X-ray crystal structure of covalent-bonded complex of Fc and peptide

Structure

x-ray diffraction · 2 distinct chains · 9% helix, 46% strand (DSSP).

Ligands and binding sites

• GUA · Glutaric acid · ligand · 2 copies · chains A, C, B, D
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
• MAN · alpha-D-mannopyranose · sugar · 4 copies · chains A, B
• BMA · beta-D-mannopyranose · sugar · 2 copies · chains A, B
• FUC · alpha-L-fucopyranose · sugar · 2 copies · chains A

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

Interfaces

3 interfaces between chains.

• A–B · 1181 Ų buried · 6 hydrogen bonds · protein-protein
• B–D · 621 Ų buried · 8 hydrogen bonds · protein-protein
• A–C · 588 Ų buried · 10 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide, 4 covalent, 2 glycan (disulfide, covalent ligand, N-glycosylation).

Compared structures

• 6IQH · X-ray crystal structure of covalent-bonded complex of Fc and peptide · the same entry in another collection · chain A against A, TM-score 1.00

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 P0DOX5
• Elsewhere: RCSB PDB 6IQH · PDBe 6IQH · UniProt P0DOX5