SMTL ID : 8e93.1

D-cycloserine and glutamate bound Human GluN1a-GluN2C NMDA receptor in splayed conformation

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 4 residues within 4Å: Chain A: N.28, N.61, A.62, S.84 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.84, A:S.84, A:S.84 NAG-NAG-BMA.2: 1 residues within 4Å: Chain A: N.471 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.3: 5 residues within 4Å: Chain B: Y.334, H.338, A.361, H.365, N.368 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.334, B:H.338 NAG-NAG.4: 2 residues within 4Å: Chain C: P.767, N.771 No protein-ligand interaction detected (PLIP)

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.5: 2 residues within 4Å: Chain A: N.203, A.206 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.206 NAG.6: 2 residues within 4Å: Chain A: N.350 Ligands: NAG.7 No protein-ligand interaction detected (PLIP) NAG.7: 4 residues within 4Å: Chain A: N.368, T.370, H.371 Ligands: NAG.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.370 NAG.8: 2 residues within 4Å: Chain A: M.237, N.239 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain A: N.276, A.279, V.334 No protein-ligand interaction detected (PLIP) NAG.10: 3 residues within 4Å: Chain A: M.470, Q.770, N.771 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.771 Hydrogen bonds: A:N.771 NAG.11: 2 residues within 4Å: Chain B: N.716, Q.739 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.716 NAG.12: 1 residues within 4Å: Chain C: N.471 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chou, T.H. et al., Structural insights into assembly and function of GluN1-2C, GluN1-2A-2C, and GluN1-2D NMDARs. Mol.Cell (2022)

Release Date

2022-12-07

Peptides

Glutamate receptor ionotropic, NMDA 1: AC
Glutamate receptor ionotropic, NMDA 2C: 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 ionotropic, NMDA 2C

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