SMTL ID : 2xxt.1

Crystal structure of the GluK2 (GluR6) wild-type LBD dimer in complex with kainate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x KAI: 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE(Non-covalent)

KAI.1: 12 residues within 4Å: Chain A: E.13, Y.61, P.89, L.90, A.91, R.96, V.138, G.141, A.142, T.143, N.174, E.191 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.61, A:V.138 Hydrogen bonds: A:A.91, A:A.142, A:T.143, A:T.143, A:E.191 Water bridges: A:M.144, A:M.144, A:E.191 Salt bridges: A:R.96 KAI.4: 12 residues within 4Å: Chain B: E.13, Y.61, P.89, L.90, A.91, R.96, V.138, G.141, A.142, T.143, N.174, E.191 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.61, B:V.138 Hydrogen bonds: B:A.91, B:A.142, B:T.143, B:T.143, B:E.191 Water bridges: B:V.138, B:E.191 Salt bridges: B:R.96

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: E.97, I.100, D.101, M.223 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.97, A:I.100, A:D.101 NA.5: 4 residues within 4Å: Chain B: E.97, I.100, D.101, M.223 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.97

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

CL.3: 2 residues within 4Å: Chain A: K.104 Chain B: K.104 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nayeem, N. et al., Conformational Flexibility of the Ligand-Binding Domain Dimer in Kainate Receptor Gating and Desensitization. J.Neurosci. (2011)

Release Date

2011-02-09

Peptides

GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 2

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