SMTL ID : 6ubt.1

Full length Glycine receptor reconstituted in lipid nanodisc in Gly-bound desensitized conformation

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 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: 3 residues within 4Å: Chain A: P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain B: P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain C: P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain D: P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain E: P.59, P.60, N.62 No protein-ligand interaction detected (PLIP)

5 x GLY: GLYCINE(Non-covalent)

GLY.6: 7 residues within 4Å: Chain A: R.89, L.141, S.153 Chain E: F.183, Y.226, T.228, F.231 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain E Hydrogen bonds: A:S.153, E:T.228, E:T.228 Salt bridges: A:R.89 GLY.7: 7 residues within 4Å: Chain A: F.183, Y.226, T.228, F.231 Chain B: R.89, L.141, S.153 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.153, A:T.228, A:T.228 Salt bridges: B:R.89 GLY.8: 7 residues within 4Å: Chain B: F.183, Y.226, T.228, F.231 Chain C: R.89, L.141, S.153 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.153, B:T.228, B:T.228 Salt bridges: C:R.89 GLY.9: 7 residues within 4Å: Chain C: F.183, Y.226, T.228, F.231 Chain D: R.89, L.141, S.153 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:S.153, C:T.228, C:T.228 Salt bridges: D:R.89 GLY.10: 7 residues within 4Å: Chain D: F.183, Y.226, T.228, F.231 Chain E: R.89, L.141, S.153 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:S.153, D:T.228, D:T.228 Salt bridges: E:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, A. et al., Mechanisms of activation and desensitization of full-length glycine receptor in lipid nanodiscs. Nat Commun (2020)

Release Date

2020-07-29

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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