› 5nkn

X-ray diffraction
2.2Å resolution

Crystal structure of an Anticalin-colchicine complex

Released:
DOI: 10.2210/pdb5nkn/pdb
PDB entry 5nkn coloured by chain, front view.
PDB entry 5nkn coloured by chain, side view.
PDB entry 5nkn coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An engineered lipocalin that tightly complexes the plant poison colchicine for use as antidote and in bioanalytical applications.
Barkovskiy M, Ilyukhina E, Dauner M, Eichinger A, Skerra A
Biol Chem 400 351-366 (2019)
PMID: 30517073

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160356 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Neutrophil gelatinase-associated lipocalin Chain: A
Molecule details ›
Chain: A
Length: 174 amino acids
Theoretical weight: 19.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P80188 (Residues: 25-198; Coverage: 98%)
Gene names: HNL, LCN2, NGAL
Sequence domains: Lipocalin / cytosolic fatty-acid binding protein family
Structure domains: Lipocalin

Ligands and Environments

1 bound ligand:
Ligand LOC 1 x LOC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.3
Spacegroup: P4122
Unit cell:
a: 46.68Å b: 46.68Å c: 136.85Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.197 0.266
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Progress in the management of acute colchicine poisoning in adults.
Wu et al. (2022)
2 other articles

3 mentions without citation

Structural plasticity in the loop region of engineered lipocalins with novel ligand specificities, so-called Anticalins.
Achatz et al. (2022)
2 more