SMTL ID : 9bib.1

Rat GluN1-GluN2B NMDA receptor channel in complex with glycine, glutamate, and EU-1622-A, in open-channel conformation, C1 symmetry

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x GLY: GLYCINE(Non-covalent)

GLY.1: 8 residues within 4Å: Chain A: F.484, P.516, L.517, T.518, R.523, S.688, W.731, D.732 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.516, A:T.518, A:S.688, A:D.732 Salt bridges: A:R.523 GLY.3: 7 residues within 4Å: Chain C: F.484, P.516, T.518, R.523, S.687, S.688, D.732 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Ligand interactions Hydrogen bonds: C:P.516, C:T.518, C:S.688, C:D.732, G.3 Salt bridges: C:R.523

2 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.2: 10 residues within 4Å: Chain B: E.444, H.517, S.543, T.545, R.550, N.719, G.720, S.721, Y.762, D.763 10 PLIP interactions: 10 interactions with chain B, Hydrophobic interactions: B:T.545, B:Y.762 Hydrogen bonds: B:T.545, B:N.719, B:S.721, B:Y.762, B:Y.762 Salt bridges: B:H.517, B:H.517, B:R.550 GLU.4: 8 residues within 4Å: Chain D: E.444, H.517, T.545, R.550, N.719, S.721, Y.762, D.763 5 PLIP interactions: 5 interactions with chain D, Hydrogen bonds: D:S.721, D:T.722, D:Y.762 Salt bridges: D:H.517, D:R.550

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chou, T.H. et al., Molecular mechanism of ligand gating and opening of NMDA receptor. Nature (2024)

Release Date

2024-07-31

Peptides

Glutamate receptor ionotropic, NMDA 1: AC
Glutamate receptor: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Membrane

We predict this structure to be a membrane protein.
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Glutamate receptor ionotropic, NMDA 1

Glutamate receptor

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