› 4rn6

X-ray diffraction
3Å resolution

Structure of prethrombin-2 mutant s195a bound to the active site inhibitor argatroban

Released:
DOI: 10.2210/pdb4rn6/pdb
PDB entry 4rn6 coloured by chain, front view.
PDB entry 4rn6 coloured by chain, side view.
PDB entry 4rn6 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Autoactivation of thrombin precursors.
Pozzi N, Chen Z, Zapata F, Niu W, Barranco-Medina S, Pelc LA, Di Cera E
J Biol Chem 288 11601-10 (2013)
PMID: 23467412

Function and Biology Details

Reaction catalysed: 
Selective cleavage of Arg-|-Gly bonds in fibrinogen to form fibrin and release fibrinopeptides A and B.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133054 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Thrombin heavy chain Chains: A, B
Molecule details ›
Chains: A, B
Length: 290 amino acids
Theoretical weight: 33.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P00734 (Residues: 333-622; Coverage: 49%)
Gene name: F2
Sequence domains:
Structure domains: Trypsin-like serine proteases

Ligands and Environments

1 bound ligand:
Ligand 15U 2 x 15U
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P21
Unit cell:
a: 43.919Å b: 81.84Å c: 77.761Å
α: 90° β: 100.62° γ: 90°
R-values:
R R work R free
0.252 0.248 0.343
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Proteolytic activity of contact factor zymogens.
Shamanaev et al. (2021)
1 more

1 mention without citation

Exosite Binding in Thrombin: A Global Structural/Dynamic Overview of Complexes with Aptamers and Other Ligands.
Troisi et al. (2021)