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› 5u81

X-ray diffraction
1.4Å resolution

Acid ceramidase (ASAH1, aCDase) from naked mole rat, Cys143Ala, uncleaved

Released:
DOI: 10.2210/pdb5u81/pdb
Model geometry
Fit model/data
PDB entry 5u81 coloured by chain, front view.
PDB entry 5u81 coloured by chain, side view.
PDB entry 5u81 coloured by chain, top view.
Source organism: Heterocephalus glaber
Primary publication:
Structural basis for the activation of acid ceramidase.
Gebai A, Gorelik A, Li Z, Illes K, Nagar B
OpenAccess logo Nat Commun 9 1621 (2018)
PMID: 29692406

Function and Biology Details

Reaction catalysed: 
an N-acylsphing-4-enine + H2O = sphing-4-enine + a fatty acid.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-124469 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Acid ceramidase Chain: A
Molecule details ›
Chain: A
Length: 384 amino acids
Theoretical weight: 44.16 KDa
Source organism: Heterocephalus glaber
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: G5AP74 (Residues: 1-369; Coverage: 100%)
Gene name: GW7_12387
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand GOL 2 x GOL
Ligand CL 2 x CL
Ligand PG4 1 x PG4
Ligand 1PE 1 x 1PE
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: C2
Unit cell:
a: 160.767Å b: 53.913Å c: 48.802Å
α: 90° β: 104.41° γ: 90°
R-values:
R R work R free
0.124 0.122 0.158
Expression system: Spodoptera frugiperda

Quick links

Citations

16 review citations

Acid ceramidase deficiency: Farber disease and SMA-PME.
Yu et al. (2018)
15 more

2 mentions without citation

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