SMTL ID : 7rz5.1

Structure of the complex of LBD-TMD part of AMPA receptor GluA2 with auxiliary subunit TARP gamma-5 bound to competitive antagonist ZK 200775

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

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

ZK1.1: 12 residues within 4Å: Chain A: E.393, Y.396, Y.441, P.469, T.471, R.476, G.644, S.645, T.677, E.696, M.699, Y.723 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.441 Hydrogen bonds: A:P.469, A:T.471, A:R.476, A:R.476, A:S.645, A:S.645, A:S.645, A:S.645, A:T.677 pi-Stacking: A:Y.441 Halogen bonds: A:E.393 ZK1.9: 11 residues within 4Å: Chain B: E.393, Y.396, Y.441, P.469, T.471, R.476, G.644, S.645, T.677, E.696, Y.723 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:P.469, B:T.471, B:R.476, B:R.476, B:S.645, B:S.645, B:S.645, B:S.645 pi-Stacking: B:Y.441, B:Y.441 Halogen bonds: B:E.696 ZK1.15: 12 residues within 4Å: Chain C: E.393, Y.396, Y.441, P.469, T.471, R.476, G.644, S.645, T.677, E.696, M.699, Y.723 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:Y.441 Hydrogen bonds: C:P.469, C:T.471, C:R.476, C:R.476, C:S.645, C:S.645, C:S.645, C:S.645, C:T.677 pi-Stacking: C:Y.441 Halogen bonds: C:E.393 ZK1.23: 12 residues within 4Å: Chain D: E.393, Y.396, Y.441, P.469, T.471, R.476, G.644, S.645, T.677, E.696, M.699, Y.723 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:P.469, D:T.471, D:R.476, D:R.476, D:S.645, D:S.645, D:S.645, D:E.696 pi-Stacking: D:Y.441

24 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

PCW.2: 2 residues within 4Å: Chain A: F.506 Ligands: PCW.3 Ligand excluded by PLIP PCW.3: 5 residues within 4Å: Chain A: Y.514, K.993, F.998, A.999 Ligands: PCW.2 Ligand excluded by PLIP PCW.4: 8 residues within 4Å: Chain A: R.536, I.564, F.565, L.1006, S.1010, M.1014, Y.1017 Chain D: L.587 Ligand excluded by PLIP PCW.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PCW.6: 1 residues within 4Å: Chain A: Y.788 Ligand excluded by PLIP PCW.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PCW.8: 1 residues within 4Å: Chain A: V.925 Ligand excluded by PLIP PCW.10: 6 residues within 4Å: Chain B: Y.514, W.517, M.518, F.565, F.575 Ligands: PCW.11 Ligand excluded by PLIP PCW.11: 6 residues within 4Å: Chain A: I.591, V.595 Chain B: F.506, Y.514, I.789 Ligands: PCW.10 Ligand excluded by PLIP PCW.12: 5 residues within 4Å: Chain A: L.587 Chain B: F.565, I.803, E.804, Y.807 Ligand excluded by PLIP PCW.13: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PCW.14: 1 residues within 4Å: Chain B: F.522 Ligand excluded by PLIP PCW.16: 5 residues within 4Å: Chain B: F.598 Chain C: F.506, L.509, W.569 Ligands: PCW.17 Ligand excluded by PLIP PCW.17: 4 residues within 4Å: Chain C: Y.514, V.521, F.998 Ligands: PCW.16 Ligand excluded by PLIP PCW.18: 9 residues within 4Å: Chain B: L.587 Chain C: R.536, G.563, I.564, F.565, L.1006, V.1013, M.1014, Y.1017 Ligand excluded by PLIP PCW.19: 1 residues within 4Å: Chain C: Y.788 Ligand excluded by PLIP PCW.20: 1 residues within 4Å: Chain C: Y.788 Ligand excluded by PLIP PCW.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PCW.22: 1 residues within 4Å: Chain D: F.522 Ligand excluded by PLIP PCW.24: 7 residues within 4Å: Chain D: Y.514, W.517, M.518, Y.524, F.565, F.575 Ligands: PCW.25 Ligand excluded by PLIP PCW.25: 3 residues within 4Å: Chain D: F.506, Y.514 Ligands: PCW.24 Ligand excluded by PLIP PCW.26: 5 residues within 4Å: Chain C: L.587 Chain D: F.565, I.803, E.804, Y.807 Ligand excluded by PLIP PCW.27: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PCW.28: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klykov, O. et al., Structure and desensitization of AMPA receptor complexes with type II TARP gamma 5 and GSG1L. Mol.Cell (2021)

Release Date

2021-10-27

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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