Conserved Protein Domain Family
PBP2_YxeM

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cd13709: PBP2_YxeM 
Substrate binding domain of an ABC transporter YxeMNO; the type 2 periplasmic binding protein fold
This group contains cystine-binding domain (YxeM) of a periplasmic receptor-dependent ATP-binding cassette transporter and its closely related proteins. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor 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. 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 receptor 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: 270427
Aligned: 12 rows
Threshold Bit Score: 282.701
Created: 13-Mar-2012
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putative
Feature 1:putative chemical substrate binding site [chemical binding site]
Evidence:
  • Comment:based on sequence similarity to Neisseria Gonorrhoeae L-cystine ABC transporter.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1               #  #                                     #                ##      #      
P54952        33 NVLHVGATGQSYPFAYKEn-GKLTGFDVEVMEAVAKKIDMKLDWKLLeFSGLMGELQTGKLDTISNQVaVTDERKETYNF 111 Bacillus subtilis
YP_001253679  40 TKIVVASGAASVPNSYVEn-GVHKGHEVDIWNAISKRTGIKVEFVTGeFNTLFGYLDSGKADTVGNTItINASRQDKYNF 118 Clostridium bot...
YP_002551276  30 KVIRVGATVDAYPLWFSSd-NKFQGFIVDFLNAVADKSGYKIEWVIAdWTGVVASLGTGRVDTIGSFA-VLPERQNVYDY 107 Agrobacterium r...
NP_563009     37 EKITVATSGTYYPFTFLEg-GELKGFEVDVWNEIGKRLGYDVEFKTAsFSGLFGMLESGKVNTIANQItVTPEREEKYYF 115 Clostridium per...
YP_052282     32 KVLKVGSTGQSYPSGFKQd-NKLVGFDVEVTEAIAKDLNYKVEWVTAdFSGLMGQLEAKKLDTVANVVaITPARQEKYNF 110 Erwinia carotov...
YP_141699     43 KVLRVATTGVSFPGSYKDsnGDLTGFDVEIARAVGKKIGYKVEFITTsFDGLFGLLQSGKVDAVASSIaITDERQKSYDF 122 Streptococcus t...
P52626        23 TEVKVGMSGRYFPFTFVKq-DKLQGFEVDMWDEIGKRNDYKIEYVTAnFSGLFGLLETGRIDTISNQItMTDARKAKYLF 101 Vibrio harveyi
CBH22554      37 EVIKVGMSGSYKPYTYLDekGELTGFDVDVWKEIGKRTGHEIEFVTSdFSGLFGMLDSAKLDTIANQItVTPEREQKYLF 116 Clostridium sti...
NP_979842     34 KVVKVGTSAGRSPFIFKEg-EKVKGFDAEIIEAAAKKAGYKVEWSVSdFEGLFGLLDSGRIDTIANELsVSPERKKKYDF 112 Bacillus cereus...
YP_001088687  33 KVITVASSNSADPYSYVDn-GEHKGFEVDMWKEIGKRSGYKIKMEPTgFSSIFGMLDSGKVDVAANFFgMSKERLEKYDA 111 Clostridium dif...
AEB52063      26 ETIKVGMSGKYFPFTFVKq-DKLQGFEVDMWNQIGERTGYKVEFVTAsFSGLFGMLETGRIDTISNQItITDERKAKYDF 104 Aeromonas veron...
EET86354      37 KVIKIGMSGGYYPYTFKNkdNKIDGFEVDVWNEIGKRTGYKPEFVTAsFSGLFGMLDAGKVDTIANEItITDKRKDKYLF 116 Clostridium car...
Feature 1                                             #   ##                                     
P54952       112 TKPYAYAgTQIVVKKDnt----dIKSVDDLKGKTVAAVlGSNHAKNLESKDpdkkINIKTYe-tQEGTLKDVAYGRVDAY 186 Bacillus subtilis
YP_001253679 119 SEPYAYIpEKLVVHSNrtdikklKDVAGMTCGFIAGSNgGNLFEKMAKEQGi--dIKLVTYd-sSELLNQAFNQGKVDVM 195 Clostridium bot...
YP_002551276 108 GAPYIYEsATIAVSDKsk---enIQTLQDLYGKKVAVEfGTSYVKAVQALDpegkITLSTYe-gHDVLLSEAVSGRVDAL 183 Agrobacterium r...
NP_563009    116 SEPYVYSgAQIIVKKGnd----sIKSFDDLKGKKVGVDlGSNYEKIVKDKDenneIKILTYq-nTDAAFNELLLGRIDAV 190 Clostridium per...
