› 6e7s

X-ray diffraction
2.72Å resolution

Heterodimer of the GluN1b-GluN2B NMDA receptor amino-terminal domains bound to allosteric inhibitor 93-5

Released:
DOI: 10.2210/pdb6e7s/pdb
PDB entry 6e7s coloured by chain, front view.
PDB entry 6e7s coloured by chain, side view.
PDB entry 6e7s coloured by chain, top view.
Source organisms:
Primary publication:
Structural elements of a pH-sensitive inhibitor binding site in NMDA receptors
Regan MC, Furukawa H
Nat Commun 10 321- (2019)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103591 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Glutamate receptor ionotropic, NMDA 1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 385 amino acids
Theoretical weight: 43.16 KDa
Source organism: Xenopus laevis
Expression system: Trichoplusia ni
UniProt:
  • Canonical: A0A1L8F5J9 (Residues: 23-190, 191-386; Coverage: 41%)
Gene name: grin1
Sequence domains: Receptor family ligand binding region
Structure domains: Rossmann fold
Glutamate receptor ionotropic, NMDA 2B Chains: B, D
Molecule details ›
Chains: B, D
Length: 363 amino acids
Theoretical weight: 41.28 KDa
Source organism: Rattus norvegicus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q00960 (Residues: 32-394; Coverage: 25%)
Gene name: Grin2b
Sequence domains: Receptor family ligand binding region
Structure domains: Rossmann fold

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand NAG 8 x NAG
Ligand NA 2 x NA
Ligand CL 8 x CL
Ligand HZ4 2 x HZ4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS-II BEAMLINE 17-ID-2
Spacegroup: C2
Unit cell:
a: 268.43Å b: 60.633Å c: 145.391Å
α: 90° β: 116.42° γ: 90°
R-values:
R R work R free
0.191 0.189 0.234
Expression system: Trichoplusia ni

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