› 5un1

X-ray diffraction
3.6Å resolution

Crystal structure of GluN1/GluN2B delta-ATD NMDA receptor

Released:
DOI: 10.2210/pdb5un1/pdb
PDB entry 5un1 coloured by chain, front view.
PDB entry 5un1 coloured by chain, side view.
PDB entry 5un1 coloured by chain, top view.
Source organism: Xenopus laevis
Primary publication:
Mechanism of NMDA receptor channel block by MK-801 and memantine.
Song X, Jensen MØ, Jogini V, Stein RA, Lee CH, Mchaourab HS, Shaw DE, Gouaux E
Nature 556 515-519 (2018)
PMID: 29670280

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103597 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Glutamate receptor ionotropic, NMDA 1 Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 451 amino acids
Theoretical weight: 51.11 KDa
Source organism: Xenopus laevis
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: A0A1L8F5J9 (Residues: 394-836; Coverage: 49%)
Gene name: grin1
Sequence domains:
Glutamate receptor ionotropic, NMDA 2B Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 448 amino acids
Theoretical weight: 50.17 KDa
Source organism: Xenopus laevis
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: A7XY94 (Residues: 400-839; Coverage: 30%)
Gene name: grin2b
Sequence domains:

Ligands and Environments

7 bound ligands:
Ligand GLY 2 x GLY
Ligand NAG 6 x NAG
Ligand TRS 1 x TRS
Ligand GLU 5 x GLU
Ligand BMK 2 x BMK
Ligand MG 1 x MG
Ligand Y01 1 x Y01
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P21
Unit cell:
a: 181.57Å b: 108.47Å c: 182.46Å
α: 90° β: 111.44° γ: 90°
R-values:
R R work R free
0.289 0.288 0.316
Expression system: Spodoptera frugiperda

Quick links

Citations

23 review citations

The Role of NMDA Receptors in Alzheimer's Disease.
Liu et al. (2019)
22 more

11 mentions without citation

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