MolNFT v1 · #137760 · protein

Crystal structure of HFA9 EGF repeat with O-glucose trisaccharide

5VYG: “Crystal structure of HFA9 EGF repeat with O-glucose trisaccharide”. X-ray diffraction, 3 ligands (XYS, BGC, CA). MolNFT v1 #137760 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5VYG
Type: protein
Length: 128 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P00740
Ligands: XYS, BGC, CA

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B, A	—	protein	43	—	P00740
C	—	protein	42	—	P00740

Ligands and binding sites

XYS · alpha-D-xylopyranose · sugar · 6 copies · chains B, A, C
BGC · beta-D-glucopyranose · sugar · 3 copies · chains B, A, C
CA · Calcium ion · metal · 3 copies · chains B, C, A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

5VYG · Crystal structure of hFA9 EGF repeat with O-glucose trisaccharide · the same entry in another collection · chain B against B, TM-score 1.00
P00740 · AlphaFold monomer V2.0 prediction for coagulation factor IX (P00740) · a predicted model of the same protein · chain B against A, TM-score 0.89

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P00740
Elsewhere: RCSB PDB 5VYG · PDBe 5VYG · UniProt P00740

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