› 3woc

X-ray diffraction
2.4Å resolution

Crystal structure of a prostate-specific WGA16 glycoprotein lectin, form II

Released:
DOI: 10.2210/pdb3woc/pdb
PDB entry 3woc coloured by chain, front view.
PDB entry 3woc coloured by chain, side view.
PDB entry 3woc coloured by chain, top view.
Source organism: Sus scrofa
Primary publication:
Discovery, primary, and crystal structures and capacitation-related properties of a prostate-derived heparin-binding protein WGA16 from boar sperm.
Garénaux E, Kanagawa M, Tsuchiyama T, Hori K, Kanazawa T, Goshima A, Chiba M, Yasue H, Ikeda A, Yamaguchi Y, Sato C, Kitajima K
J Biol Chem 290 5484-501 (2015)
PMID: 25568322

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-100851 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Jacalin-type lectin domain-containing protein Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 151 amino acids
Theoretical weight: 16.35 KDa
Source organism: Sus scrofa
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0A8IK66 (Residues: 17-166; Coverage: 100%)
Gene names: LOC110259943, wga16
Sequence domains: Jacalin-like lectin domain
Structure domains: Jacalin-like lectin domain

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand DIO 16 x DIO
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: C2
Unit cell:
a: 134.483Å b: 77.848Å c: 87.187Å
α: 90° β: 91.3° γ: 90°
R-values:
R R work R free
0.256 0.252 0.32
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Sugar recognition and protein-protein interaction of mammalian lectins conferring diverse functions.
Nagae et al. (2015)
4 more

1 mention without citation

Discovery, primary, and crystal structures and capacitation-related properties of a prostate-derived heparin-binding protein WGA16 from boar sperm.
Garénaux et al. (2015)