› 1ucy

X-ray diffraction
2.2Å resolution

THROMBIN COMPLEXED WITH FIBRINOPEPTIDE A ALPHA (RESIDUES 7-19). THREE COMPLEXES, ONE WITH EPSILON-THROMBIN AND TWO WITH ALPHA-THROMBIN

Released:
DOI: 10.2210/pdb1ucy/pdb
PDB entry 1ucy coloured by chain, front view.
PDB entry 1ucy coloured by chain, side view.
PDB entry 1ucy coloured by chain, top view.
Source organisms:
Primary publication:
Bovine thrombin complexed with an uncleavable analog of residues 7-19 of fibrinogen A alpha: geometry of the catalytic triad and interactions of the P1', P2', and P3' substrate residues.
Martin PD, Malkowski MG, DiMaio J, Konishi Y, Ni F, Edwards BF
Biochemistry 35 13030-9 (1996)
PMID: 8855938

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 domain:

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-133167 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Thrombin light chain Chains: J, L, M
Molecule details ›
Chains: J, L, M
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: 150 amino acids
Theoretical weight: 17.53 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00735 (Residues: 367-516; Coverage: 25%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Thrombin heavy chain Chain: E
Molecule details ›
Chain: E
Length: 109 amino acids
Theoretical weight: 12.27 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00735 (Residues: 517-625; Coverage: 18%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Fibrinopeptide A Chains: F, G, I
Molecule details ›
Chains: F, G, I
Length: 13 amino acids
Theoretical weight: 1.36 KDa
Source organism: Macaca fuscata fuscata
Expression system: Not provided
UniProt:
  • Canonical: P68108 (Residues: 6-16; Coverage: 69%)
Gene name: FGA
Thrombin heavy chain Chains: K, N
Molecule details ›
Chains: K, N
Length: 259 amino acids
Theoretical weight: 29.77 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00735 (Residues: 367-625; Coverage: 43%)
Gene name: F2
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: P21
Unit cell:
a: 82.47Å b: 88.78Å c: 98.55Å
α: 90° β: 106.21° γ: 90°
R-values:
R R work R free
0.171 0.171 not available
Expression system: Not provided

Quick links

Citations

3 review citations

Molecular recognition mechanisms of thrombin.
Huntington JA. (2005)
2 more

2 mentions without citation

Structural basis for sequential cleavage of fibrinopeptides upon fibrin assembly.
Pechik et al. (2006)
1 more