YP_052282    111 AQPYSFYgSQIVTHKDnt----tINTLADLKGKTVAGVlGSNHVNNLKKAFadgsVTIRTYe-tRDGAMNDALSKRVEGY 185 Erwinia carotov...
YP_141699    123 TTPYATFqYGVVVKKDs-----sLTNINEIGGHTLAATvGSNQIKVVNAYDp--sIQIQTFd-dREAALTGVTNGQVDGY 194 Streptococcus t...
P52626       102 ADPYVVDgAQITVRKGnd----sIQGVEDLAGKTVAVNlGSNFEQLLRDYDkdgkINIKTY---DTGIEHDVALGRADAF 174 Vibrio harveyi
CBH22554     117 TRPYVYYgAQLISKDDrn----dIIDLESLKGKKVAVGlGTNYETIIREFDknseIEIITYd-sGSGSYQDVAIGRVDAA 191 Clostridium sti...
NP_979842    113 SIPYVYSgSVFAVKKDnn----tIKSIEDLKGKTVGVGlGTAGEQELKAVNknnaFTIKTFsedPTAELNEVGLGRVDAY 188 Bacillus cereus...
YP_001088687 112 SIPYGSDsVCIAVKDGnn----eINKLEDLKGKVVAVSeGSQGQQVATSVNkdnlFQEKVYg-dGTSGLQDLDLGRVSAW 186 Clostridium dif...
AEB52063     105 SQPYVYDgAQIVVRKGns----tIHGIKDLEGKKVAVNlGSNFEELLRKNDpnkkIDIRTY---DSAFEQDVALGRIDAF 177 Aeromonas veron...
EET86354     117 TDAYVYSgAQIMVKKGnn----sITKLDDLKGKKIGVSlGSNYEQIVKDNDksnsIKVVTYd-nDGGMRQDVALGRIDAM 191 Clostridium car...
Feature 1         #                                                                            
P54952       187 VNSRTVLIAQIKkt-glPLKLAGd--PIVYEQVAFPFAKDda-hdKLRKKVNKALDELRKDGTLKKLSEKYFN-EDIT 259 Bacillus subtilis
YP_001253679 196 LLSAAEVAYKIKng-llDARMVEe--DVVVGAKAYPFVKGnsnseQLNKTVTKAIEDMRKDGTLTQIYGKWYD-IDFS 269 Clostridium botul...
YP_002551276 184 VAGRNLLLAKIKar-glGLKVVGn--PLNETISALPFARTer-gaKLLADTNKAIAQLRAEGKLAEISTKWFG-SDVT 256 Agrobacterium rad...
NP_563009    191 VIDRVSAIAAIKek-dlNLQLAGe--PIDKIENAYPFVKDek-gkDLSENVNKALDEMKKDGTLKSISEKWLG-MNVS 263 Clostridium perfr...
YP_052282    186 VNSRPILLAEINkr-nlPFKLVGe--PLVIEEVSFPFHKDek-gdALRKQFDAQLTKMREDGRLKSISEKYFG-EDIT 258 Erwinia carotovor...
YP_141699    195 SNSKTILSAIIKqk-nlDLKILDg--ELGQENIAIAFNKGkn--kDLREKADKSVEELIKDGTVSKLSKKYFSdIDAT 267 Streptococcus the...
P52626       175 IMDRLSALELIKkt-glPLQLAGe--PFETIQNAWPFVDNek-grKLQAEVNKALAEMRADGTVEKISVKWFG-ADIT 247 Vibrio harveyi
CBH22554     192 MNDRLALQSVINes-glPLKLAGp--PINEMQNAFPFLNNee-nkELVAQIDSAIDSMYEDGTIKEISMKYFD-MDIT 264 Clostridium stick...
NP_979842    189 YNDKVQVETTIKkadldNVKVGFg--PLKWGEIAFPFAKKs----EKLEDINKALKELEQDGTLSEISTKWLK-VDAT 259 Bacillus cereus A...
YP_001088687 187 IDAELTIVGDAKka-nmKVRVLDk--KLSATNIAYFFKKNddkskTIKEDVNKAIEEMLADGTVKKISEKWFG-MDVS 260 Clostridium diffi...
AEB52063     178 VMDRVSTAQLIKes-klPLQQAGapfETIENALPFLKTPEk---qALLKKVDEALTAMRKDGSLRQISEKWFA-SDIT 250 Aeromonas veronii...
EET86354     192 MDDKVSALAVVQen-klPLQLAGk--DVQPLENAFPFVKNde-nkKIVEKVNKALVDMRSDGTLTKISKKWVN-IDIT 264 Clostridium carbo...

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