SMTL ID : 4dld.1

Crystal structure of the GluK1 ligand-binding domain (S1S2) in complex with the antagonist (S)-2-amino-3-(2-(2-carboxyethyl)-5-chloro-4-nitrophenyl)propionic acid at 2.0 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x TZG: (S)-2-amino-3-(2-(2-carboxyethyl)-5-chloro-4-nitrophenyl)propionic acid(Non-covalent)

TZG.1: 16 residues within 4Å: Chain A: E.13, Y.16, Y.61, P.88, L.89, T.90, R.95, V.137, G.140, S.141, T.142, S.173, M.189, E.190, S.193, Y.216 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.61, A:P.88, A:V.137 Hydrogen bonds: A:P.88, A:P.88, A:T.90, A:T.90, A:S.141, A:T.142 Water bridges: A:G.140, A:T.142, A:M.143, A:S.173, A:L.188, A:E.190 Salt bridges: A:R.95 TZG.3: 16 residues within 4Å: Chain B: E.13, Y.16, Y.61, P.88, L.89, T.90, R.95, V.137, G.140, S.141, T.142, S.173, M.189, E.190, S.193, Y.216 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Y.61, B:V.137 Hydrogen bonds: B:P.88, B:T.90, B:G.140, B:S.141, B:T.142, B:T.142 Water bridges: B:G.140, B:S.173, B:E.190 Salt bridges: B:R.95

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

CL.2: 4 residues within 4Å: Chain A: F.101, K.103 Chain B: K.103, R.227 Ligand excluded by PLIP

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

SO4.4: 2 residues within 4Å: Chain B: R.20, K.24 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.20 Salt bridges: B:K.24

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain B: E.133, R.179 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.179 Water bridges: B:E.133, B:R.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Venskutonyte, R. et al., Structural and pharmacological characterization of phenylalanine-based AMPA receptor antagonists at kainate receptors. Chemmedchem (2012)

Release Date

2012-10-10

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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