SMTL ID : 5l1g.1

AMPA subtype ionotropic glutamate receptor GluA2 in complex with GYKI-Br

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 4.51 Å

Oligo State

homo-tetramer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: Q.328, N.335, K.337, N.346 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.328, A:K.337, A:N.346 NAG.4: 5 residues within 4Å: Chain B: Q.328, E.330, N.335, K.337, N.346 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.328, B:E.330, B:N.335, B:K.337 NAG.6: 4 residues within 4Å: Chain C: Q.328, N.335, K.337, N.346 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.328, C:K.337 NAG.8: 4 residues within 4Å: Chain D: Q.328, N.335, K.337, N.346 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.328, D:N.346

5 x GYB: (8R)-5-(4-amino-3-bromophenyl)-N,8-dimethyl-8,9-dihydro-2H,7H-[1,3]dioxolo[4,5-h][2,3]benzodiazepine-7-carboxamide(Non-covalent)(Covalent)

GYB.2: 13 residues within 4Å: Chain A: S.507, F.508, D.510, P.511, Y.588, L.592, F.595, L.759, S.760, S.762, N.763 Chain D: I.583, S.587 7 PLIP interactions: 1 interactions with chain D, 6 interactions with chain A Hydrogen bonds: D:S.587, A:Y.588, A:N.763, A:N.763 Hydrophobic interactions: A:L.592, A:N.763 pi-Stacking: A:F.595 GYB.3: 12 residues within 4Å: Chain A: T.581, I.585, T.589 Chain B: I.585, S.586 Chain C: W.578, T.581, L.582, I.585, T.589 Chain D: W.578, I.585 6 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: C:L.582, C:I.585, D:I.585, D:I.585 Halogen bonds: B:I.585, B:S.586 GYB.5: 13 residues within 4Å: Chain A: S.587 Chain B: S.501, K.502, S.507, F.508, D.510, P.511, Y.588, L.592, F.595, L.596, S.760, N.763 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.592, B:L.596 Hydrogen bonds: B:S.501, B:Y.588, B:S.760, B:N.763, A:S.587 pi-Stacking: B:F.595 GYB.7: 11 residues within 4Å: Chain B: I.583, S.587 Chain C: S.507, F.508, D.510, P.511, Y.588, L.592, F.595, S.760, N.763 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:L.592 Hydrogen bonds: C:S.760, B:S.587, B:S.587 GYB.9: 12 residues within 4Å: Chain A: S.757 Chain C: S.587 Chain D: K.502, S.507, F.508, D.510, P.511, Y.588, F.595, L.596, S.760, N.763 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:F.595, D:L.596 Hydrogen bonds: D:Y.588, D:N.763, C:S.587 Halogen bonds: C:S.587

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yelshanskaya, M.V. et al., Structural Bases of Noncompetitive Inhibition of AMPA-Subtype Ionotropic Glutamate Receptors by Antiepileptic Drugs. Neuron (2016)

Release Date

2016-10-19

Peptides

Glutamate receptor 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Glutamate receptor 2

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