SMTL ID : 3pd9.1

X-ray structure of the ligand-binding core of GluA2 in complex with (R)-5-HPCA at 2.1 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x HA5: (5R)-3-hydroxy-4,5,6,7-tetrahydroisoxazolo[5,4-c]pyridine-5-carboxylic acid(Non-covalent)

HA5.1: 12 residues within 4Å: Chain A: Y.59, P.87, L.88, T.89, R.94, G.139, S.140, T.141, L.190, E.191, M.194, Y.218 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:E.191 Hydrogen bonds: A:T.89, A:T.89, A:S.140, A:E.191, A:E.191 Water bridges: A:T.141 Salt bridges: A:R.94 HA5.10: 12 residues within 4Å: Chain B: Y.59, P.87, L.88, T.89, R.94, G.139, S.140, T.141, L.190, E.191, M.194, Y.218 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:E.191 Hydrogen bonds: B:T.89, B:T.89, B:S.140, B:E.191, B:E.191, B:E.191 Water bridges: B:T.141, B:T.141, B:L.189 Salt bridges: B:R.94

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

SO4.2: 2 residues within 4Å: Chain A: M.17, R.29 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.29 SO4.3: 3 residues within 4Å: Chain A: R.146, W.157, R.161 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.146, A:R.161 SO4.4: 3 residues within 4Å: Chain A: R.29, K.50, L.51 4 PLIP interactions: 4 interactions with chain A Water bridges: A:Y.30, A:Y.30 Salt bridges: A:R.29, A:K.50 SO4.11: 3 residues within 4Å: Chain B: R.146, W.157, R.161 2 PLIP interactions: 2 interactions with chain B Water bridges: B:W.157 Salt bridges: B:R.161

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain A: K.114, K.183 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.183 Water bridges: A:K.115 GOL.6: 1 residues within 4Å: Chain A: G.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.116, A:G.116 GOL.12: 7 residues within 4Å: Chain B: A.61, D.137, S.138, G.139, K.142, E.143, R.146 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:G.139, B:K.142, B:K.142, B:E.143, B:E.143, B:R.146, B:R.146 Water bridges: B:N.70, B:S.138 GOL.13: 7 residues within 4Å: Chain A: P.103, L.237, N.240 Chain B: I.90, P.103, K.216, G.217 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:I.90, B:G.217, A:P.103, A:N.240 Water bridges: B:I.90 GOL.14: 2 residues within 4Å: Chain B: V.77, V.97 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.224

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

CL.7: 1 residues within 4Å: Chain A: R.161 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: H.44, Q.242 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: D.137, S.138, K.142, R.146 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain B: H.44, K.238, Q.242 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Frydenvang, K. et al., Biostructural and pharmacological studies of bicyclic analogues of the 3-isoxazolol glutamate receptor agonist ibotenic acid. J. Med. Chem. (2010)

Release Date

2010-12-29

Peptides

Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutamate receptor 2