SMTL ID : 6mmp.1

Diheteromeric NMDA receptor GluN1/GluN2A in the '2-Knuckle-Symmetric' conformation, in complex with glycine and glutamate, in the presence of 0.1 millimolar EDTA, and at pH 8.0

Coordinates

PDB Format Compare

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: 4 residues within 4Å: Chain A: N.368, T.370, H.371, I.373 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain B: P.686, N.687 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain C: N.368, T.370, H.371, I.373 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 1 residues within 4Å: Chain C: N.471 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain C: N.491 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 4 residues within 4Å: Chain D: K.484, K.487, P.686, N.687 No protein-ligand interaction detected (PLIP)

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

NAG.7: 3 residues within 4Å: Chain A: N.61, A.62, T.63 Ligand excluded by PLIP NAG.8: 2 residues within 4Å: Chain A: K.202, N.203 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: M.237, L.238, N.239 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain A: N.276, S.278, A.279 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain A: E.299, N.300 Ligand excluded by PLIP NAG.12: 5 residues within 4Å: Chain A: T.335, G.336, R.337, N.350, N.368 Ligand excluded by PLIP NAG.13: 4 residues within 4Å: Chain A: N.440, H.449, V.451, Q.453 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain A: N.471 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain A: N.491 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain A: N.771, L.774 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain B: M.74, N.75, R.76 Ligand excluded by PLIP NAG.18: 1 residues within 4Å: Chain B: N.340 Ligand excluded by PLIP NAG.19: 2 residues within 4Å: Chain B: E.379, N.380 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: I.442, N.443 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain B: N.444 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain C: N.61, A.62, T.63 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain C: K.202, N.203, T.205 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain C: R.212, L.238, N.239 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain C: N.276, S.278, A.279 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain C: E.299, N.300 Ligand excluded by PLIP NAG.27: 6 residues within 4Å: Chain C: T.335, G.336, R.337, F.348, N.350, N.368 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain C: N.440, H.449 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain C: M.470, N.771 Ligand excluded by PLIP NAG.30: 3 residues within 4Å: Chain D: L.73, N.75, R.76 Ligand excluded by PLIP NAG.31: 1 residues within 4Å: Chain D: N.340 Ligand excluded by PLIP NAG.32: 4 residues within 4Å: Chain D: E.379, N.380, Q.381, T.382 Ligand excluded by PLIP NAG.33: 2 residues within 4Å: Chain D: I.442, N.443 Ligand excluded by PLIP NAG.34: 1 residues within 4Å: Chain D: 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: 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 2A

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