› 5lhn

X-ray diffraction
2.55Å resolution

The catalytic domain of murine urokinase-type plasminogen activator in complex with the allosteric inhibitory nanobody Nb7

Released:
DOI: 10.2210/pdb5lhn/pdb
PDB entry 5lhn coloured by chain, front view.
PDB entry 5lhn coloured by chain, side view.
PDB entry 5lhn coloured by chain, top view.
Source organisms:
Primary publication:
Discovery of a novel conformational equilibrium in urokinase-type plasminogen activator.
Kromann-Hansen T, Louise Lange E, Peter Sørensen H, Hassanzadeh-Ghassabeh G, Huang M, Jensen JK, Muyldermans S, Declerck PJ, Komives EA, Andreasen PA
OpenAccess logo Sci Rep 7 3385 (2017)
PMID: 28611361

Function and Biology Details

Reaction catalysed: 
Specific cleavage of Arg-|-Val bond in plasminogen to form plasmin.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209299 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Urokinase-type plasminogen activator chain B Chain: A
Molecule details ›
Chain: A
Length: 247 amino acids
Theoretical weight: 27.55 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
Camelid-Derived Antibody Fragment Nb7 Chain: B
Molecule details ›
Chain: B
Length: 152 amino acids
Theoretical weight: 16.3 KDa
Source organism: Vicugna pacos
Expression system: Escherichia coli

Ligands and Environments

2 bound ligands:
Ligand SO4 7 x SO4
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX II BEAMLINE I911-2
Spacegroup: P3121
Unit cell:
a: 94.67Å b: 94.67Å c: 121.57Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.179 0.177 0.219
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli

Quick links

Citations

9 review citations

A comprehensive comparison between camelid nanobodies and single chain variable fragments.
Asaadi et al. (2021)
8 more

5 mentions without citation

A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.
Hanke et al. (2022)
4 more