3M9W,4YWH


Conserved Protein Domain Family
PBP1_ABC_xylose_binding

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cd19991: PBP1_ABC_xylose_binding 
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D-xylose binding periplasmic protein
Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type 1 periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Statistics
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PSSM-Id: 380646
Aligned: 25 rows
Threshold Bit Score: 374.65
Created: 5-Jul-2018
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand binding
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:4YWH; Actinobacillus succinogenes xylose-binding protein binds D-xylose, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                   ##                                                                
3M9W_A      4 KIGMAIddl--rleRWQKDRDIFVKKAEslGAKVFVQSANGneETQMSQIENMINRGVDVLVIIpyngqvlsNVVKEAKQ 81  Escherichia coli s...
4YWH_A     27 TIGXSIddl--rleRWQKDRDIFVKKAEslGAKVLVQSANGddSAQISQIENXLNKNVDVLVIIphngdvlsNVISEAKK 104 Actinobacillus suc...
SDO06401   47 LVGFSMatf--kedRWLQDRERFAAKAQqaGFDVIVTNANQdsELQYKQVADLVQKGIDVLVFVpqdyatayECTNLAKK 124 Acetanaerobacteriu...
SFE50974   25 KIGFLMdtl--sidRWEKDKELFEKQVEelGAIPLVRVANGnsPKQFEQATQLLYEGVDVLVVIpvdlhasrDIVKSAHE 102 Anaerophaga sp. HS1
AHM62560   36 KVGFCLddy--naeRWHHDRDIFVSKVKelGGEVVVEVAYSetEAQIKQIRKMVEEGVQVIVIVpsdgnaltAVIAEAKK 113 Flammeovirgaceae b...
OFX62346   28 KIGILIhsy--eneRWIKDKDYLVENLTklGAEVLLEVADNdqQKQISQANDMINKGAKVLIVVpidqdeaaKIVDMAQK 105 Bacteroidetes bact...
AHC15740   21 KIGFSLdsv--vveRWERDREEFITHARslGAEVNYRFAVAdaRKQVEDINELLDDGVDALVVVpndaqalqGVLKRAAN 98  Spirochaeta sp. L2...
AFG36381   45 RIGFSMdsf--vveRWQRDRDAFLKAAGshGAQVLLRTANEnvEVQRRQLNELAQSGIDVLVVVpndsealsDTIEQIRN 122 Spirochaeta africa...
AEJ18206   33 TIGFSIatdtfileRWNKDINIFSSTAKelGAEVILQLSAGgtKEQIDQINYLLKQNINVLVVIahdmemiaGVIKQAHD 112 Treponema caldariu...
AEJ20000   37 LIGFLMdsl--ieeRWARDRDIFISSVKtyGGNVIVQIGEEnaKTQEAQLQYLIDQGVNSLVLIpndpdlltKAVQEAKK 114 Treponema caldariu...
Feature 1             ##                                                               # #   #
3M9W_A     82 EGIKVLAYDRMIndadiDFYISFDNeKVGELQAKALVdi--------------------vPQGNYFLMGGSPVDNNAKLF 141 Escherichia coli s...
4YWH_A    105 EGVKVLAYDRLInnadlDFYVSFDNeKVGELQADAIIke--------------------kPEGNYFLXGGSPVDNNAKLF 164 Actinobacillus suc...
SDO06401  125 AGIPVISYDRLVakgnvDAYISFDNvKVGKLQGEALSka--------------------vPEGGYIILNGSPDDHNSEMF 184 Acetanaerobacteriu...
SFE50974  103 KGVPVISYDRMIrdcnvDYYVSTDNiRIGELQAGYLSkm--------------------aPTGSYALLDGPTKDYNATLL 162 Anaerophaga sp. HS1
AHM62560  114 KGVKIIAYDRMImqaniDYYISYDSeMVGELMATYMVkq--------------------kPNGAYAILSGPDSDTNAGMY 173 Flammeovirgaceae b...
OFX62346  106 AEVKVIAYDRLIngcqlDYYVSTNSvNTGEIQAKYLLsl--------------------kPKGNYALIGGSKYDNNSSRL 165 Bacteroidetes bact...
AHC15740   99 MDVPVISYDRLIldspvSAYVSFDNvEVGRLMAEGMIkh-------------------agFDSRVLIINGGAKDNNSRLL 159 Spirochaeta sp. L2...
