Unique CARBOHYDRATE/CARBOHYDRATE interactions are required for high affinity binding of fcgiii and antibodies lacking core fucose

Structure

x-ray diffraction · 3 distinct chains · 9% helix, 49% strand (DSSP).

Ligands and binding sites

• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 14 copies · chains A, C, B
• MAN · alpha-D-mannopyranose · sugar · 9 copies · chains A, B, C
• BMA · beta-D-mannopyranose · sugar · 3 copies · chains A, B
• MLI · Malonate ion · additive · chains A

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Interfaces

3 interfaces between chains.

• A–B · 1200 Ų buried · 7 hydrogen bonds · protein-protein
• A–C · 506 Ų buried · 4 hydrogen bonds · protein-protein
• B–C · 393 Ų buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide, 5 glycan (disulfide, N-glycosylation, glycosylation).

Compared structures

• 3SGK · Unique carbohydrate/carbohydrate interactions are required for high affinity binding of… · the same entry in another collection · chain A against A, TM-score 1.00
• P08637 · AlphaFold monomer V2.0 prediction for low affinity immunoglobulin gamma Fc region… · a predicted model of the same protein · chain C against A, TM-score 0.95

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 P01857
• Every structure of UniProt P08637
• Elsewhere: RCSB PDB 3SGK · PDBe 3SGK · UniProt P01857 · UniProt P08637