SMTL ID : 3fv2.1 (2 other biounits)

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: R.170, E.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.170, A:E.174 GOL.2: 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.3: 5 residues within 4Å: Chain A: P.103, T.106, S.212, K.213, G.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.212 Water bridges: A:G.214, A:G.214 GOL.4: 7 residues within 4Å: Chain A: T.91, V.93, S.140, T.143, F.144, D.211, K.213 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.213 GOL.5: 9 residues within 4Å: Chain A: I.6, T.8, K.53, L.54, V.55, P.56, E.75, R.80, A.81 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.8, A:L.54, A:E.75 Water bridges: A:R.80 GOL.6: 4 residues within 4Å: Chain A: D.123, I.150, T.152, Y.153 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.152 Water bridges: A:T.152, A:Y.153 GOL.7: 6 residues within 4Å: Chain A: R.137, D.138, M.142, K.146, W.157, L.168 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.137, A:D.138, A:K.146

1 x NDZ: (2R,3aR,6R,7R,7aR)-2-[(2S)-2-amino-2-carboxyethyl]-6,7-dihydroxyhexahydro-2H-furo[3,2-b]pyran-2-carboxylic acid(Non-covalent)

NDZ.8: 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 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.60, A:Y.60, A:V.136 Hydrogen bonds: A:T.89, A:T.89, A:S.140, A:T.141, A:T.141, A:E.189, A:E.189, A:S.192 Water bridges: A:V.136, A:S.192 Salt bridges: A:R.94

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

SO4.9: 4 residues within 4Å: Chain A: R.30, V.52, K.53, L.54 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.54 Water bridges: A:R.30 Salt bridges: A:R.30, A:K.53 SO4.10: 1 residues within 4Å: Chain A: K.248 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.19, A:R.19, A:K.248, A:K.248 Salt bridges: A:K.40, A:K.248

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
A

Glutamate receptor, ionotropic kainate 1

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