› 5u84

X-ray diffraction
2.34Å resolution

Acid ceramidase (ASAH1, aCDase) from common minke whale, Cys143Ala, uncleaved

Released:
DOI: 10.2210/pdb5u84/pdb
PDB entry 5u84 coloured by chain, front view.
PDB entry 5u84 coloured by chain, side view.
PDB entry 5u84 coloured by chain, top view.
Source organism: Balaenoptera acutorostrata
Primary publication:
Structural basis for the activation of acid ceramidase.
Gebai A, Gorelik A, Li Z, Illes K, Nagar B
Nat Commun 9 1621 (2018)
PMID: 29692406

Function and Biology Details

Reaction catalysed: 
N-acylsphingosine + H(2)O = a carboxylate + sphingosine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-104713 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Acid ceramidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 384 amino acids
Theoretical weight: 43.86 KDa
Source organism: Balaenoptera acutorostrata
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: A0A383ZFX3 (Residues: 22-395; Coverage: 100%)
Gene name: ASAH1
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand I3C 9 x I3C
Ligand IOD 34 x IOD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08B1-1
Spacegroup: C2
Unit cell:
a: 118.815Å b: 109.267Å c: 79.541Å
α: 90° β: 102.97° γ: 90°
R-values:
R R work R free
0.201 0.2 0.231
Expression system: Spodoptera frugiperda

Quick links

Citations

15 review citations

Lysosomal Glycosphingolipid Storage Diseases.
Breiden et al. (2019)
14 more

1 mention without citation

Structural basis for the activation of acid ceramidase.
Gebai et al. (2018)