvqqNVRNVVLQ 151 Treponema pallidum
YP_003831531 139 HIEPMGIYSQkytsl--edlpDGATIGIPndpDNGLRGIDLLVQKGl-LVSNGgfgtdanytedsltndkeaNPHGYVIT 215 Butyrivibrio pr...
YP_003917333 119 HVEPMTVFSKkfdna--edvtEGTTVLLNndpVNQIRGMRVLEEAGllKNIADddsvltv------egdkekNPLGLVLK 190 Arthrobacter ar...
NP_670167    106 HIEPLGIYSHkyknv--aevpDKGSVAVPnnvTNLSRALYLLQEQGl-ITLKPgftdpakqq--atpkdiaeNPKHLKIL 180 Yersinia pestis...
NP_827968    117 YLPPMGVYSKkvtdv--tklaDGATVAVPndtTNEGRALKLLASKGv-IALKAgagtdas------paditsNPKHLTFK 187 Streptomyces av...
YP_003319724 144 HINPIGAYSKkiksi--delpDGAEIAIPndaTNGGRALLLLQSEGl-ITLKEgvgltpt------vrdivdNPKNLTIR 214 Sphaerobacter t...
YP_007452    110 HLEPMGLYSQklksl--kkmkNGLTLAIPsdpSNQARALAMLQQLGf-IRLKKtdamss-------vfdiiyNTYHLKFI 179 Candidatus Prot...
NP_224483    105 HLEPQAIYSKkhsslerlksqKKLTIAIPvdrTNAQRALHLLEECGl-IVCKGpanlnmt-----akdvcgkENRSINIL 178 Chlamydophila p...
4IB2_A        89 HYEPFGIYPGtkksl--deisEGDKIAVPndtTNEARALLLLQDNGi-ITLKDgaglnat------vndieeNPYNVEIV 159 Ruminococcus gn...
3UP9_A        86 HLEPLGVFSNkhksl--delpDGGTIGIIsdtANQSRALELLATQGl-VSIPEgdgdvn--------intvtKLKNFDFR 154 Actinomyces odo...
Feature 1                              # #                            #                          
1XS5_A       152 EVESAlLPRVFDQv---dGAVINGNYAIMAGlsarrDGLAVEPda----saYANVLVVKRgneadARVQAVLRAlcGGRV 224 Treponema pallidum
YP_003831531 216 PLEAAsLPLSLPDl---dAATINGNYALEAElpakyPALDIEEfdaeatvkRTNFLVVKQgneesEKTKALIKAltSEKV 292 Butyrivibrio pr...
YP_003917333 191 DANAEqVPQYYMSddsigVAVINGNFIVQAKln-kdEILAQESgen---npNANFLTWRDge-etPAIAKLEELlhSDEV 265 Arthrobacter ar...
NP_670167    181 EIESPqIPRSLDDv---dLAVINGNYALEAGlnpatDALGLEKaeg---npYANILVTTPtlendPRIKQLAKDlqLQEV 254 Yersinia pestis...
NP_827968    188 ELEPAqLPRSLDDl---aAAVINNNYAQDAGlsptkDAILLESaen---npYANLLAVKKgneddPRVEKLAKLltSPEV 261 Streptomyces av...
YP_003319724 215 ELEAAqIPRALDDv---dLAVINGNYAMTAGfkpkdDAIIRESaid---npYANVLAVLRghendPAVKVLAELlnRDEV 288 Sphaerobacter t...
YP_007452    180 EIDSPlLARSLNDv---dLAAITTNFALQAGlspqkDALALEDkn----sqFVNVVAVRAgetnrKDLQILKQVltSEKV 252 Candidatus Prot...
NP_224483    179 EVSAPlLVGSLPDv---dAAVIPGNFAIAANlspkkDSLCLEDlsv---skYTNLVVIRSedvgsPKMIKLQKLfqSPSV 252 Chlamydophila p...
4IB2_A       160 ELEAAqVARVTGEt---aYVVLNGNYALEAGysvakDALAYEKsdseaaktYVNIIAVKEgnekeEKIQALVKAlkSDEI 236 Ruminococcus gn...
3UP9_A       155 EVEGPqLVRSLDDf---dYAVINGNFAQEGGktisgDALVVESpvd---npAVNVLVWKGdskkvDAIAKLEKLlhSDEV 228 Actinomyces odo...
Feature 1                       
1XS5_A       225 RTYLKEry-kGGEVA 238 Treponema pallidum
YP_003831531 293 QAYIDEty-kGAVIT 306 Butyrivibrio proteoclasticus B316
YP_003917333 266 RDYIEKtwndGSVIA 280 Arthrobacter arilaitensis Re117
NP_670167    255 AKFITEky-aGSVIP 268 Yersinia pestis KIM
NP_827968    262 KKFIEDky-rGSVLP 275 Streptomyces avermitilis MA-4680
YP_003319724 289 RDFINEky-eGSVVA 302 Sphaerobacter thermophilus DSM 20745
YP_007452    253 KDFIEShy-rGAVIP 266 Candidatus Protochlamydia amoebophila UWE25
NP_224483    253 QHFFDTky-hGNILT 266 Chlamydophila pneumoniae CWL029
4IB2_A       237 KEYIEKty-dGAVIP 250 Ruminococcus gnavus ATCC 29149
3UP9_A       229 KQYIEKtwsdGSVIP 243 Actinomyces odontolyticus ATCC 17982

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