SMTL ID : 7m6p.1

Full length alpha1 Glycine receptor in presence of 1mM Glycine

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.28 Å

Oligo State

homo-pentamer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: P.60, N.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.60 NAG.4: 2 residues within 4Å: Chain B: P.60, N.62 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.60 NAG.6: 2 residues within 4Å: Chain C: P.60, N.62 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:P.60 NAG.8: 2 residues within 4Å: Chain D: P.60, N.62 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:P.60 NAG.10: 2 residues within 4Å: Chain E: P.60, N.62 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:P.60

5 x GLY: GLYCINE(Non-covalent)

GLY.2: 6 residues within 4Å: Chain A: F.87, R.89, S.153 Chain E: F.183, T.228, F.231 6 PLIP interactions: 2 interactions with chain E, 2 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: E:F.183, E:T.228, A:S.153, G.2, G.2 Salt bridges: A:R.89 GLY.3: 6 residues within 4Å: Chain A: F.183, T.228, F.231 Chain B: F.87, R.89, S.153 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 2 Ligand-Ligand interactions Hydrogen bonds: A:F.183, A:T.228, B:S.153, G.3, G.3 Salt bridges: B:R.89 GLY.5: 6 residues within 4Å: Chain B: F.183, T.228, F.231 Chain C: F.87, R.89, S.153 6 PLIP interactions: 2 interactions with chain C, 2 Ligand-Ligand interactions, 2 interactions with chain B Hydrogen bonds: C:S.153, G.5, G.5, B:F.183, B:T.228 Salt bridges: C:R.89 GLY.7: 6 residues within 4Å: Chain C: F.183, T.228, F.231 Chain D: F.87, R.89, S.153 6 PLIP interactions: 2 Ligand-Ligand interactions, 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: G.7, G.7, C:F.183, C:T.228, D:S.153 Salt bridges: D:R.89 GLY.9: 6 residues within 4Å: Chain D: F.183, T.228, F.231 Chain E: F.87, R.89, S.153 6 PLIP interactions: 2 interactions with chain D, 2 interactions with chain E, 2 Ligand-Ligand interactions Hydrogen bonds: D:F.183, D:T.228, E:S.153, G.9, G.9 Salt bridges: E:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, A. et al., Structural basis for cannabinoid-induced potentiation of alpha1-glycine receptors in lipid nanodiscs. Nat Commun (2022)

Release Date

2022-08-03

Peptides

Glycine receptor subunit alphaZ1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Glycine receptor subunit alphaZ1

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