Structure of PDB 5vyg Chain C Binding Site BS02

Receptor Information
>5vyg Chain C (length=42) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DIVDGDQCESNPCLNGGSCKDDINSYECWCPFGFEGKNCELL
Ligand information
Ligand IDXYS
InChIInChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3+,4-,5+/m1/s1
InChIKeySRBFZHDQGSBBOR-LECHCGJUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C1C(C(C(C(O1)O)O)O)O
CACTVS 3.341O[CH]1CO[CH](O)[CH](O)[CH]1O
OpenEye OEToolkits 1.5.0C1[C@H]([C@@H]([C@H]([C@H](O1)O)O)O)O
CACTVS 3.341O[C@@H]1CO[C@H](O)[C@H](O)[C@H]1O
ACDLabs 10.04OC1C(O)COC(O)C1O
FormulaC5 H10 O5
Namealpha-D-xylopyranose;
alpha-D-xylose;
D-xylose;
xylose;
XYLOPYRANOSE
ChEMBL
DrugBankDB03389
ZINCZINC000001529214
PDB chain5vyg Chain F Residue 2 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5vyg O-Glycosylation modulates the stability of epidermal growth factor-like repeats and thereby regulates Notch trafficking
Resolution2.2 Å
Binding residue
(original residue number in PDB)		N67 S68 K80
Binding residue
(residue number reindexed from 1)		N24 S25 K37
Annotation score4
Enzymatic activity
Enzyme Commision number 3.4.21.22: coagulation factor IXa.
Gene Ontology
Molecular Function
GO:0005509 calcium ion binding

View graph for
Molecular Function
External links
PDB RCSB:5vyg, PDBe:5vyg, PDBj:5vyg
PDBsum5vyg
PubMed28729422
UniProtP00740|FA9_HUMAN Coagulation factor IX (Gene Name=F9)

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