› 1id5

X-ray diffraction
2.5Å resolution

CRYSTAL STRUCTURE OF BOVINE THROMBIN COMPLEX WITH PROTEASE INHIBITOR ECOTIN

Released:
DOI: 10.2210/pdb1id5/pdb
Model geometry
Fit model/data
PDB entry 1id5 coloured by chain, front view.
PDB entry 1id5 coloured by chain, side view.
PDB entry 1id5 coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of thrombin-ecotin reveals conformational changes and extended interactions.
Wang SX, Esmon CT, Fletterick RJ
Biochemistry 40 10038-46 (2001)
PMID: 11513582

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 domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133179 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Thrombin light chain Chain: L
Molecule details ›
Chain: L
Length: 49 amino acids
Theoretical weight: 5.74 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00735 (Residues: 318-366; Coverage: 8%)
Gene name: F2
Sequence domains: Thrombin light chain
Thrombin heavy chain Chain: H
Molecule details ›
Chain: H
Length: 256 amino acids
Theoretical weight: 29.52 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00735 (Residues: 367-622; Coverage: 43%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Ecotin Chain: I

Ligands and Environments

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

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SSRL BEAMLINE BL9-1
Spacegroup: C2221
Unit cell:
a: 88.517Å b: 165.377Å c: 83.326Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.203 0.264
Expression system: Escherichia coli

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Citations

3 review citations

Thrombin domains: structure, function and interaction with platelet receptors.
De Cristofaro et al. (2003)
2 more

1 mention without citation

Structural descriptor database: a new tool for sequence-based functional site prediction.
Bernardes et al. (2008)