› 2zxc

X-ray diffraction
2.2Å resolution

Ceramidase complexed with C2

Released:
DOI: 10.2210/pdb2zxc/pdb
PDB entry 2zxc coloured by chain, front view.
PDB entry 2zxc coloured by chain, side view.
PDB entry 2zxc coloured by chain, top view.
Source organism: Pseudomonas aeruginosa
Primary publication:
Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase.
Inoue T, Okino N, Kakuta Y, Hijikata A, Okano H, Goda HM, Tani M, Sueyoshi N, Kambayashi K, Matsumura H, Kai Y, Ito M
J Biol Chem 284 9566-77 (2009)
PMID: 19088069

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-191407 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Neutral ceramidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 646 amino acids
Theoretical weight: 70.86 KDa
Source organism: Pseudomonas aeruginosa
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9I596 (Residues: 25-670; Coverage: 100%)
Gene name: PA0845
Sequence domains:
Structure domains: Neutral/alkaline non-lysosomal ceramidase, C-terminal domain

Ligands and Environments

5 bound ligands:
Ligand ZN 2 x ZN
Ligand 2ED 2 x 2ED
Ligand FMT 8 x FMT
Ligand MG 2 x MG
Ligand DMS 2 x DMS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 65.741Å b: 65.8Å c: 340.339Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.194 0.194 0.228
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Drug targeting of sphingolipid metabolism: sphingomyelinases and ceramidases.
Canals et al. (2011)
5 more

5 mentions without citation

Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase.
Inoue et al. (2009)
4 more