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X-ray diffraction
1.7Å resolution

Crystal structure of a Niemann-Pick type C2 protein from Japanese carpenter ant in complex with oleic acid

Released:
DOI: 10.2210/pdb3web/pdb
PDB entry 3web coloured by chain, front view.
PDB entry 3web coloured by chain, side view.
PDB entry 3web coloured by chain, top view.
Source organism: Camponotus japonicus
Primary publication:
Niemann-Pick type C2 protein mediating chemical communication in the worker ant.
Ishida Y, Tsuchiya W, Fujii T, Fujimoto Z, Miyazawa M, Ishibashi J, Matsuyama S, Ishikawa Y, Yamazaki T
Proc Natl Acad Sci U S A 111 3847-52 (2014)
PMID: 24567405

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-197747 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
MD-2-related lipid-recognition domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 132 amino acids
Theoretical weight: 14.93 KDa
Source organism: Camponotus japonicus
Expression system: Escherichia coli
UniProt:
  • Canonical: W5JXD9 (Residues: 1-132; Coverage: 100%)
Gene name: CjapNPC2
Sequence domains: ML domain
Structure domains: Immunoglobulin-like

Ligands and Environments

1 bound ligand:
Ligand OLA 1 x OLA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P21212
Unit cell:
a: 34.849Å b: 103.177Å c: 39.311Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.219 0.216 0.267
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Soluble proteins of chemical communication: an overview across arthropods.
Pelosi et al. (2014)
7 more

3 mentions without citation

Niemann-Pick type C2 protein mediating chemical communication in the worker ant.
Ishida et al. (2014)
2 more