SMTL ID : 3c35.1

Crystal structure of GluR5 ligand-binding core in complex with cesium at 1.97 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-dimer

Ligands

13 x CS: CESIUM ION(Non-covalent)

CS.1: 3 residues within 4Å: Chain A: E.96, I.99, D.100 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.96, A:D.100 CS.2: 1 residues within 4Å: Chain A: S.22 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.22 CS.3: 3 residues within 4Å: Chain A: S.44, N.45, F.49 No protein-ligand interaction detected (PLIP) CS.4: 2 residues within 4Å: Chain A: K.150, E.155 No protein-ligand interaction detected (PLIP) CS.5: 1 residues within 4Å: Chain A: L.181 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.181 CS.6: 3 residues within 4Å: Chain A: T.118, I.120, D.121 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:I.120 CS.11: 3 residues within 4Å: Chain B: E.96, I.99, D.100 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.96, B:D.100 CS.12: 3 residues within 4Å: Chain B: T.118, I.120, D.121 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:I.120, H2O.14 CS.13: 3 residues within 4Å: Chain B: S.44, N.45, F.49 No protein-ligand interaction detected (PLIP) CS.14: 2 residues within 4Å: Chain B: K.150, E.155 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:K.150 CS.15: 2 residues within 4Å: Chain B: C.256, P.257 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.256 CS.16: 2 residues within 4Å: Chain B: P.119, D.125 No protein-ligand interaction detected (PLIP) CS.17: 3 residues within 4Å: Chain B: N.29, Y.51, D.52 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 3 residues within 4Å: Chain A: K.103, R.227 Chain B: K.103 Ligand excluded by PLIP

2 x KAI: 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE(Non-covalent)

KAI.8: 13 residues within 4Å: Chain A: E.13, Y.61, P.88, L.89, T.90, R.95, V.137, G.140, S.141, T.142, E.190, Y.216 Ligands: GOL.9 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:E.13, A:Y.61, A:V.137 Hydrogen bonds: A:T.90, A:T.90, A:S.141, A:S.141, A:T.142, A:T.142, A:E.190 Water bridges: A:M.143, A:E.190 Salt bridges: A:R.95 KAI.18: 12 residues within 4Å: Chain B: E.13, Y.61, P.88, L.89, T.90, R.95, V.137, G.140, S.141, T.142, E.190 Ligands: GOL.19 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.61, B:V.137 Hydrogen bonds: B:T.90, B:S.141, B:S.141, B:T.142, B:T.142, B:E.190 Water bridges: B:V.137, B:V.137, B:E.190, B:E.190 Salt bridges: B:R.95

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 11 residues within 4Å: Chain A: K.60, Y.61, G.62, A.63, N.71, V.137, R.138, D.139, G.140, K.171 Ligands: KAI.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.61, A:G.62, A:G.62, A:K.171 Water bridges: A:N.71 GOL.10: 8 residues within 4Å: Chain A: T.107, S.213, K.214 Chain B: P.104, F.105, M.106, T.107, Q.238 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:F.105, B:T.107, B:T.107, A:S.213 Water bridges: A:S.213 GOL.19: 9 residues within 4Å: Chain B: K.60, Y.61, G.62, A.63, V.137, R.138, D.139, G.140 Ligands: KAI.18 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.61, B:G.62, B:R.138 Water bridges: B:N.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plested, A.J. et al., Molecular basis of kainate receptor modulation by sodium. Neuron (2008)

Release Date

2008-06-17

Peptides

GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 1

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