SMTL ID : 3lsf.2 (1 other biounit)

Piracetam bound to the ligand binding domain of GluA2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.1: 11 residues within 4Å: Chain A: Y.58, P.86, L.87, T.88, R.93, L.135, G.138, S.139, T.140, E.190, Y.217 16 PLIP interactions: 3 Ligand-Ligand interactions, 13 interactions with chain A Hydrogen bonds: E.1, E.1, E.1, A:P.86, A:T.88, A:T.88, A:S.139, A:S.139, A:T.140, A:T.140 Hydrophobic interactions: A:Y.58, A:L.135 Water bridges: A:L.135, A:K.141, A:E.190 Salt bridges: A:R.93 GLU.6: 11 residues within 4Å: Chain B: Y.58, P.86, L.87, T.88, R.93, L.135, G.138, S.139, T.140, E.190, Y.217 17 PLIP interactions: 3 Ligand-Ligand interactions, 14 interactions with chain B Hydrogen bonds: E.6, E.6, E.6, B:P.86, B:T.88, B:T.88, B:T.88, B:S.139, B:S.139, B:T.140, B:T.140 Hydrophobic interactions: B:Y.58, B:L.135 Water bridges: B:L.135, B:K.141, B:E.190 Salt bridges: B:R.93

4 x PZI: 2-(2-oxopyrrolidin-1-yl)acetamide(Non-covalent)

PZI.2: 9 residues within 4Å: Chain A: Y.32, P.102, F.103, M.104, S.239, L.244, D.245, K.248 Chain B: S.214 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.103 PZI.3: 6 residues within 4Å: Chain A: D.245, N.249 Chain B: N.211, L.212, D.213, S.214 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.249 PZI.7: 9 residues within 4Å: Chain A: S.214 Chain B: Y.32, P.102, F.103, M.104, S.239, L.244, D.245, K.248 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.32, B:F.103, B:D.245 PZI.8: 6 residues within 4Å: Chain A: N.211, L.212, D.213, S.214 Chain B: D.245, N.249 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.249 Water bridges: B:D.245

4 x ZN: ZINC ION(Non-covalent)

ZN.4: 1 residues within 4Å: Chain A: E.163 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.163, A:E.163 ZN.5: 5 residues within 4Å: Chain A: E.39, K.42, H.43, L.238, Q.241 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.39, A:H.43 ZN.9: 1 residues within 4Å: Chain B: E.163 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.163, B:E.163 ZN.10: 5 residues within 4Å: Chain B: E.39, K.42, H.43, L.238, Q.241 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.39, B:H.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahmed, A.H. et al., Piracetam Defines a New Binding Site for Allosteric Modulators of alpha-Amino-3-hydroxy-5-methyl-4-isoxazole-propionic Acid (AMPA) Receptors. J.Med.Chem. (2010)

Release Date

2010-03-16

Peptides

Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
H

Glutamate receptor 2

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