RUSSELL'S viper venom serine proteinase, rvv-V in complex with the fragment (residues 1533-1546) of human factor V

Structure

x-ray diffraction · 2 distinct chains · 9% helix, 36% strand (DSSP).

Ligands and binding sites

• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
• BMA · beta-D-mannopyranose · sugar
• BGC · beta-D-glucopyranose · sugar · chains A
• GLC · alpha-D-glucopyranose · sugar · chains A
• ZN · Zinc ion · metal · 3 copies · chains A
• ACT · Acetate ion · additive · 4 copies · chains A

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

Pockets

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

Interfaces

1 interface between chains.

• A–B · 582 Ų buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

• 3S9C · Russell's viper venom serine proteinase, RVV-V in complex with the fragment (residues… · the same entry in another collection · chain A against A, TM-score 1.00
• P18965 · AlphaFold monomer V2.0 prediction for factor V activator rvv-V gamma (P18965) · a predicted model of the same protein · chain A against A, TM-score 1.00
• P12259 · AlphaFold monomer V2.0 prediction for coagulation factor V (P12259) · a predicted model of the same protein · chain B against A, TM-score 0.58

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 P18965
• Every structure of UniProt P12259
• Elsewhere: RCSB PDB 3S9C · PDBe 3S9C · UniProt P18965 · UniProt P12259