SMTL ID : 6hin.1

Mouse serotonin 5-HT3 receptor, serotonin-bound, F 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: 5 residues within 4Å: Chain A: I.151, N.155, I.156, T.157, F.187 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: N.139, E.182, Q.186, Y.204, I.206 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: I.151, N.155, I.156, T.157, F.187 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain B: N.139, E.182, Q.186, Y.204, I.206 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 5 residues within 4Å: Chain C: I.151, N.155, I.156, T.157, F.187 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 5 residues within 4Å: Chain C: N.139, E.182, Q.186, Y.204, I.206 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 5 residues within 4Å: Chain D: I.151, N.155, I.156, T.157, F.187 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 5 residues within 4Å: Chain D: N.139, E.182, Q.186, Y.204, I.206 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 5 residues within 4Å: Chain E: I.151, N.155, I.156, T.157, F.187 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 5 residues within 4Å: Chain E: N.139, E.182, Q.186, Y.204, I.206 No protein-ligand interaction detected (PLIP)

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

NAG.11: 1 residues within 4Å: Chain A: N.73 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.73 NAG.13: 1 residues within 4Å: Chain B: N.73 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.73 NAG.15: 1 residues within 4Å: Chain C: N.73 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.73 NAG.17: 1 residues within 4Å: Chain D: N.73 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.73 NAG.20: 1 residues within 4Å: Chain E: N.73 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.73

5 x SRO: SEROTONIN(Non-covalent)

SRO.12: 10 residues within 4Å: Chain A: W.54, Y.55, R.56, Y.117, K.118 Chain B: T.145, S.146, W.147, I.192, Y.198 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.54, A:Y.117, A:Y.117, B:W.147, B:Y.198 Hydrogen bonds: A:Y.55, A:Y.55, A:R.56, B:S.146 SRO.14: 10 residues within 4Å: Chain B: W.54, Y.55, R.56, Y.117, K.118 Chain C: T.145, S.146, W.147, I.192, Y.198 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:W.147, C:Y.198, B:W.54, B:Y.117, B:Y.117 Hydrogen bonds: C:S.146, B:Y.55, B:Y.55, B:R.56 SRO.16: 10 residues within 4Å: Chain C: W.54, Y.55, R.56, Y.117, K.118 Chain D: T.145, S.146, W.147, I.192, Y.198 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:W.54, C:Y.117, C:Y.117, D:W.147, D:Y.198 Hydrogen bonds: C:Y.55, C:Y.55, C:R.56, D:S.146 SRO.18: 10 residues within 4Å: Chain D: W.54, Y.55, R.56, Y.117, K.118 Chain E: T.145, S.146, W.147, I.192, Y.198 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain E Hydrophobic interactions: D:W.54, D:Y.117, D:Y.117, E:W.147, E:Y.198 Hydrogen bonds: D:Y.55, D:Y.55, D:R.56, E:S.146 SRO.19: 10 residues within 4Å: Chain A: T.145, S.146, W.147, I.192, Y.198 Chain E: W.54, Y.55, R.56, Y.117, K.118 10 PLIP interactions: 7 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:W.54, E:W.54, E:Y.117, E:Y.117, A:W.147, A:Y.198 Hydrogen bonds: E:Y.55, E:Y.55, E:R.56, A:S.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Polovinkin, L. et al., Conformational transitions of the serotonin 5-HT3receptor. Nature (2018)

Release Date

2018-11-07

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