9VMY | pdb_00009vmy

Cryo-EM structure of 5-HT1AR-GoA in complex with TMU4142


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.86 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9VMY

This is version 1.1 of the entry. See complete history

Literature

Pathway-selective 5-HT 1A R agonist as a rapid antidepressant strategy.

Wang, C.Zhang, N.Shao, Y.Li, T.Zhang, M.Gao, M.Liang, Y.Wang, Y.Xue, T.Shi, Y.Chen, H.Cao, C.

(2025) Cell 188: 7222-7237.e24

  • DOI: https://doi.org/10.1016/j.cell.2025.10.022
  • Primary Citation Related Structures: 
    9VJ5, 9VJ6, 9VJE, 9VJF, 9VJG, 9VMY, 9VNF

  • PubMed Abstract: 

    Presynaptic 5-HT 1A R autoreceptors predominantly signal through G i3 protein, mediating feedback inhibition that hampers the therapeutic efficacy of conventional antidepressants. By contrast, postsynaptic heteroreceptors mainly couple to G o , which promotes antidepressant responses. However, selectively activating heteroreceptors while bypassing the negative feedback induced by autoreceptors remains a significant challenge. Here, we characterized the G i/o subtype signaling profiles of 5-HT 1A R and determined its structures in complex with six agonists and three distinct G i/o family proteins: G oA , G i3 , and G z . Combined with functional analysis, we elucidated the mechanisms underlying diverse agonist recognition modes and G i/o subtype signaling selectivity of 5-HT 1A R. Furthermore, we designed a pathway-selective agonist, TMU4142, which exhibits high G oA activity while minimizing G i3 activation. Remarkably, TMU4142 demonstrated rapid antidepressant-like effects in a mouse model of depression. Collectively, these findings suggest that distinguishing heteroreceptors from autoreceptors based on their distinct downstream G i/o signaling pathways could be a promising strategy to develop fast-acting antidepressants.


  • Organizational Affiliation
    • Institute of Health and Medicine, Hefei Comprehensive National Science Center; State Key Laboratory of Immune Response and Immunotherapy, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, China. Electronic address: cywang@ihm.ac.cn.

Macromolecule Content 

  • Total Structure Weight: 177.1 kDa 
  • Atom Count: 8,615 
  • Modeled Residue Count: 1,112 
  • Deposited Residue Count: 1,583 
  • Unique protein chains: 5

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(o) subunit alphaA [auth B]354Homo sapiensMutation(s): 0 
Gene Names: GNAO1
EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P09471 (Homo sapiens)
Explore P09471 
Go to UniProtKB:  P09471
PHAROS:  P09471
GTEx:  ENSG00000087258 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP09471
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1B [auth C]358Homo sapiensMutation(s): 0 
Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens)
Explore P62873 
Go to UniProtKB:  P62873
PHAROS:  P62873
GTEx:  ENSG00000078369 
Entity Groups
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UniProt GroupP62873
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2C [auth D]71Homo sapiensMutation(s): 0 
Gene Names: GNG2
UniProt & NIH Common Fund Data Resources
Find proteins for P59768 (Homo sapiens)
Explore P59768 
Go to UniProtKB:  P59768
PHAROS:  P59768
GTEx:  ENSG00000186469 
Entity Groups
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UniProt GroupP59768
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
ScFv16D [auth E]251Mus musculusMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Soluble cytochrome b562,5-hydroxytryptamine receptor 1AE [auth R]549Escherichia coliHomo sapiens
This entity is chimeric
Mutation(s): 0 
Gene Names: cybCHTR1AADRB2RL1ADRBRL1
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Find proteins for P08908 (Homo sapiens)
Explore P08908 
Go to UniProtKB:  P08908
PHAROS:  P08908
GTEx:  ENSG00000178394 
Find proteins for P0ABE7 (Escherichia coli)
Explore P0ABE7 
Go to UniProtKB:  P0ABE7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP0ABE7P08908
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
T7M

Query on T7M



Download:Ideal Coordinates CCD File
I [auth R](2R)-1-(heptadecanoyloxy)-3-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate
C46 H82 O16 P2
WSLBJQQQZZTFBA-NPJVAJNNSA-N
A1ES2
(Subject of Investigation/LOI)

Query on A1ES2



Download:Ideal Coordinates CCD File
F [auth R]8-[3-[[(2~{S})-3-(1~{H}-indol-4-yloxy)-2-oxidanyl-propyl]amino]propyl]-8-azaspiro[4.5]decane-7,9-dione
C23 H31 N3 O4
KVCDXJUCIQSGFP-KRWDZBQOSA-N
CLR

Query on CLR



Download:Ideal Coordinates CCD File
G [auth R],
H [auth R]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.86 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARCv4.41

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)ChinaGG9100007022

Revision History  (Full details and data files)

  • Version 1.0: 2025-11-12
    Type: Initial release
  • Version 1.1: 2026-04-01
    Changes: Data collection, Database references