PDBe 3p70

X-ray diffraction
2.55Å resolution

Structural basis of thrombin-mediated factor V activation: essential role of the hirudin-like sequence Glu666-Glu672 for processing at the heavy chain-B domain junction

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Thrombin heavy chain Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 259 amino acids
Theoretical weight: 29.78 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00734 (Residues: 364-622; Coverage: 43%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Thrombin light chain Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 36 amino acids
Theoretical weight: 4.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00734 (Residues: 328-363; Coverage: 6%)
Gene name: F2
Coagulation factor V heavy chain Chains: M, N, O, P
Molecule details ›
Chains: M, N, O, P
Length: 71 amino acids
Theoretical weight: 8.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P12259 (Residues: 685-737; Coverage: 2%)
Gene name: F5

Ligands and Environments


No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P1
Unit cell:
a: 62.243Å b: 68.227Å c: 98.972Å
α: 72.57° β: 84.05° γ: 80.45°
R-values:
R R work R free
0.21 0.207 0.279
Expression system: Escherichia coli BL21(DE3)