SMTL ID : 9mot.1

Cryo-EM structure of factor Va bound to activated protein C

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: D.136, P.137, P.138, E.249, N.269 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.269 NAG.2: 4 residues within 4Å: Chain A: Y.204, N.211, A.290, G.291 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.211, A:G.291 NAG.3: 1 residues within 4Å: Chain A: N.432 No protein-ligand interaction detected (PLIP) NAG.4: 4 residues within 4Å: Chain B: K.185, M.191, N.437, D.460 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:M.191, B:M.191 NAG.5: 1 residues within 4Å: Chain B: N.130 No protein-ligand interaction detected (PLIP) NAG.6: 2 residues within 4Å: Chain C: H.77, N.79 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.77 NAG.7: 2 residues within 4Å: Chain C: N.160, E.161 No protein-ligand interaction detected (PLIP) NAG.8: 3 residues within 4Å: Chain C: K.142, R.143, N.144 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mohammed, B.M. et al., Cryo-EM structure of coagulation factor Va bound to activated protein C. Blood (2025)

Release Date

2025-05-21

Peptides

Coagulation factor Va heavy chain: A
Coagulation factor Va light chain: B
Vitamin K-dependent protein C heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

Coagulation factor Va heavy chain

Coagulation factor Va light chain

Vitamin K-dependent protein C heavy chain

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