› 6gwn

X-ray diffraction
2.03Å resolution

Crystal Structure of Stabilized Active Plasminogen Activator Inhibitor-1 (PAI-1-W175F) in Complex with Two Inhibitory Nanobodies (VHH-2g-42, VHH-2w-64)

Released:
DOI: 10.2210/pdb6gwn/pdb
PDB entry 6gwn coloured by chain, front view.
PDB entry 6gwn coloured by chain, side view.
PDB entry 6gwn coloured by chain, top view.
Source organisms:
Primary publication:
Molecular mechanism of two nanobodies that inhibit PAI-1 activity reveals a modulation at distinct stages of the PAI-1/plasminogen activator interaction.
Sillen M, Weeks SD, Zhou X, Komissarov AA, Florova G, Idell S, Strelkov SV, Declerck PJ
J Thromb Haemost 18 681-692 (2020)
PMID: 31858714

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209234 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Plasminogen activator inhibitor 1 Chain: A
Molecule details ›
Chain: A
Length: 379 amino acids
Theoretical weight: 42.78 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P05121 (Residues: 24-402; Coverage: 100%)
Gene names: PAI1, PLANH1, SERPINE1
Sequence domains: Serpin (serine protease inhibitor)
VHH-2g-42 Chain: B
Molecule details ›
Chain: B
Length: 116 amino acids
Theoretical weight: 12.75 KDa
Source organism: Vicugna pacos
Expression system: Escherichia coli BL21(DE3)
VHH-2w-64 Chain: C
Molecule details ›
Chain: C
Length: 121 amino acids
Theoretical weight: 13.09 KDa
Source organism: Vicugna pacos
Expression system: Escherichia coli BL21(DE3)

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P21
Unit cell:
a: 45.483Å b: 71.424Å c: 96.598Å
α: 90° β: 100.53° γ: 90°
R-values:
R R work R free
0.21 0.208 0.25
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Exploring cellular biochemistry with nanobodies.
Cheloha et al. (2020)
4 more

3 mentions without citation

Targeting PAI-1 in Cardiovascular Disease: Structural Insights Into PAI-1 Functionality and Inhibition.
Sillen et al. (2020)
2 more