Crystal structure of a collagen II fragment containing the binding site of pedf and comp, (POG)4-lkg hrg ftg lqg-POG(4)

Structure

x-ray diffraction · 1 distinct chain · 0% helix, 0% strand (DSSP).

Ligands and binding sites

• ACE · Acetyl group · ligand · 3 copies · chains A, B, C
• NH2 · Amino group · ion · 3 copies · chains A, B, C
• SO4 · Sulfate ion · ion · chains A

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

Interfaces

3 interfaces between chains.

• A–C · 1220 Ų buried · 13 hydrogen bonds · protein-protein
• B–C · 1199 Ų buried · 15 hydrogen bonds · protein-protein
• A–B · 1156 Ų buried · 13 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 24 modified, 3 covalent (hydroxylation, covalent ligand).

Compared structures

• 6HG7 · Crystal structure of a collagen II fragment containing the binding site of PEDF and COMP… · the same entry in another collection · chain A against A, TM-score 1.00
• P02458 · AlphaFold monomer V2.0 prediction for collagen alpha-1(II) chain (P02458) · a predicted model of the same protein · chain C against A, TM-score 0.33

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 P02458
• Elsewhere: RCSB PDB 6HG7 · PDBe 6HG7 · UniProt P02458