SMTL ID : 6f29.1

Crystal structure of the kainate receptor GluK3 ligand binding domain in complex with (S)-1-[2-Amino-2-carboxyethyl]-5,7-dihydrothieno[3,4-d]pyrimidin-2,4(1H,3H)-dione at resolution 2.6A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x CGW: (2~{S})-2-azanyl-3-[2,4-bis(oxidanylidene)-5,7-dihydrothieno[3,4-d]pyrimidin-1-yl]propanoic acid(Non-covalent)

CGW.1: 13 residues within 4Å: Chain A: Y.63, P.90, L.91, T.92, R.97, G.142, A.143, T.144, N.174, M.190, E.191, T.194, Y.217 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:E.191 Hydrogen bonds: A:P.90, A:T.92, A:T.92, A:A.143, A:T.144, A:T.144, A:T.144, A:N.174, A:E.191, A:E.191 Salt bridges: A:R.97

2 x K: POTASSIUM ION(Non-covalent)

K.2: 2 residues within 4Å: Chain A: S.24, R.26 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.24, A:R.26 K.3: 2 residues within 4Å: Chain A: N.5, S.52 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.52, H2O.1

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

CL.4: 3 residues within 4Å: Chain A: R.33, R.56, L.57 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: G.30, N.31 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: Q.239, D.242, L.244, H.245 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brogi, S. et al., ( S)-2-Amino-3-(5-methyl-3-hydroxyisoxazol-4-yl)propanoic Acid (AMPA) and Kainate Receptor Ligands: Further Exploration of Bioisosteric Replacements and Structural and Biological Investigation. J. Med. Chem. (2018)

Release Date

2018-02-28

Peptides

Glutamate receptor ionotropic, kainate 3,Glutamate receptor ionotropic, kainate 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glutamate receptor ionotropic, kainate 3,Glutamate receptor ionotropic, kainate 3

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