Crystal structure of tetrameric fibrinogen-like recognition domain of FIBCD1 with N-acetylalanine ligand bound

Structure

x-ray diffraction · 1 distinct chain · 16% helix, 33% strand (DSSP).

Ligands and binding sites

• AYA · N-acetylalanine · ligand · 2 copies · chains A, B
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A, B
• FUC · alpha-L-fucopyranose · sugar · chains B
• CA · Calcium ion · metal · 2 copies · chains A, B
• SO4 · Sulfate ion · ion · 3 copies · chains A, B
• ACY · Acetic acid · additive · 3 copies · chains A, B
• GOL · Glycerol · 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

1 interface between chains.

• A–B · 220 Ų buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

• 6ZR0 · Crystal structure of tetrameric fibrinogen-like recognition domain of FIBCD1 with… · the same entry in another collection · chain A against A, TM-score 1.00
• Q8N539 · AlphaFold monomer V2.0 prediction for fibrinogen C domain-containing protein 1 (Q8N539) · a predicted model of the same protein · chain B 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 Q8N539
• Elsewhere: RCSB PDB 6ZR0 · PDBe 6ZR0 · UniProt Q8N539