SMTL ID : 5ybf.3 (2 other biounits)

Crystal structure of the GluA2o LBD in complex with glutamate and HBT1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.1: 11 residues within 4Å: Chain A: Y.61, P.89, L.90, T.91, R.96, L.138, G.141, S.142, T.143, E.193, Y.220 14 PLIP interactions: 11 interactions with chain A, 3 Ligand-Ligand interactions Hydrophobic interactions: A:Y.61, A:L.138 Hydrogen bonds: A:P.89, A:T.91, A:S.142, A:T.143, A:T.143, A:E.193, E.1, E.1, E.1 Water bridges: A:L.138, A:E.193 Salt bridges: A:R.96 GLU.3: 11 residues within 4Å: Chain B: Y.61, P.89, L.90, T.91, R.96, L.138, G.141, S.142, T.143, E.193, Y.220 14 PLIP interactions: 11 interactions with chain B, 3 Ligand-Ligand interactions Hydrophobic interactions: B:Y.61, B:L.138 Hydrogen bonds: B:P.89, B:T.91, B:S.142, B:T.143, B:T.143, B:E.193, B:E.193, E.3, E.3, E.3 Water bridges: B:L.138 Salt bridges: B:R.96

1 x 8SR: 2-[2-[5-methyl-3-(trifluoromethyl)pyrazol-1-yl]ethanoylamino]-4,5,6,7-tetrahydro-1-benzothiophene-3-carboxamide(Non-covalent)

8SR.2: 16 residues within 4Å: Chain A: I.92, P.105, M.107, S.108, S.217, K.218, G.219, L.239, N.242 Chain B: I.92, K.104, P.105, S.217, K.218, G.219, L.239 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.105, A:L.239, A:N.242, B:I.92, B:K.218 Hydrogen bonds: A:N.242 Water bridges: A:S.108 Halogen bonds: A:G.219

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 1 residues within 4Å: Chain B: D.65 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.65, B:D.65, H2O.13 ZN.5: 5 residues within 4Å: Chain B: E.42, K.45, H.46, L.241, Q.244 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.42, B:H.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kunugi, A. et al., HBT1, a Novel AMPA Receptor Potentiator with Lower Agonistic Effect, Avoided Bell-Shaped Response in In Vitro BDNF Production. J. Pharmacol. Exp. Ther. (2018)

Release Date

2018-01-17

Peptides

Glutamate receptor 2,Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Glutamate receptor 2,Glutamate receptor 2

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