SMTL ID : 8bl8.1

Human serotonin 5-HT3A receptor (apo, active/distorted conformation)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

10 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: 4 residues within 4Å: Chain A: N.158, I.159, S.160, F.190 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 6 residues within 4Å: Chain A: N.142, L.187, P.188, Y.189, Y.207, V.209 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.189 NAG-NAG.3: 4 residues within 4Å: Chain B: N.158, I.159, S.160, F.190 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 7 residues within 4Å: Chain B: V.140, N.142, L.187, P.188, Y.189, Y.207, V.209 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.187, B:Y.189, B:Y.207 NAG-NAG.5: 6 residues within 4Å: Chain C: I.154, N.158, I.159, S.160, F.190, E.192 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 6 residues within 4Å: Chain C: N.142, L.187, P.188, Y.189, Y.207, V.209 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Y.189, C:Y.207 NAG-NAG.7: 4 residues within 4Å: Chain D: N.158, I.159, S.160, F.190 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:F.190 NAG-NAG.8: 6 residues within 4Å: Chain D: N.142, L.187, P.188, Y.189, Y.207, V.209 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:Y.189, D:Y.207 NAG-NAG.9: 5 residues within 4Å: Chain E: I.154, N.158, I.159, S.160, F.190 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:F.190 NAG-NAG.10: 6 residues within 4Å: Chain E: N.142, L.187, P.188, Y.189, Y.207, V.209 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:Y.189

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

NAG.11: 1 residues within 4Å: Chain A: N.76 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.76 NAG.12: 1 residues within 4Å: Chain B: N.76 No protein-ligand interaction detected (PLIP) NAG.13: 2 residues within 4Å: Chain C: D.75, N.76 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.76 NAG.14: 2 residues within 4Å: Chain D: E.72, N.76 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:E.72 Hydrogen bonds: D:E.72 NAG.15: 1 residues within 4Å: Chain E: N.76 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Sanchez, U. et al., Structural determinants for activity of the antidepressant vortioxetine at human and rodent 5-HT 3 receptors. Nat.Struct.Mol.Biol. (2024)

Release Date

2024-05-15

Peptides

5-hydroxytryptamine receptor 3A: 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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5-hydroxytryptamine receptor 3A

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