SMTL ID : 7u2m.1

A novel compound mimics the structural and functional effects of the full agonist glycine on glycine channels-desenstized state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 4 residues within 4Å: Chain A: N.55, P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 4 residues within 4Å: Chain B: N.55, P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 4 residues within 4Å: Chain C: N.55, P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 4 residues within 4Å: Chain D: N.55, P.59, P.60, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 4 residues within 4Å: Chain E: N.55, P.59, P.60, N.62 No protein-ligand interaction detected (PLIP)

5 x L2L: aminomethanesulfonic acid(Non-covalent)

L2L.6: 8 residues within 4Å: Chain A: F.87, R.89, L.141, S.153 Chain B: F.183, Y.226, T.228, F.231 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.153, B:F.183, B:T.228 Salt bridges: A:R.89 L2L.7: 8 residues within 4Å: Chain B: F.87, R.89, L.141, S.153 Chain C: F.183, Y.226, T.228, F.231 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:F.183, C:T.228, B:S.153 Salt bridges: B:R.89 L2L.8: 8 residues within 4Å: Chain C: F.87, R.89, L.141, S.153 Chain D: F.183, Y.226, T.228, F.231 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:S.153, D:F.183, D:T.228 Salt bridges: C:R.89 L2L.9: 8 residues within 4Å: Chain D: F.87, R.89, L.141, S.153 Chain E: F.183, Y.226, T.228, F.231 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:S.153, E:F.183, E:T.228 Salt bridges: D:R.89 L2L.10: 8 residues within 4Å: Chain A: F.183, Y.226, T.228, F.231 Chain E: F.87, R.89, L.141, S.153 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:S.153, A:F.183, A:T.228 Salt bridges: E:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, H. et al., A novel compound mimics the structural and functional effects of the full agonist glycine on glycine channels-desenstized state. To Be Published

Release Date

2023-03-08

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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