SMTL ID : 3fvn.2 (2 other biounits)

Crystal structure of the human glutamate receptor, GluR5, ligand-binding core in complex with 9-deoxy-neodysiherbaine A in space group P1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: P.103, T.106, S.212, K.213, G.214 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.212 Water bridges: A:S.212, A:S.212, A:G.214, A:G.214 GOL.2: 7 residues within 4Å: Chain A: T.91, V.93, S.140, T.143, F.144, D.211, K.213 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.91, A:K.213 Water bridges: A:Y.92, A:D.211, A:D.211 GOL.3: 6 residues within 4Å: Chain A: A.126, K.127, Q.128, T.129, K.155, F.159 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.127, A:K.155 GOL.4: 5 residues within 4Å: Chain A: R.137, D.138, M.142, K.146, W.157 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.137 Water bridges: A:D.138

1 x 9DX: (2R,3aR,7R,7aR)-2-[(2S)-2-amino-3-hydroxy-3-oxo-propyl]-7-hydroxy-3,3a,5,6,7,7a-hexahydrofuro[4,5-b]pyran-2-carboxylic acid(Non-covalent)

9DX.5: 15 residues within 4Å: Chain A: E.12, Y.60, P.87, L.88, T.89, R.94, V.136, G.139, S.140, T.141, S.172, M.188, E.189, S.192, Y.215 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.60, A:Y.60, A:V.136 Hydrogen bonds: A:P.87, A:P.87, A:T.89, A:T.89, A:S.140, A:T.141, A:E.189 Water bridges: A:V.136, A:E.189 Salt bridges: A:R.94

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 2 residues within 4Å: Chain A: R.3, Y.225 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.225, A:Y.225 Salt bridges: A:R.3 SO4.7: 4 residues within 4Å: Chain A: R.30, V.52, K.53, L.54 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.54 Water bridges: A:D.51, A:K.53 Salt bridges: A:R.30, A:K.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unno, M. et al., Binding and Selectivity of the Marine Toxin Neodysiherbaine A and Its Synthetic Analogues to GluK1 and GluK2 Kainate Receptors. J.Mol.Biol. (2011)

Release Date

2010-01-19

Peptides

Glutamate receptor, ionotropic kainate 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glutamate receptor, ionotropic kainate 1

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