› 3qxm

X-ray diffraction
1.65Å resolution

Crystal Structure of Human GluK2 Ligand-Binding Core in Complex with Novel Marine-Derived Toxins, Neodysiherbaine A

Released:
DOI: 10.2210/pdb3qxm/pdb
PDB entry 3qxm coloured by chain, front view.
PDB entry 3qxm coloured by chain, side view.
PDB entry 3qxm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Binding and selectivity of the marine toxin neodysiherbaine A and its synthetic analogues to GluK1 and GluK2 kainate receptors.
Unno M, Shinohara M, Takayama K, Tanaka H, Teruya K, Doh-ura K, Sakai R, Sasaki M, Ikeda-Saito M
J Mol Biol 413 667-83 (2011)
PMID: 21893069

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171498 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glutamate receptor ionotropic, kainate 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 258 amino acids
Theoretical weight: 29.29 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q13002 (Residues: 429-544, 667-806; Coverage: 29%)
  • Best match: Q13002-3 (Residues: 429-544)
Gene names: GLUR6, GRIK2
Sequence domains:
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

1 bound ligand:
Ligand NDZ 2 x NDZ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P21
Unit cell:
a: 46.353Å b: 105.684Å c: 57.999Å
α: 90° β: 102.27° γ: 90°
R-values:
R R work R free
0.183 0.181 0.221
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Structure, Function, and Pharmacology of Glutamate Receptor Ion Channels.
Hansen et al. (2021)
1 more

2 mentions without citation

Pathogenic priming likely contributes to serious and critical illness and mortality in COVID-19 via autoimmunity.
Lyons-Weiler J. (2020)
1 more