› 3tk5

X-ray diffraction
2.2Å resolution

Factor Xa in complex with D102-4380

Released:
DOI: 10.2210/pdb3tk5/pdb
PDB entry 3tk5 coloured by chain, front view.
PDB entry 3tk5 coloured by chain, side view.
PDB entry 3tk5 coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Suzuki M, Mochizuki A, Nagata T, Takano H, Kanno H, Kishida M, Ohta T

Function and Biology Details

Reaction catalysed: 
Selective cleavage of Arg-|-Thr and then Arg-|-Ile bonds in prothrombin to form thrombin.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133209 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Activated factor Xa heavy chain Chain: A
Molecule details ›
Chain: A
Length: 233 amino acids
Theoretical weight: 26.35 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00742 (Residues: 235-467; Coverage: 51%)
Gene name: F10
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Factor X light chain Chain: B
Molecule details ›
Chain: B
Length: 54 amino acids
Theoretical weight: 5.85 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00742 (Residues: 125-178; Coverage: 12%)
Gene name: F10
Sequence domains: Coagulation Factor Xa inhibitory site
Structure domains: Laminin

Ligands and Environments

2 bound ligands:
Ligand CA 2 x CA
Ligand D1Q 1 x D1Q
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 56.278Å b: 71.928Å c: 78.775Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.206 0.253

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