8BL8

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


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.21 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural determinants for activity of the antidepressant vortioxetine at human and rodent 5-HT 3 receptors.

Lopez-Sanchez, U.Munro, L.J.Ladefoged, L.K.Pedersen, A.J.Brun, C.C.Lyngby, S.M.Baud, D.Juillan-Binard, C.Pedersen, M.G.Lummis, S.C.R.Bang-Andersen, B.Schiott, B.Chipot, C.Schoehn, G.Neyton, J.Dehez, F.Nury, H.Kristensen, A.S.

(2024) Nat Struct Mol Biol 

  • DOI: https://doi.org/10.1038/s41594-024-01282-x
  • Primary Citation of Related Structures:  
    8AW2, 8AXD, 8BL8, 8BLA, 8BLB

  • PubMed Abstract: 

    Vortioxetine (VTX) is a recently approved antidepressant that targets a variety of serotonin receptors. Here, we investigate the drug's molecular mechanism of operation at the serotonin 5-HT 3 receptor (5-HT 3 R), which features two properties: VTX acts differently on rodent and human 5-HT 3 R, and VTX appears to suppress any subsequent response to agonists. Using a combination of cryo-EM, electrophysiology, voltage-clamp fluorometry and molecular dynamics, we show that VTX stabilizes a resting inhibited state of the mouse 5-HT 3 R and an agonist-bound-like state of human 5-HT 3 R, in line with the functional profile of the drug. We report four human 5-HT 3 R structures and show that the human receptor transmembrane domain is intrinsically fragile. We also explain the lack of recovery after VTX administration via a membrane partition mechanism.


  • Organizational Affiliation

    University Grenoble Alpes, CNRS, CEA, IBS, Grenoble, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
5-hydroxytryptamine receptor 3A
A, B, C, D, E
397Homo sapiensMutation(s): 0 
Gene Names: HTR3A5HT3RHTR3
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P46098 (Homo sapiens)
Explore P46098 
Go to UniProtKB:  P46098
PHAROS:  P46098
GTEx:  ENSG00000166736 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP46098
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
F, G, H, I, J
F, G, H, I, J, K, L, M, N, O
2N/AN-Glycosylation
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.21 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union637733

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-15
    Type: Initial release