SMTL ID : 7lzh.1

Structure of the glutamate receptor-like channel AtGLR3.4

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: D.415, N.419, R.420, V.421, N.443 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: N.557, N.576, Y.580, N.732, N.736 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain B: F.179, D.415, N.419, R.420, V.421, N.443 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain B: N.557, N.576, Y.580, N.732 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.557 NAG-NAG.5: 5 residues within 4Å: Chain C: D.415, N.419, R.420, V.421, N.443 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 5 residues within 4Å: Chain C: N.557, N.576, Y.580, N.732, N.736 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 6 residues within 4Å: Chain D: F.179, D.415, N.419, R.420, V.421, N.443 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 4 residues within 4Å: Chain D: N.557, N.576, Y.580, N.732 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.557

4 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.9: 14 residues within 4Å: Chain A: R.501, N.549, Y.552, D.570, T.572, R.577, Q.725, D.726, G.727, T.728, F.729, E.773, Y.776, W.800 12 PLIP interactions: 11 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.552, A:Y.776 Hydrogen bonds: A:Y.552, A:D.570, A:T.572, A:T.572, A:G.727, A:F.729, A:E.773, E.9 Salt bridges: A:R.501, A:R.577 GLU.13: 13 residues within 4Å: Chain B: R.501, N.549, Y.552, D.570, T.572, R.577, Q.725, D.726, G.727, T.728, F.729, E.773, Y.776 12 PLIP interactions: 11 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:Y.552, B:Y.776 Hydrogen bonds: B:D.570, B:T.572, B:T.572, B:T.572, B:F.729, B:Y.776, B:Y.776, E.13 Salt bridges: B:R.501, B:R.577 GLU.17: 14 residues within 4Å: Chain C: R.501, N.549, Y.552, D.570, T.572, R.577, Q.725, D.726, G.727, T.728, F.729, E.773, Y.776, W.800 12 PLIP interactions: 11 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:Y.552, C:Y.776 Hydrogen bonds: C:Y.552, C:D.570, C:T.572, C:T.572, C:G.727, C:F.729, C:E.773, E.17 Salt bridges: C:R.501, C:R.577 GLU.21: 13 residues within 4Å: Chain D: R.501, N.549, Y.552, D.570, T.572, R.577, Q.725, D.726, G.727, T.728, F.729, E.773, Y.776 12 PLIP interactions: 11 interactions with chain D, 1 Ligand-Ligand interactions Hydrophobic interactions: D:Y.552, D:Y.776 Hydrogen bonds: D:D.570, D:T.572, D:T.572, D:T.572, D:F.729, D:Y.776, D:Y.776, E.21 Salt bridges: D:R.501, D:R.577

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.10: 2 residues within 4Å: Chain A: D.70, N.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.70, A:N.108 NAG.11: 1 residues within 4Å: Chain A: N.404 No protein-ligand interaction detected (PLIP) NAG.14: 3 residues within 4Å: Chain B: N.108, C.109, S.110 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.108 NAG.15: 2 residues within 4Å: Chain B: N.404, Q.413 No protein-ligand interaction detected (PLIP) NAG.18: 2 residues within 4Å: Chain C: D.70, N.108 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.70, C:D.70, C:N.108 NAG.19: 2 residues within 4Å: Chain C: N.404, Q.413 No protein-ligand interaction detected (PLIP) NAG.22: 1 residues within 4Å: Chain D: N.108 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.108 NAG.23: 1 residues within 4Å: Chain D: N.404 No protein-ligand interaction detected (PLIP)

4 x GSH: GLUTATHIONE(Non-covalent)

GSH.12: 15 residues within 4Å: Chain A: S.71, I.73, Q.133, S.134, S.135, G.156, A.157, T.158, D.177, C.205, H.257, N.259, P.260, D.261, Y.341 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Q.133 Hydrogen bonds: A:S.71, A:S.71, A:Q.133, A:S.134, A:T.158, A:V.258, A:N.259 Salt bridges: A:H.257 GSH.16: 16 residues within 4Å: Chain B: S.71, I.73, C.109, Q.133, S.134, S.135, G.156, A.157, T.158, D.177, C.205, H.257, N.259, P.260, D.261, Y.341 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.133 Hydrogen bonds: B:Q.133, B:D.177, B:V.258, B:N.259 Salt bridges: B:H.257 GSH.20: 16 residues within 4Å: Chain C: S.71, I.73, Q.133, S.134, S.135, G.156, A.157, T.158, D.177, C.205, H.257, V.258, N.259, P.260, D.261, Y.341 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:Q.133 Hydrogen bonds: C:S.71, C:S.71, C:Q.133, C:S.134, C:T.158, C:V.258, C:N.259 Salt bridges: C:H.257 GSH.24: 17 residues within 4Å: Chain D: S.71, I.73, C.109, Q.133, S.134, S.135, G.156, A.157, T.158, D.177, C.205, H.257, N.259, P.260, D.261, D.286, Y.341 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:Q.133 Hydrogen bonds: D:Q.133, D:D.177, D:N.259, D:Y.341 Salt bridges: D:H.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Green, M.N. et al., Structure of the Arabidopsis thaliana glutamate receptor-like channel GLR3.4. Mol.Cell (2021)

Release Date

2021-07-28

Peptides

Glutamate receptor 3.4: 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 3.4

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