SMTL ID : 6ud8.1

GluA2 in complex with its auxiliary subunit CNIH3 - with antagonist ZK200775

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

4 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.1: 17 residues within 4Å: Chain A: V.551, Y.554, I.555, S.558, V.559, F.562, E.834, Y.837 Chain D: L.69, S.73 Chain F: S.616, L.617, R.620, I.621, G.624, V.625, F.628 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:I.555, D:L.69 Hydrogen bonds: A:E.834 OLC.3: 16 residues within 4Å: Chain A: S.616, L.617, R.620, I.621, G.624, V.625, W.627, F.628 Chain B: V.551, Y.554, I.555, S.558, V.559, F.562 Chain G: L.69, S.73 8 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A, 1 interactions with chain G Hydrophobic interactions: B:Y.554, B:Y.554, B:I.555, B:V.559, B:F.562, B:F.562, A:I.621, G:L.69 OLC.7: 18 residues within 4Å: Chain B: S.616, L.617, R.620, I.621, G.624, V.625, W.627, F.628 Chain E: V.551, Y.554, I.555, S.558, V.559, F.562, E.834, Y.837 Chain H: L.69, S.73 3 PLIP interactions: 1 interactions with chain H, 2 interactions with chain E Hydrophobic interactions: H:L.69, E:I.555 Hydrogen bonds: E:E.834 OLC.9: 16 residues within 4Å: Chain C: L.69, S.73 Chain E: S.616, L.617, R.620, I.621, G.624, V.625, W.627, F.628 Chain F: V.551, Y.554, I.555, S.558, V.559, F.562 8 PLIP interactions: 6 interactions with chain F, 1 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: F:Y.554, F:Y.554, F:I.555, F:V.559, F:F.562, F:F.562, C:L.69, E:I.621

4 x ZK1: {[7-morpholin-4-yl-2,3-dioxo-6-(trifluoromethyl)-3,4-dihydroquinoxalin-1(2H)-yl]methyl}phosphonic acid(Non-covalent)

ZK1.2: 17 residues within 4Å: Chain A: E.423, Y.426, Y.471, P.499, L.500, T.501, R.506, L.671, G.674, S.675, T.676, T.707, L.725, E.726, T.728, M.729, Y.753 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:P.499, A:T.501, A:R.506, A:R.506, A:S.675, A:S.675, A:S.675, A:S.675, A:T.707 pi-Stacking: A:Y.471 ZK1.4: 15 residues within 4Å: Chain B: E.423, Y.426, Y.471, P.499, L.500, T.501, R.506, G.674, S.675, T.707, L.725, E.726, T.728, M.729, Y.753 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:P.499, B:T.501, B:R.506, B:R.506, B:S.675, B:S.675, B:T.707 pi-Stacking: B:Y.471, B:Y.471 ZK1.8: 17 residues within 4Å: Chain E: E.423, Y.426, Y.471, P.499, L.500, T.501, R.506, L.671, G.674, S.675, T.676, T.707, L.725, E.726, T.728, M.729, Y.753 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:P.499, E:T.501, E:R.506, E:R.506, E:S.675, E:S.675, E:S.675, E:S.675, E:T.707 pi-Stacking: E:Y.471 ZK1.10: 16 residues within 4Å: Chain F: E.423, Y.426, Y.471, P.499, L.500, T.501, R.506, G.674, S.675, T.676, T.707, L.725, E.726, T.728, M.729, Y.753 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:P.499, F:T.501, F:R.506, F:R.506, F:S.675, F:S.675, F:T.707 pi-Stacking: F:Y.471, F:Y.471

4 x CLR: CHOLESTEROL(Non-covalent)

CLR.5: 12 residues within 4Å: Chain A: V.535, Y.818, V.821, G.822, G.825 Chain C: M.11, L.14, V.15, A.18, F.146, M.153, L.157 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:M.11, C:A.18, A:Y.818 CLR.6: 11 residues within 4Å: Chain B: Y.818, V.821, G.822, G.825 Chain D: M.11, L.14, V.15, A.18, F.146, M.153, L.157 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:L.14, D:V.15, D:L.157, B:Y.818, B:Y.818 CLR.11: 12 residues within 4Å: Chain E: V.535, Y.818, V.821, G.822, G.825 Chain G: M.11, L.14, V.15, A.18, F.146, M.153, L.157 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain G Hydrophobic interactions: E:Y.818, G:M.11, G:A.18 CLR.12: 11 residues within 4Å: Chain F: Y.818, V.821, G.822, G.825 Chain H: M.11, L.14, V.15, A.18, F.146, M.153, L.157 5 PLIP interactions: 3 interactions with chain H, 2 interactions with chain F Hydrophobic interactions: H:L.14, H:V.15, H:L.157, F:Y.818, F:Y.818

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakagawa, T., Structures of the AMPA receptor in complex with its auxiliary subunit cornichon. Science (2019)

Release Date

2019-12-04

Peptides

Glutamate receptor 2: ABEF
Protein cornichon homolog 3: CDGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
C

F
D

C
E

D
F

G
G

H
H

Membrane

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

Protein cornichon homolog 3

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