SMTL ID : 5fho.1 (1 other biounit)

Crystal structure of the GluA2 ligand-binding domain (S1S2J) in complex with (S)-2-Amino-3-(5-(2-(3-chlorobenzyl)-2H-tetrazol-5-yl)-3-hydroxyisoxazol-4-yl)propanoic acid at 2.3 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x 5XN: (1S)-1-carboxy-2-(5-{2-[(3-chlorophenyl)methyl]-2H-tetrazol-5-yl}-3-oxo-2,3-dihydro-1,2-oxazol-4-yl)ethan-1-aminium(Non-covalent)

5XN.1: 22 residues within 4Å: Chain A: E.13, S.14, P.15, Y.16, Y.61, P.89, L.90, T.91, R.96, T.137, L.138, G.141, S.142, T.143, T.174, L.192, E.193, T.195, M.196, Y.199, Y.220, W.255 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:E.13, A:Y.16, A:Y.61, A:M.196 Hydrogen bonds: A:T.91, A:T.91, A:S.142, A:T.143, A:T.143, A:T.143, A:E.193, A:E.193, A:M.196, A:Y.220 Salt bridges: A:R.96 5XN.14: 22 residues within 4Å: Chain B: E.13, S.14, P.15, Y.16, Y.61, P.89, L.90, T.91, R.96, T.137, L.138, G.141, S.142, T.143, T.174, L.192, E.193, T.195, M.196, Y.199, Y.220, W.255 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:E.13, B:Y.16, B:Y.61, B:M.196 Hydrogen bonds: B:T.91, B:T.91, B:S.142, B:S.142, B:T.143, B:T.143, B:T.143, B:E.193, B:E.193, B:Y.220 Salt bridges: B:R.96

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

SO4.2: 1 residues within 4Å: Chain A: K.204 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.204 SO4.3: 6 residues within 4Å: Chain A: R.64, A.66, V.95, E.145, R.148, R.149 7 PLIP interactions: 7 interactions with chain A Water bridges: A:K.144, A:K.144, A:K.144, A:R.148 Salt bridges: A:R.64, A:R.148, A:R.149 SO4.4: 5 residues within 4Å: Chain A: R.64, L.94, E.98, R.149 Chain B: K.240 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:K.240, A:R.149 Hydrogen bonds: A:E.98 SO4.5: 3 residues within 4Å: Chain A: H.46, K.240, Q.244 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.244 Salt bridges: A:H.46, A:K.240 SO4.15: 3 residues within 4Å: Chain A: K.240 Chain B: L.94, R.149 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:K.240, B:R.149 SO4.16: 1 residues within 4Å: Chain B: R.148 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.148 Salt bridges: B:R.148

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 11 residues within 4Å: Chain A: N.242, E.243, Q.244, G.245, D.248 Chain B: F.146, I.152, F.155, L.215, D.216, S.217 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.242, A:N.242, B:S.217 Water bridges: A:G.245 GOL.17: 3 residues within 4Å: Chain B: D.65, T.68, I.70 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.68

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

CL.7: 2 residues within 4Å: Chain A: K.4, T.5 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: M.107, S.108 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain B: M.107, S.108, K.251 Ligand excluded by PLIP CL.19: 2 residues within 4Å: Chain B: I.152, A.153 Ligand excluded by PLIP CL.20: 3 residues within 4Å: Chain A: I.152, A.153 Chain B: K.249 Ligand excluded by PLIP

8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 6 residues within 4Å: Chain A: D.58, G.59, K.60, R.172, T.173 Ligands: EDO.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.60, A:R.172 Water bridges: A:R.172 EDO.10: 4 residues within 4Å: Chain A: R.172, T.173, E.176 Ligands: EDO.9 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.172, A:R.172, A:T.173, A:E.176 EDO.11: 6 residues within 4Å: Chain A: S.168, F.170, V.171, R.172, E.176, R.180 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.168, A:S.168, A:R.172, A:R.172, A:E.176 EDO.12: 9 residues within 4Å: Chain A: T.91, I.92, P.105, K.218, G.219 Chain B: K.104, P.105, L.239, N.242 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:P.105, A:G.219, A:G.219 EDO.13: 3 residues within 4Å: Chain A: N.29, K.50, Y.51 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.29, A:Y.51, A:Y.51 EDO.21: 6 residues within 4Å: Chain B: S.168, F.170, V.171, R.172, E.176, R.180 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.168, B:R.172, B:R.172, B:E.176, B:R.180 Water bridges: B:E.176, B:E.176 EDO.22: 8 residues within 4Å: Chain A: K.104, P.105, L.239, N.242 Chain B: I.92, P.105, K.218, G.219 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:I.92, B:G.219, A:P.105 EDO.23: 7 residues within 4Å: Chain B: R.64, K.69, I.70, W.71, V.79, Y.80, V.99 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.71, B:Y.80 Water bridges: B:R.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S.Y. et al., Tweaking Subtype Selectivity and Agonist Efficacy at (S)-2-Amino-3-(3-hydroxy-5-methyl-isoxazol-4-yl)propionic acid (AMPA) Receptors in a Small Series of BnTetAMPA Analogues. J.Med.Chem. (2016)

Release Date

2016-03-02

Peptides

Glutamate receptor 2,Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Glutamate receptor 2,Glutamate receptor 2

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