› 4uyu

X-ray diffraction
2.3Å resolution

STRUCTURE OF THE WNT DEACYLASE NOTUM - CRYSTAL FORM I IODIDE COMPLEX - 2.3A

Released:
DOI: 10.2210/pdb4uyu/pdb
PDB entry 4uyu coloured by chain, front view.
PDB entry 4uyu coloured by chain, side view.
PDB entry 4uyu coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Notum deacylates Wnt proteins to suppress signalling activity.
Kakugawa S, Langton PF, Zebisch M, Howell S, Chang TH, Liu Y, Feizi T, Bineva G, O'Reilly N, Snijders AP, Jones EY, Vincent JP
Nature 519 187-192 (2015)
PMID: 25731175

Function and Biology Details

Reaction catalysed: 
[Wnt]-O-(9Z)-hexadec-9-enoyl-L-serine + H(2)O = [Wnt]-L-serine + (9Z)-hexadec-9-enoate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180133 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Palmitoleoyl-protein carboxylesterase NOTUM Chains: A, B
Molecule details ›
Chains: A, B
Length: 383 amino acids
Theoretical weight: 43.57 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6P988 (Residues: 81-451; Coverage: 78%)
Gene names: NOTUM, OK/SW-CL.30
Sequence domains: Pectinacetylesterase

Ligands and Environments

3 bound ligands:
Ligand NAG 2 x NAG
Ligand IOD 11 x IOD
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P21212
Unit cell:
a: 74.22Å b: 177.564Å c: 60.991Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.208 0.243
Expression system: Homo sapiens

Quick links

Citations

70 review citations

Wnt/β-Catenin Signaling, Disease, and Emerging Therapeutic Modalities.
Nusse et al. (2017)
69 more

9 mentions without citation

Carboxylic ester hydrolases: Classification and database derived from their primary, secondary, and tertiary structures.
Chen et al. (2016)
8 more