SMTL ID : 8e92.1

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

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

NAG-NAG.1: 3 residues within 4Å: Chain A: N.276, A.279, V.334 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: P.767, W.768, N.771 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.368, T.370 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 2 residues within 4Å: Chain B: P.715, N.716 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 2 residues within 4Å: Chain C: P.767, N.771 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 2 residues within 4Å: Chain D: H.365, N.368 No protein-ligand interaction detected (PLIP)

4 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.4: 3 residues within 4Å: Chain B: S.333, H.365, N.368 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 4 residues within 4Å: Chain C: N.28, N.61, A.62, T.63 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.28 NAG-NAG-BMA.7: 2 residues within 4Å: Chain C: N.276, V.334 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 5 residues within 4Å: Chain C: I.272, G.336, R.337, N.350, N.368 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.272 Hydrogen bonds: C:N.350

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

NAG.11: 5 residues within 4Å: Chain A: N.28, N.61, A.62, T.63 Ligands: NAG.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.61, A:T.63 NAG.12: 1 residues within 4Å: Ligands: NAG.11 No protein-ligand interaction detected (PLIP) NAG.13: 3 residues within 4Å: Chain A: N.203, T.205, A.206 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.206 NAG.14: 5 residues within 4Å: Chain A: T.335, G.336, N.350, I.366, N.368 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.350 NAG.15: 1 residues within 4Å: Chain C: N.203 No protein-ligand interaction detected (PLIP) NAG.16: 4 residues within 4Å: Chain C: N.368, G.369, T.370, H.371 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.370, C:H.371 NAG.17: 2 residues within 4Å: Chain D: K.516, N.716 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.516

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

Glutamate receptor ionotropic, NMDA 1

Glutamate receptor ionotropic, NMDA 2C

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