› 4z6a

X-ray diffraction
2.25Å resolution

Crystal Structure of a FVIIa-Trypsin Chimera (YT) in Complex with Soluble Tissue Factor

Released:
DOI: 10.2210/pdb4z6a/pdb
PDB entry 4z6a coloured by chain, front view.
PDB entry 4z6a coloured by chain, side view.
PDB entry 4z6a coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular Basis of Enhanced Activity in Factor VIIa-Trypsin Variants Conveys Insights into Tissue Factor-mediated Allosteric Regulation of Factor VIIa Activity.
Sorensen AB, Madsen JJ, Svensson LA, Pedersen AA, Østergaard H, Overgaard MT, Olsen OH, Gandhi PS
J Biol Chem 291 4671-83 (2016)
PMID: 26694616

Function and Biology Details

Reaction catalysed: 
Selective cleavage of Arg-|-Ile bond in factor X to form factor Xa.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140352 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Factor VII light chain Chain: L
Molecule details ›
Chain: L
Length: 96 amino acids
Theoretical weight: 10.5 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P08709 (Residues: 108-203; Coverage: 22%)
Gene name: F7
Sequence domains:
Structure domains: Laminin
Factor VII heavy chain Chain: H
Molecule details ›
Chain: H
Length: 249 amino acids
Theoretical weight: 27.52 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P08709 (Residues: 213-466; Coverage: 56%)
Gene name: F7
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Tissue factor Chain: T
Molecule details ›
Chain: T
Length: 207 amino acids
Theoretical weight: 23.52 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P13726 (Residues: 36-242; Coverage: 79%)
Gene name: F3
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

5 bound ligands:
Ligand BGC 1 x BGC
Ligand FUC 1 x FUC
Ligand 0Z6 1 x 0Z6
Ligand CA 1 x CA
Ligand CIT 1 x CIT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX II BEAMLINE I911-3
Spacegroup: P212121
Unit cell:
a: 67.03Å b: 81.7Å c: 124.56Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.188 0.24
Expression systems:
  • Cricetulus griseus
  • Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Uncovering Membrane-Bound Models of Coagulation Factors by Combined Experimental and Computational Approaches.
Ohkubo et al. (2021)
7 other articles

3 mentions without citation

Molecular Basis of Enhanced Activity in Factor VIIa-Trypsin Variants Conveys Insights into Tissue Factor-mediated Allosteric Regulation of Factor VIIa Activity.
Sorensen et al. (2016)
2 more