PDBe 4k24

X-ray diffraction
4.5Å resolution

Function and Biology Details

Reaction catalysed:
Specific cleavage of Arg-|-Val bond in plasminogen to form plasmin.
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
monomeric
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Urokinase-type plasminogen activator long chain A Chain: A
Molecule details ›
Chain: A
Length: 135 amino acids
Theoretical weight: 15.36 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: NEW P00749 (Residues: 21-153; Coverage: 32%)
Gene name: PLAU
Sequence domains: Kringle domain
Somatomedin-B Chain: B
Molecule details ›
Chain: B
Length: 40 amino acids
Theoretical weight: 4.57 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: NEW P04004 (Residues: 21-60; Coverage: 9%)
Gene name: VTN
anti-uPAR antibody, heavy chain Chain: H
Molecule details ›
Chain: H
Length: 228 amino acids
Theoretical weight: 24.48 KDa
Source organism: Mus musculus
anti-uPAR antibody, light chain Chain: L
Molecule details ›
Chain: L
Length: 219 amino acids
Theoretical weight: 24.16 KDa
Source organism: Mus musculus
Urokinase plasminogen activator surface receptor Chain: U
Molecule details ›
Chain: U
Length: 283 amino acids
Theoretical weight: 31.6 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: NEW Q03405 (Residues: 23-303; Coverage: 90%)
Gene names: MO3, PLAUR, UPAR
Sequence domains: u-PAR/Ly-6 domain

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: R32
Unit cell:
a: 164.659Å b: 164.659Å c: 391.582Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.22 0.217 0.275
Expression systems:
  • Drosophila melanogaster
  • Escherichia coli