› 6qgn

X-ray diffraction
2.1Å resolution

Crystal structure of APT1 bound to 2-Bromopalmitate

Released:
DOI: 10.2210/pdb6qgn/pdb
PDB entry 6qgn coloured by chain, front view.
PDB entry 6qgn coloured by chain, side view.
PDB entry 6qgn coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Palmitoylated acyl protein thioesterase APT2 deforms membranes to extract substrate acyl chains.
Abrami L, Audagnotto M, Ho S, Marcaida MJ, Mesquita FS, Anwar MU, Sandoz PA, Fonti G, Pojer F, Dal Peraro M, van der Goot FG
Nat Chem Biol 17 438-447 (2021)
PMID: 33707782

Function and Biology Details

Reaction catalysed: 
Palmitoyl-[protein] + H(2)O = palmitate + [protein]
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131082 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Acyl-protein thioesterase 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 233 amino acids
Theoretical weight: 24.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O75608 (Residues: 1-230; Coverage: 100%)
Gene names: APT1, LPL1, LYPLA1
Sequence domains: Phospholipase/Carboxylesterase

Ligands and Environments

1 bound ligand:
Ligand J1W 4 x J1W
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P212121
Unit cell:
a: 58.9Å b: 109.616Å c: 174.713Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.23 0.273
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Inhibitors of DHHC family proteins.
Lan et al. (2021)
8 more

4 mentions without citation

Palmitoylated acyl protein thioesterase APT2 deforms membranes to extract substrate acyl chains.
Abrami et al. (2021)
3 more