9LL9 | pdb_00009ll9

DOI-bound Serotonin 2A (5-HT2A) receptor-Gq complex

• PDB DOI: https://doi.org/10.2210/pdb9LL9/pdb
• EM Map EMD-63194: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda, Homo sapiens
• Mutation(s): No 


• Deposited: 2025-01-17 Released: 2026-01-14 
• Deposition Author(s): Xu, Z., Shao, Z.H.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.76 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Psychedelics elicit their effects by 5-HT2A receptor-mediated Gi signalling

Xu, Z., Wang, H., Yu, J., Deng, Y., Tian, X., Ni, R., Xia, F., Yang, L., Xu, C., Zhang, L., Luo, R., Chen, P., Zhang, X., Liu, Y., Hou, J., Zhang, M., Chen, S., Su, L., Sun, H., He, Y., Chen, D., Chen, X., Miao, Z., Xie, J., Liu, X., Zhao, J., Ke, B., Tian, X., Zeng, L., Zhang, L., Tang, X., Yang, S., Liu, J., Wang, X., Yan, W., Shao, Z.

(2026) Nature 

• DOI: https://doi.org/10.1038/s41586-025-10061-7

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 140.3 kDa 
• Atom Count: 6,894 
• Modeled Residue Count: 885 
• Deposited Residue Count: 1,243 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	A [auth B]	340	Homo sapiens	Mutation(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 ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	B [auth C]	71	Homo sapiens	Mutation(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 ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1,Guanine nucleotide-binding protein G(s) subunit alpha isoforms short,Guanine nucleotide-binding protein G(q) subunit alpha	C [auth A]	361	Homo sapiens	Mutation(s): 0  Gene Names: GNAI1, GNAS, GNAS1, GSP, GNAQ, GAQ EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P50148 (Homo sapiens) Explore P50148  Go to UniProtKB:  P50148
PHAROS:  P50148 GTEx:  ENSG00000156052
Find proteins for P63092 (Homo sapiens) Explore P63092  Go to UniProtKB:  P63092
PHAROS:  P63092 GTEx:  ENSG00000087460
Find proteins for P63096 (Homo sapiens) Explore P63096  Go to UniProtKB:  P63096
PHAROS:  P63096 GTEx:  ENSG00000127955
UniProt Groups	P63096P63092P50148

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
5-hydroxytryptamine receptor 2A	D [auth R]	471	Homo sapiens	Mutation(s): 0  Gene Names: HTR2A, HTR2
UniProt & NIH Common Fund Data Resources
Find proteins for P28223 (Homo sapiens) Explore P28223  Go to UniProtKB:  P28223
PHAROS:  P28223 GTEx:  ENSG00000102468

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CLR	F [auth R]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N
A1EK5 (Subject of Investigation/LOI)	E [auth R]	(2~{R})-1-(4-iodanyl-2,5-dimethoxy-phenyl)propan-2-amine C11 H16 I N O2 BGMZUEKZENQUJY-SSDOTTSWSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.76 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.19.2_4158
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-14 
Deposition Author(s): Xu, Z., Shao, Z.H.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	82404716

Revision History  

• Version 1.0: 2026-01-14
  Type: Initial release
  
• Version 1.1: 2026-02-04
  Changes: Data collection, Database references