SMTL ID : 3bbr.1

Crystal structure of the iGluR2 ligand binding core (S1S2J-N775S) in complex with a dimeric positive modulator as well as glutamate at 2.25 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 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:D.139, A:S.140 Water bridges: A:R.148 Salt bridges: A:K.144, A:R.148 SO4.2: 1 residues within 4Å: Chain A: R.31 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.31 Salt bridges: A:R.31 SO4.7: 3 residues within 4Å: Chain B: R.148, W.159, R.163 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.144 Salt bridges: B:R.148, B:R.163 SO4.8: 5 residues within 4Å: Chain B: A.63, D.139, S.140, K.144, R.148 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:D.139, B:S.140 Water bridges: B:K.144, B:K.144, B:R.148, B:R.148 Salt bridges: B:K.144, B:R.148 SO4.9: 3 residues within 4Å: Chain B: M.19, H.23, R.31 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.31 Salt bridges: B:R.31

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

CL.3: 1 residues within 4Å: Chain A: N.22 Ligand excluded by PLIP

2 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.4: 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.4, E.4, E.4 Water bridges: A:L.138, A:E.193 Salt bridges: A:R.96 GLU.10: 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 13 PLIP interactions: 10 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.10, E.10, E.10 Water bridges: B:E.193 Salt bridges: B:R.96

1 x BHY: N,N'-[biphenyl-4,4'-diyldi(2R)propane-2,1-diyl]dimethanesulfonamide(Non-covalent)

BHY.5: 20 residues within 4Å: Chain A: K.104, P.105, F.106, M.107, S.108, S.217, K.218, G.219, L.239 Chain B: I.92, K.104, P.105, F.106, M.107, S.108, S.217, K.218, G.219, L.239, S.242 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:P.105, A:P.105, B:P.105 Water bridges: A:G.219 Hydrogen bonds: B:G.219, B:S.242

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: R.148, W.159, R.163 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.148, A:R.163 GOL.11: 4 residues within 4Å: Chain B: Y.161, S.164, A.165, E.166 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.164, B:E.166 Water bridges: B:Y.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaae, B.H. et al., Structural proof of a dimeric positive modulator bridging two identical AMPA receptor-binding sites. Chem.Biol. (2007)

Release Date

2007-12-04

Peptides

Glutamate receptor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutamate receptor 2

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