SMTL ID : 6whv.1

GluN1b-GluN2B NMDA receptor in complex with SDZ 220-040 and L689,560, class 2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

1 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: 1 residues within 4Å: Chain B: N.372 No protein-ligand interaction detected (PLIP)

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

NAG.2: 4 residues within 4Å: Chain A: N.297, S.299, A.300, V.355 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.297 NAG.4: 1 residues within 4Å: Chain B: N.573 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.573 NAG.7: 1 residues within 4Å: Chain D: N.573 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.573 NAG.8: 2 residues within 4Å: Chain D: N.719, R.727 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:R.727

2 x QGP: (2S)-2-amino-3-[2',4'-dichloro-4-hydroxy-5-(phosphonomethyl)biphenyl-3-yl]propanoic acid(Covalent)

QGP.3: 13 residues within 4Å: Chain B: E.444, A.445, P.446, H.517, S.543, L.544, T.545, R.550, G.720, S.721, T.722, Y.762, Y.793 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.545, B:T.722, B:Y.793 Salt bridges: B:H.517, B:R.550 Halogen bonds: B:Y.793 QGP.6: 12 residues within 4Å: Chain D: E.444, A.445, H.517, L.544, T.545, R.550, G.720, S.721, T.722, Y.762, V.766, Y.793 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:V.766 Hydrogen bonds: D:T.545, D:N.719, D:T.722 Salt bridges: D:H.517, D:R.550

1 x QGM: (2R,4S)-5,7-dichloro-4-[(phenylcarbamoyl)amino]-1,2,3,4-tetrahydroquinoline-2-carboxylic acid(Covalent)

QGM.5: 12 residues within 4Å: Chain C: Q.426, F.505, P.537, L.538, T.539, R.544, K.706, Q.707, S.708, S.709, W.752, D.753 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:P.537 Hydrogen bonds: C:P.537, C:T.539, C:S.709 Salt bridges: C:R.544

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chou, T.H. et al., Structural Basis of Functional Transitions in Mammalian NMDA Receptors. Cell (2020)

Release Date

2020-08-05

Peptides

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

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