SMTL ID : 8frz.1

Full-length mouse 5-HT3A receptor in complex with serotonin, pre-activated

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x SRO: SEROTONIN(Non-covalent)

SRO.1: 8 residues within 4Å: Chain A: I.119, W.138, Y.139, Y.201, K.202 Chain B: S.230, W.231, Y.282 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:I.119, A:W.138, A:W.138, B:W.231, B:Y.282 Hydrogen bonds: A:Y.139, A:Y.139, A:K.202, B:W.231 pi-Stacking: A:Y.201 SRO.5: 8 residues within 4Å: Chain B: I.119, W.138, Y.139, Y.201, K.202 Chain C: S.230, W.231, Y.282 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:I.119, B:W.138, B:W.138, C:W.231, C:Y.282 Hydrogen bonds: B:Y.139, B:Y.139, B:K.202, C:W.231 pi-Stacking: B:Y.201 SRO.9: 8 residues within 4Å: Chain C: I.119, W.138, Y.139, Y.201, K.202 Chain D: S.230, W.231, Y.282 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:I.119, C:W.138, C:W.138, D:W.231, D:Y.282 Hydrogen bonds: C:Y.139, C:Y.139, C:K.202, D:W.231 pi-Stacking: C:Y.201 SRO.13: 8 residues within 4Å: Chain D: I.119, W.138, Y.139, Y.201, K.202 Chain E: S.230, W.231, Y.282 10 PLIP interactions: 3 interactions with chain E, 7 interactions with chain D Hydrophobic interactions: E:W.231, E:Y.282, D:I.119, D:W.138, D:W.138 Hydrogen bonds: E:W.231, D:Y.139, D:Y.139, D:K.202 pi-Stacking: D:Y.201 SRO.17: 8 residues within 4Å: Chain A: S.230, W.231, Y.282 Chain E: I.119, W.138, Y.139, Y.201, K.202 10 PLIP interactions: 7 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:I.119, E:W.138, E:W.138, A:W.231, A:Y.282 Hydrogen bonds: E:Y.139, E:Y.139, E:K.202, A:W.231 pi-Stacking: E:Y.201

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

NAG.2: 3 residues within 4Å: Chain A: E.153, D.156, N.157 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.153 NAG.3: 4 residues within 4Å: Chain A: N.223, E.266, Y.288, I.290 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.290 Hydrogen bonds: A:N.223 NAG.4: 4 residues within 4Å: Chain A: I.235, N.239, I.240, F.271 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.235 NAG.6: 3 residues within 4Å: Chain B: E.153, D.156, N.157 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.153 NAG.7: 4 residues within 4Å: Chain B: N.223, E.266, Y.288, I.290 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.290 Hydrogen bonds: B:N.223 NAG.8: 4 residues within 4Å: Chain B: I.235, N.239, I.240, F.271 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.235 NAG.10: 3 residues within 4Å: Chain C: E.153, D.156, N.157 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.153 NAG.11: 4 residues within 4Å: Chain C: N.223, E.266, Y.288, I.290 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.290 Hydrogen bonds: C:N.223 NAG.12: 4 residues within 4Å: Chain C: I.235, N.239, I.240, F.271 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:I.235 NAG.14: 3 residues within 4Å: Chain D: E.153, D.156, N.157 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.153 NAG.15: 4 residues within 4Å: Chain D: N.223, E.266, Y.288, I.290 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:I.290 Hydrogen bonds: D:N.223 NAG.16: 4 residues within 4Å: Chain D: I.235, N.239, I.240, F.271 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:I.235 NAG.18: 3 residues within 4Å: Chain E: E.153, D.156, N.157 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:E.153 NAG.19: 4 residues within 4Å: Chain E: N.223, E.266, Y.288, I.290 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:I.290 Hydrogen bonds: E:N.223 NAG.20: 4 residues within 4Å: Chain E: I.235, N.239, I.240, F.271 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:I.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Felt, K. et al., Structural basis for partial agonism in 5-HT 3A receptors. Nat.Struct.Mol.Biol. (2024)

Release Date

2023-12-27

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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