SMTL ID : 6mmt.1

Triheteromeric NMDA receptor GluN1/GluN2A/GluN2A* in the '1-Knuckle' conformation, in complex with glycine and glutamate, in the presence of 1 micromolar zinc chloride, and at pH 7.4

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-mer

Ligands

4 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: 5 residues within 4Å: Chain A: N.273, N.276, E.277, S.278, A.279 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain A: N.368, H.371 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain C: N.368, T.370, H.371 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain C: P.767, W.768, N.771 No protein-ligand interaction detected (PLIP)

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

NAG.5: 3 residues within 4Å: Chain A: N.61, A.62, T.63 Ligand excluded by PLIP NAG.6: 3 residues within 4Å: Chain A: K.202, N.203, T.205 Ligand excluded by PLIP NAG.7: 1 residues within 4Å: Chain A: N.239 Ligand excluded by PLIP NAG.8: 2 residues within 4Å: Chain A: E.299, N.300 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: T.335, G.336, N.350 Ligand excluded by PLIP NAG.10: 4 residues within 4Å: Chain A: N.440, D.441, H.449, V.451 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain A: N.471 Ligand excluded by PLIP NAG.12: 1 residues within 4Å: Chain A: N.771 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain A: R.489, V.490, N.491 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain B: M.74, N.75 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain B: N.340 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain B: E.379, N.380 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain B: I.442, N.443 Ligands: NAG.18 Ligand excluded by PLIP NAG.18: 2 residues within 4Å: Chain B: N.444 Ligands: NAG.17 Ligand excluded by PLIP NAG.19: 2 residues within 4Å: Chain B: P.686, N.687 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain C: N.61, A.62 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain C: N.203, T.205 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain C: N.239, Y.245 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain C: N.276 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain C: K.298, N.300, L.320 Ligand excluded by PLIP NAG.25: 6 residues within 4Å: Chain C: T.335, G.336, R.337, R.346, F.348, N.350 Ligand excluded by PLIP NAG.26: 6 residues within 4Å: Chain C: P.439, N.440, D.441, S.446, P.447, H.449 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain C: N.471 Ligand excluded by PLIP NAG.28: 3 residues within 4Å: Chain C: R.489, V.490, N.491 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain D: H.42, N.75 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain D: V.339, N.340 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain D: G.345, N.380 Ligand excluded by PLIP NAG.32: 2 residues within 4Å: Chain D: I.442, N.443 Ligand excluded by PLIP NAG.33: 3 residues within 4Å: Chain D: I.442, N.443, N.444 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jalali-Yazdi, F. et al., Mechanisms for Zinc and Proton Inhibition of the GluN1/GluN2A NMDA Receptor. Cell (2018)

Release Date

2018-11-28

Peptides

Glutamate receptor ionotropic, NMDA 1: AC
Glutamate receptor ionotropic, NMDA 2A: B
Glutamate receptor ionotropic, NMDA 2A: D

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 2A

Glutamate receptor ionotropic, NMDA 2A

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