9IY8 | pdb_00009iy8

Cryo-EM structure of apo-GPR55-G13 complex

• PDB DOI: https://doi.org/10.2210/pdb9IY8/pdb
• EM Map EMD-60990: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMDmpstruc


• Deposited: 2024-07-30 Released: 2025-01-01 
• Deposition Author(s): Hua, T., Liu, Z.J., Cherezov, V., Chang, H., Li, X.T., Shen, L.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.01 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure basis of ligand recognition and activation of GPR55.

Chang, H., Li, X., Shen, L., Ge, X., Hao, S., Wu, L., Liu, S., Liu, J., Cherezov, V., Hua, T.

(2025) Cell Res 35: 80-83

• PubMed: 39482405 
• DOI: https://doi.org/10.1038/s41422-024-01046-8
• Primary Citation of Related Structures:  
  9IY8, 9IYA

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Organizational Affiliation: 
• iHuman Institute, ShanghaiTech University, Shanghai, China.
School of Life Science and Technology, ShanghaiTech University, Shanghai, China.
Bridge Institute, University of Southern California, Los Angeles, CA, USA.
Viterbi School of Engineering, University of Southern California, Los Angeles, CA, USA.
Department of Chemistry, University of Southern California, Los Angeles, CA, USA.
Bridge Institute, University of Southern California, Los Angeles, CA, USA. [e-mail].
Department of Chemistry, University of Southern California, Los Angeles, CA, USA. [e-mail].
iHuman Institute, ShanghaiTech University, Shanghai, China. [e-mail].
School of Life Science and Technology, ShanghaiTech University, Shanghai, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 135.66 kDa 
• Atom Count: 9,014 
• Modeled Residue Count: 1,141 
• Deposited Residue Count: 1,215 
• Unique protein chains: 5

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]	346	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 G]	70	Homo sapiens	Mutation(s): 0  Gene Names: GNG2 Membrane Entity: Yes
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
G-protein coupled receptor 55	C [auth R]	318	Homo sapiens	Mutation(s): 0  Gene Names: GPR55 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y2T6 (Homo sapiens) Explore Q9Y2T6  Go to UniProtKB:  Q9Y2T6
PHAROS:  Q9Y2T6 GTEx:  ENSG00000135898

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
scFV16	D [auth S]	251	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein subunit alpha-13	E [auth A]	230	Homo sapiens	Mutation(s): 0  Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q14344 (Homo sapiens) Explore Q14344  Go to UniProtKB:  Q14344
PHAROS:  Q14344 GTEx:  ENSG00000120063

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.01 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-01 
Deposition Author(s): Hua, T., Liu, Z.J., Cherezov, V., Chang, H., Li, X.T., Shen, L.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	91953202

Revision History  

• Version 1.0: 2025-01-01
  Type: Initial release
  
• Version 1.1: 2025-01-22
  Changes: Data collection, Database references