› 6g7o

X-ray diffraction
2.7Å resolution

Crystal structure of human alkaline ceramidase 3 (ACER3) at 2.7 Angstrom resolution

Released:
DOI: 10.2210/pdb6g7o/pdb
PDB entry 6g7o coloured by chain, front view.
PDB entry 6g7o coloured by chain, side view.
PDB entry 6g7o coloured by chain, top view.
Source organisms:
Primary publication:
Structure of a human intramembrane ceramidase explains enzymatic dysfunction found in leukodystrophy.
Vasiliauskaité-Brooks I, Healey RD, Rochaix P, Saint-Paul J, Sounier R, Grison C, Waltrich-Augusto T, Fortier M, Hoh F, Saied EM, Arenz C, Basu S, Leyrat C, Granier S
Nat Commun 9 5437 (2018)
PMID: 30575723

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-142146 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alkaline ceramidase 3; Soluble cytochrome b562 Chain: A
Molecule details ›
Chain: A
Length: 350 amino acids
Theoretical weight: 40.49 KDa
Source organisms: Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9NUN7 (Residues: 2-244; Coverage: 91%)
  • Canonical: P0ABE7 (Residues: 23-127; Coverage: 99%)
Gene names: ACER3, APHC, PHCA, cybC
Sequence domains:

Ligands and Environments

6 bound ligands:
Ligand ZN 1 x ZN
Ligand SO4 6 x SO4
Ligand NA 3 x NA
Ligand OLB 1 x OLB
Ligand CA 1 x CA
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: C2221
Unit cell:
a: 60.88Å b: 68.83Å c: 257.52Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.248 0.27
Expression system: Spodoptera frugiperda

Quick links

Citations

11 review citations

Metabolic Messengers: Adiponectin.
Straub et al. (2019)
10 more

5 mentions without citation

Role of Ceramidases in Sphingolipid Metabolism and Human Diseases.
Parveen et al. (2019)
4 more