8Z9P | pdb_00008z9p

Cryo-EM structure of human GPR4-Gi complex

• PDB DOI: https://doi.org/10.2210/pdb8Z9P/pdb
• EM Map EMD-39866: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Rattus norvegicus, Bos taurus, Homo sapiens, synthetic construct
• Expression System: Spodoptera frugiperda, Homo sapiens, Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2024-04-23 Released: 2025-07-09 
• Deposition Author(s): Chen, L.N., Zhou, H., Xi, K., Cheng, S.Z., Liu, Y.F., Fu, Y.F., Ma, X.Y., Xu, P., Ji, S.Y., Wang, W.W., Shen, D.D., Zhang, H.B., Shen, Q.Y., Chai, R., Zhang, M., Yang, L., Han, F., Mao, C.Y., Cai, X.J., Zhang, Y.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of human GPR4-Gi complex

Chen, L.N., Zhou, H., Xi, K.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 148.1 kDa 
• Atom Count: 9,151 
• Modeled Residue Count: 1,159 
• Deposited Residue Count: 1,322 
• 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]	345	Rattus norvegicus	Mutation(s): 0  Gene Names: Gnb1
UniProt
Find proteins for P54311 (Rattus norvegicus) Explore P54311  Go to UniProtKB:  P54311

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	Bos taurus	Mutation(s): 0  Gene Names: GNG2
UniProt
Find proteins for P63212 (Bos taurus) Explore P63212  Go to UniProtKB:  P63212

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
G-protein coupled receptor 4	C [auth R]	303	Homo sapiens	Mutation(s): 0  Gene Names: GPR4
UniProt & NIH Common Fund Data Resources
Find proteins for P46093 (Homo sapiens) Explore P46093  Go to UniProtKB:  P46093
PHAROS:  P46093 GTEx:  ENSG00000177464

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	D [auth C]	354	Homo sapiens	Mutation(s): 4  Gene Names: GNAI1 EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens) Explore P63096  Go to UniProtKB:  P63096
PHAROS:  P63096 GTEx:  ENSG00000127955

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
single Fab chain (svFv16)	E [auth S]	250	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CLR	F [auth R], G [auth R]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-09 
Deposition Author(s): Chen, L.N., Zhou, H., Xi, K., Cheng, S.Z., Liu, Y.F., Fu, Y.F., Ma, X.Y., Xu, P., Ji, S.Y., Wang, W.W., Shen, D.D., Zhang, H.B., Shen, Q.Y., Chai, R., Zhang, M., Yang, L., Han, F., Mao, C.Y., Cai, X.J., Zhang, Y.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-07-09
  Type: Initial release
  
• Version 1.1: 2025-07-16
  Changes: Data collection, Structure summary