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

Crystal structure of the human glutamate receptor, GluR5, ligand-binding core in complex with 8-epi-neodysiherbaine A in space group P1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: T.89, T.91, V.93, S.140, T.143, F.144, D.211, K.213 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.91, A:K.213 Water bridges: A:D.211, A:D.211 GOL.2: 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.3: 9 residues within 4Å: Chain A: E.12, E.13, P.14, S.172, I.176, S.192, Y.195, V.196 Ligands: 8EP.7 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.172, A:S.192, A:S.192, A:S.192 Water bridges: A:E.13 GOL.4: 2 residues within 4Å: Chain A: K.40, Y.50 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.28, A:N.28, A:N.28, A:Y.50 GOL.5: 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:R.137 Water bridges: A:D.138 GOL.6: 8 residues within 4Å: Chain A: 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:K.53, A:L.54, A:R.80

1 x 8EP: (2R,3aR,6R,7S,7aR)-2-[(2S)-2-amino-3-hydroxy-3-oxo-propyl]-6,7-dihydroxy-3,3a,5,6,7,7a-hexahydrofuro[4,5-b]pyran-2-carboxylic acid(Non-covalent)

8EP.7: 16 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 Ligands: GOL.3 16 PLIP interactions: 16 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:T.141, A:E.189, A:E.189, A:E.189, A:S.192 Water bridges: A:V.136 Salt bridges: A:R.94

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

SO4.8: 4 residues within 4Å: Chain A: R.30, V.52, K.53, L.54 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.54 Water bridges: A:R.30 Salt bridges: A:R.30 SO4.9: 3 residues within 4Å: Chain A: R.3, L.5, Y.225 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.225, A:Y.225 Salt bridges: A:R.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unno, M. et al., Crystal Structures of Human GluR5 Ligand-Binding Core in Complexes with Novel Marine-Derived Toxins, Dysiherbaine and Neodysiherbaine A, and Their Analogues. To be Published

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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