SMTL ID : 4iy5.1

Crystal structure of the glua2 ligand-binding domain (S1S2J-L483Y-N754S) in complex with glutamate and CX516 at 2.0 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 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 13 PLIP interactions: 10 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:E.193 Salt bridges: A:R.96 GLU.7: 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, E.7, E.7, E.7 Water bridges: B:K.144, B:E.193 Salt bridges: B:R.96

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

SO4.2: 5 residues within 4Å: Chain A: A.63, D.139, S.140, K.144, R.148 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.140 Water bridges: A:N.72, A:S.140 Salt bridges: A:K.144, A:R.148 SO4.4: 1 residues within 4Å: Chain A: K.82 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.82 SO4.8: 1 residues within 4Å: Chain B: R.31 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.31 Salt bridges: B:R.31 SO4.9: 5 residues within 4Å: Chain B: A.63, D.139, S.140, K.144, R.148 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.139, B:S.140 Water bridges: B:K.144, B:K.144, B:R.148 Salt bridges: B:K.144, B:R.148 SO4.12: 4 residues within 4Å: Chain B: K.20, K.21, N.22, H.23 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.22, B:H.23 Water bridges: B:N.22, B:H.23

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: R.148, W.159, R.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.148, A:R.163 Water bridges: A:W.159, A:R.163 GOL.10: 3 residues within 4Å: Chain B: R.148, W.159, R.163 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.148, B:R.163, B:R.163 Water bridges: B:W.159 GOL.11: 4 residues within 4Å: Chain B: S.194, T.195, E.198, N.214 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.194, B:N.214 Water bridges: B:S.108, B:S.108

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

CL.5: 2 residues within 4Å: Chain A: K.4, T.5 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain B: H.46, Q.244 Ligand excluded by PLIP CL.14: 1 residues within 4Å: Chain B: R.163 Ligand excluded by PLIP

1 x CX5: piperidin-1-yl(quinoxalin-6-yl)methanone(Non-covalent)

CX5.6: 13 residues within 4Å: Chain A: P.105, M.107, S.108, S.217, K.218, G.219 Chain B: P.105, F.106, M.107, S.108, S.217, K.218, G.219 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.105, A:P.105 Water bridges: B:L.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krintel, C. et al., Structural analysis of the positive AMPA receptor modulators CX516 and Me-CX516 in complex with the GluA2 ligand-binding domain. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-10-09

Peptides

Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutamate receptor 2

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