› 3pd9

X-ray diffraction
2.1Å resolution

X-ray structure of the ligand-binding core of GluA2 in complex with (R)-5-HPCA at 2.1 A resolution

Released:
DOI: 10.2210/pdb3pd9/pdb
PDB entry 3pd9 coloured by chain, front view.
PDB entry 3pd9 coloured by chain, side view.
PDB entry 3pd9 coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
Biostructural and pharmacological studies of bicyclic analogues of the 3-isoxazolol glutamate receptor agonist ibotenic acid.
Frydenvang K, Pickering DS, Greenwood JR, Krogsgaard-Larsen N, Brehm L, Nielsen B, Vogensen SB, Hald H, Kastrup JS, Krogsgaard-Larsen P, Clausen RP
J Med Chem 53 8354-61 (2010)
PMID: 21067182

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148607 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glutamate receptor 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 260 amino acids
Theoretical weight: 29.01 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P19491 (Residues: 413-527, 653-795; Coverage: 30%)
Gene names: GluA2, Glur2, Gria2
Sequence domains:
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

4 bound ligands:
Ligand HA5 2 x HA5
Ligand SO4 4 x SO4
Ligand GOL 5 x GOL
Ligand CL 4 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P21212
Unit cell:
a: 99.391Å b: 121.251Å c: 47.547Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.177 0.233
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Ethynylglycine synthon, a useful precursor for the synthesis of biologically active compounds: an update. Part II: synthetic uses of ethynylglycine synthon.
Benfodda et al. (2018)
3 other articles

1 mention without citation

Size matters in activation/inhibition of ligand-gated ion channels.
Du et al. (2012)