Wif domain-epidermal growth factor (EGF)-like domains 1-3 of human wnt inhibitory factor 1 in complex with 1,2- dipalmitoylphosphatidylcholine

Structure

x-ray diffraction · 1 distinct chain · 7% helix, 32% strand (DSSP).

Ligands and binding sites

• GU4 · 2,3,4,6-tetra-O-sulfonato-alpha-D-glucopyranose · ligand · chains A
• YYJ · 1,3,4,6-tetra-O-sulfo-beta-D-fructofuranose · ligand
• PCF · 1,2-diacyl-sn-glycero-3-phoshocholine · ligand · chains A
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
• FUC · alpha-L-fucopyranose · sugar · chains A

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

Pockets

3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Modifications

Observed in the structure: 10 disulfide, 3 glycan (disulfide, N-glycosylation, O-glycosylation).

Compared structures

• 2YGQ · WIF domain-epidermal growth factor (EGF)-like domains 1-3 of human Wnt inhibitory factor… · the same entry in another collection · chain A against A, TM-score 1.00
• Q9Y5W5 · AlphaFold monomer V2.0 prediction for wnt inhibitory factor 1 (Q9Y5W5) · a predicted model of the same protein · chain A against A, TM-score 0.65

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 Q9Y5W5
• Elsewhere: RCSB PDB 2YGQ · PDBe 2YGQ · UniProt Q9Y5W5