Structure of PDB 1v0m Chain A Binding Site BS01

Receptor Information
>1v0m Chain A (length=302) Species: 1916 (Streptomyces lividans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AESTLGAAAAQSGRYFGTAIASGRLSDSTYTSIAGREFNMVTAENEMKID
ATEPQRGQFNFSSADRVYNWAVQNGKQVRGHTLAWHSQQPGWMQSLSGSA
LRQAMIDHINGVMAHYKGKIVQWDVVNEAFADGSSGARRDSNLQRSGNDW
IEVAFRTARAADPSAKLCYNDYNVENWTWAKTQAMYNMVRDFKQRGVPID
CVGFQSHFNSGSPYNSNFRTTLQNFAALGVDVAITELDIQGAPASTYANV
TNDCLAVSRCLGITVWGVRDSDSWRSEQTPLLFNNDGSKKAAYTAVLDAL
NG
Ligand information
Ligand IDXDN
InChIInChI=1S/C5H11NO3/c7-3-1-6-2-4(8)5(3)9/h3-9H,1-2H2/t3-,4+,5+
InChIKeyRMCNETIHECSPMZ-SCDXWVJYSA-N
SMILES
SoftwareSMILES
CACTVS 3.370O[C@H]1CNC[C@@H](O)[C@@H]1O
ACDLabs 12.01OC1CNCC(O)C1O
CACTVS 3.370O[CH]1CNC[CH](O)[CH]1O
OpenEye OEToolkits 1.7.6C1[C@H](C([C@H](CN1)O)O)O
OpenEye OEToolkits 1.7.6C1C(C(C(CN1)O)O)O
FormulaC5 H11 N O3
NamePIPERIDINE-3,4,5-TRIOL;
XYLOSE-DERIVED 1-DEOXY-NOJIRIMYCIN
ChEMBLCHEMBL110830
DrugBank
ZINCZINC000100872034
PDB chain1v0m Chain A Residue 1303 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1v0m Atomic Resolution Analyses of the Binding of Xylobiose-Derived Deoxynojirimycin and Isofagomine to Xylanase Xyn10A
Resolution1.07 Å
Binding residue
(original residue number in PDB)		K48 H81 W85 N127 Q205 E236 W266 W274 G302
Binding residue
(residue number reindexed from 1)		K48 H81 W85 N127 Q205 E236 W266 W274 G302
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=5.10,Ki=8uM
Enzymatic activity
Catalytic site (original residue number in PDB) E128 N170 H207 E236 D238
Catalytic site (residue number reindexed from 1) E128 N170 H207 E236 D238
Enzyme Commision number 3.2.1.8: endo-1,4-beta-xylanase.
Gene Ontology
Molecular Function
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
Biological Process
GO:0005975 carbohydrate metabolic process

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Molecular Function
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Biological Process
External links
PDB RCSB:1v0m, PDBe:1v0m, PDBj:1v0m
PDBsum1v0m
PubMed15306887
UniProtP26514|XYNA_STRLI Endo-1,4-beta-xylanase A (Gene Name=xlnA)

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