› 4jwy

X-ray diffraction
2Å resolution

GluN2D ligand-binding core in complex with propyl-NHP5G

Released:
DOI: 10.2210/pdb4jwy/pdb
PDB entry 4jwy coloured by chain, front view.
PDB entry 4jwy coloured by chain, side view.
PDB entry 4jwy coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
Structural determinants of agonist efficacy at the glutamate binding site of N-methyl-D-aspartate receptors.
Hansen KB, Tajima N, Risgaard R, Perszyk RE, Jørgensen L, Vance KM, Ogden KK, Clausen RP, Furukawa H, Traynelis SF
Mol Pharmacol 84 114-27 (2013)
PMID: 23625947

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-178952 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glutamate receptor ionotropic, NMDA 2D Chain: A
Molecule details ›
Chain: A
Length: 286 amino acids
Theoretical weight: 32.07 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q62645 (Residues: 424-564, 686-827; Coverage: 22%)
Gene names: GluN2D, Grin2d
Sequence domains:
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

1 bound ligand:
Ligand 1N4 1 x 1N4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: C2221
Unit cell:
a: 59.996Å b: 113.899Å c: 95.695Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.191 0.233
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

10 review citations

Structure, function, and allosteric modulation of NMDA receptors.
Hansen et al. (2018)
9 more

1 mention without citation

Structural determinants of agonist efficacy at the glutamate binding site of N-methyl-D-aspartate receptors.
Hansen et al. (2013)