SMTL ID : 3fv1.3 (2 other biounits)

Crystal Structure of the human glutamate receptor, GluR5, ligand-binding core in complex with dysiherbaine in space group P1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x DYH: (2R,3aR,6S,7R,7aR)-2-[(2S)-2-amino-2-carboxyethyl]-6-hydroxy-7-(methylamino)hexahydro-2H-furo[3,2-b]pyran-2-carboxylic acid(Non-covalent)

DYH.1: 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 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.60, A:Y.60, A:V.136 Hydrogen bonds: A:T.89, A:S.140, A:T.141, A:T.141, A:E.189, A:E.189, A:E.189, A:E.189, A:E.189, A:S.192, A:S.192 Water bridges: A:V.136, A:M.142 Salt bridges: A:R.94 DYH.9: 16 residues within 4Å: Chain B: E.12, Y.15, 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 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:Y.60, B:Y.60, B:V.136 Hydrogen bonds: B:T.89, B:T.89, B:S.140, B:T.141, B:E.189, B:E.189, B:E.189, B:E.189, B:S.192, B:S.192, B:Y.215 Water bridges: B:Y.15, B:V.136, B:M.142, B:E.189 Salt bridges: B:R.94

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

SO4.2: 4 residues within 4Å: Chain A: R.30, F.31, K.53, L.54 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.54 Water bridges: A:Y.18, A:R.30, A:R.30, A:R.30, A:L.54 Salt bridges: A:R.30 SO4.3: 2 residues within 4Å: Chain A: R.3, Y.225 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.225 Salt bridges: A:R.3 SO4.4: 1 residues within 4Å: Chain A: K.248 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.19, A:K.248, A:K.248 Salt bridges: A:K.40, A:K.248 SO4.5: 4 residues within 4Å: Chain A: D.123, I.150, T.152, Y.153 2 PLIP interactions: 2 interactions with chain A Water bridges: A:T.152, A:T.152 SO4.10: 4 residues within 4Å: Chain B: R.30, V.52, K.53, L.54 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.54 Water bridges: B:K.53 Salt bridges: B:R.30, B:K.53

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain B: R.137, D.138, M.142, K.146, W.157, L.168 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.137, B:D.138, B:D.138 Water bridges: B:K.146 GOL.7: 7 residues within 4Å: Chain B: A.126, K.127, Q.128, T.129, K.155, F.159, R.163 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.127, B:K.155, B:R.163 Water bridges: B:R.163 GOL.8: 4 residues within 4Å: Chain B: D.123, I.150, T.152, Y.153 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.152, B:T.152 Water bridges: B:D.123

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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutamate receptor, ionotropic kainate 1

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