AFG36381  123 RGIPVLAYDRLVrntpiDGYISFDNqGIGATMAEMVVeagqeaaaaqkadvagqnaaardTPIQLLVINGAVSDYNSYMI 202 Spirochaeta africa...
AEJ18206  113 AGIPVIAYDRMImnvpiDAYISFDNeEVGRLFGKALTek--------------------vPKGRYLIVNGSVRDNNSFLV 172 Treponema caldariu...
AEJ20000  115 HGVPVLLYERLVhnggaDLYLAYDAiKVGELQAAYILkt--------------------iKNGPVVIINGKKNDPIAASI 174 Treponema caldariu...
Feature 1                                                                   #                 
3M9W_A    142 RAGQMKVLKPyvds----gkiKVVGDQWVDGWl--pENALKIMENALTann--nkiDAVVASNDATAGGAIQALSAQGLs 213 Escherichia coli s...
4YWH_A    165 RKGQXKVLQPlids----gkiKVVGDQWVDSWl--aEKALQIXENALTank--nniDAVVASNDATAGGAIQALSAQGLs 236 Actinobacillus suc...
SDO06401  185 HKGYLEALQSsids----gkiNIVAETWVQNWt--rEKAFSFVSDVLKkyp--dkvDAILAGNDSLAWGAIDALSEARLa 256 Acetanaerobacteriu...
SFE50974  163 HLGWMNVLQPliek----gdiNIVIDEYVNEWd--aQEAFTIIKNYLSgnn--pdlDVIIAGNDELAGGAIRALRQFNLk 234 Anaerophaga sp. HS1
AHM62560  174 RNGQLRVLQPhidk----gniQLVYDDKVGEWt--eMDAMIQVNEFLDqyt--gklDVVLAANDGLASGVIMALNDNGRa 245 Flammeovirgaceae b...
OFX62346  166 FLGQMNIFQPlmesgdvslsySEFGEAWTKDDg--yRQAKIITEKYSEg------lTGIICGNDNQALGAIMALKEAGLe 237 Bacteroidetes bact...
AHC15740  160 RRGIAEVLSPyinr----gmiRIAGEITPDDWy--tSLIEDDLEEYIRee----klDGIIAANDLFADSAIQILARYRQa 229 Spirochaeta sp. L2...
AFG36381  203 NRGIVTALRPyier----gqvRLLDNLWLQAWr--nEEAREAIEDGFArfd---hiDGVVAANDLIADAVVHAAAVRGLa 273 Spirochaeta africa...
AEJ18206  173 HNGLMDILQPyvnr----gaiQIVQDIWLQEWs--yDEALEKIGKVFDstt---diDAISCGNDQIASAAIQILSERRMa 243 Treponema caldariu...
AEJ20000  175 HEGIFTILNSe---------iKSGRITVVEDYwvttGNSEEVADAIAGlidknihfKAILAYNDLYAEAAIRVLTLKRLa 245 Treponema caldariu...
Feature 1            ##                   #                                              
3M9W_A    214 gkVAISGQDADlaGIKRIAAGTQTMTVYKPiTLLANTAAEIAVELgngqe-pkadTTLNNGLKDVPSRLLTPIDV 287 Escherichia coli str. K...
4YWH_A    237 gkVAISGQDADlaAIKRIVEGTQTXTVYKPiTNLADKAAELSVALgkeek-lepnAKLNNGLKEVDAYLLDPIVV 310 Actinobacillus succinog...
SDO06401  257 kkVTVVGHDADlaACQRIVDGTQLMTVYKPiKSLVEKTAEVCKLLaegkk-pdtdQTINDGAYNVPYIMIDCIPV 330 Acetanaerobacterium elo...
SFE50974  235 kkVLVAGQDAElnAIRNIVAGDQTITIYKPiDALVSTAANMAIKLankep-intsITVNNGYKLVPSVLLTSQVV 308 Anaerophaga sp. HS1
AHM62560  246 gtALVSGQDAEltACKLIYKGEQAMTIYKPvNKLATEAAILAVQLangqpvkakmRSISNGNKKVASLLFAPIAI 320 Flammeovirgaceae bacter...
OFX62346  238 gkILLAGQDAEleNLRAIKNGLQTCTILKPlHETALATAELAVALaknkkinqqfTTESNGKVLVKSILVNATVV 312 Bacteroidetes bacterium...
AHC15740  230 gdVVVVGQDADliACQRLVEGIQHRTIYKPiDRLARQAAETAFNLavgek-lhssRTVDNGYARIPAVIVEPVAV 303 Spirochaeta sp. L21-RPu...
AFG36381  274 grLQVSGMDGDlaAVQRVAEGTQLMTIYKPvEELAAQALDTAVQLahgre-latgELIFNGSVEVPFIKLNPVTV 347 Spirochaeta africana DS...
AEJ18206  244 gkVAVVGQDADliSCQRVVEGTQLMTVYKPiAKLASRAAKLAIALasreafpydtLTDNKSGAMIASYIEKPIAV 318 Treponema caldarium DSM...
AEJ20000  246 kkVAVAGADADlaACQRIVEGTQTMTVYKPiEIIAAKAAELAVYMarner-vtvhKAIFDGSYRVPYYQLEPIAV 319 Treponema caldarium DSM...

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