› 3nkm

X-ray diffraction
2Å resolution

Crystal structure of mouse autotaxin

Released:
DOI: 10.2210/pdb3nkm/pdb
PDB entry 3nkm coloured by chain, front view.
PDB entry 3nkm coloured by chain, side view.
PDB entry 3nkm coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Crystal structure of autotaxin and insight into GPCR activation by lipid mediators.
Nishimasu H, Okudaira S, Hama K, Mihara E, Dohmae N, Inoue A, Ishitani R, Takagi J, Aoki J, Nureki O
Nat Struct Mol Biol 18 205-12 (2011)
PMID: 21240269

Function and Biology Details

Reaction catalysed: 
1-alkyl-sn-glycero-3-phosphoethanolamine + H(2)O = 1-alkyl-sn-glycerol 3-phosphate + ethanolamine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193093 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Ectonucleotide pyrophosphatase/phosphodiesterase family member 2 Chain: A
Molecule details ›
Chain: A
Length: 831 amino acids
Theoretical weight: 95.76 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9R1E6 (Residues: 36-862; Coverage: 99%)
Gene names: Enpp2, Npps2, Pdnp2
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
8 bound ligands:
Ligand ZN 2 x ZN
Ligand CA 1 x CA
Ligand NA 1 x NA
Ligand K 1 x K
Ligand SO4 1 x SO4
Ligand NKP 1 x NKP
Ligand SCN 2 x SCN
Ligand EDO 17 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P21
Unit cell:
a: 61.588Å b: 94.731Å c: 75.652Å
α: 90° β: 94.05° γ: 90°
R-values:
R R work R free
0.166 0.163 0.213
Expression system: Homo sapiens

Quick links

Citations

43 review citations

Phospholipase D: enzymology, functionality, and chemical modulation.
Selvy et al. (2011)
42 more

13 mentions without citation

Cellular function and molecular structure of ecto-nucleotidases.
Zimmermann et al. (2012)
12 more