SMTL ID : 6dm0.1

Open state GluA2 in complex with STZ and blocked by IEM-1460, after micelle signal subtraction

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.1: 10 residues within 4Å: Chain A: Y.441, P.469, L.470, T.471, R.476, G.644, S.645, T.646, E.696, Y.723 11 PLIP interactions: 9 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:Y.441, A:Y.441 Hydrogen bonds: A:T.471, A:G.644, A:S.645, A:T.646, A:E.696, A:E.696, E.1, E.1 Salt bridges: A:R.476 GLU.3: 11 residues within 4Å: Chain B: Y.441, P.469, L.470, T.471, R.476, G.644, S.645, T.646, K.647, E.696, Y.723 13 PLIP interactions: 12 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:Y.441, B:Y.441 Hydrogen bonds: B:P.469, B:T.471, B:G.644, B:S.645, B:T.646, B:K.647, B:E.696, B:E.696, E.3 Salt bridges: B:R.476, B:K.721 GLU.6: 10 residues within 4Å: Chain C: Y.441, P.469, L.470, T.471, R.476, G.644, S.645, T.646, E.696, Y.723 11 PLIP interactions: 2 Ligand-Ligand interactions, 9 interactions with chain C Hydrogen bonds: E.6, E.6, C:T.471, C:G.644, C:S.645, C:T.646, C:E.696, C:E.696 Hydrophobic interactions: C:Y.441, C:Y.441 Salt bridges: C:R.476 GLU.8: 11 residues within 4Å: Chain D: Y.441, P.469, L.470, T.471, R.476, G.644, S.645, T.646, K.647, E.696, Y.723 13 PLIP interactions: 12 interactions with chain D, 1 Ligand-Ligand interactions Hydrophobic interactions: D:Y.441, D:Y.441 Hydrogen bonds: D:P.469, D:T.471, D:G.644, D:S.645, D:T.646, D:K.647, D:E.696, D:E.696, E.8 Salt bridges: D:R.476, D:K.721

4 x CYZ: CYCLOTHIAZIDE(Non-covalent)

CYZ.2: 12 residues within 4Å: Chain A: P.485, F.486, M.487, S.488, L.742, S.745, D.751, K.754 Chain D: I.472, S.720, K.721, G.722 7 PLIP interactions: 2 interactions with chain D, 5 interactions with chain A Hydrophobic interactions: D:I.472, A:L.742 Hydrogen bonds: D:S.720, A:S.488, A:K.754, A:K.754 Halogen bonds: A:D.751 CYZ.4: 13 residues within 4Å: Chain B: P.485, F.486, M.487, S.488, L.742, L.750, D.751, K.754 Chain C: I.472, P.485, S.720, K.721, G.722 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:I.472, C:P.485, B:L.742, B:L.750 Hydrogen bonds: C:S.720, B:S.488, B:K.754, B:K.754 Halogen bonds: B:D.751 CYZ.7: 12 residues within 4Å: Chain B: I.472, S.720, K.721, G.722 Chain C: P.485, F.486, M.487, S.488, L.742, S.745, D.751, K.754 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:I.472, C:L.742 Hydrogen bonds: B:S.720, C:S.488, C:K.754, C:K.754 Halogen bonds: C:D.751 CYZ.9: 13 residues within 4Å: Chain A: I.472, P.485, S.720, K.721, G.722 Chain D: P.485, F.486, M.487, S.488, L.742, L.750, D.751, K.754 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:L.742, D:L.750, A:P.485 Hydrogen bonds: D:S.488, D:K.754, D:K.754, A:S.720 Halogen bonds: D:D.751

1 x GZD: N,N,N-trimethyl-5-({[(3s,5s,7s)-tricyclo[3.3.1.1~3,7~]decan-1-yl]methyl}amino)pentan-1-aminium(Non-covalent)

GZD.5: 11 residues within 4Å: Chain A: Q.577, G.579 Chain B: Q.577, Q.578, G.579, I.604 Chain C: Q.577, Q.578, G.579 Chain D: Q.577, G.579 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: A:Q.577, C:Q.577, B:Q.577, B:I.604

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Twomey, E.C. et al., Mechanisms of Channel Block in Calcium-Permeable AMPA Receptors. Neuron (2018)

Release Date

2018-08-22

Peptides

Glutamate receptor 2,Voltage-dependent calcium channel gamma-2 subunit: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Glutamate receptor 2,Voltage-dependent calcium channel gamma-2 subunit

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