9GG5 | pdb_00009gg5

Cryo-EM structure of Thromboxane A2 receptor-miniGq protein complex bound to U46619

• PDB DOI: https://doi.org/10.2210/pdb9GG5/pdb
• EM Map EMD-51324: EMDB EMDataResource

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


• Deposited: 2024-08-13 Released: 2025-08-27 
• Deposition Author(s): Matzov, D., Krawinski, P., Caffrey, M., Shalev Benami, M.
• Funding Organization(s): European Research Council (ERC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.26 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of Thromboxane A2 receptor-miniGq Protein Complex U46619 bound

Krawinski, P., Matzov, D., Ryder, A., Lal, K., Karlov, D.S., Chalhoub, G., McCormick, P.J., Caffrey, M., Tikhonova, I.G., Shalev Benami, M.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 112.72 kDa 
• Atom Count: 6,944 
• Modeled Residue Count: 929 
• Deposited Residue Count: 1,000 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thromboxane A2 receptor	A [auth R]	343	Homo sapiens	Mutation(s): 0  Gene Names: TBXA2R Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P21731 (Homo sapiens) Explore P21731  Go to UniProtKB:  P21731
PHAROS:  P21731 GTEx:  ENSG00000006638

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Engineered miniGq	B [auth A]	246	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C [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: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	D [auth C]	71	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

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CLR	F [auth R], G [auth R], H [auth R], I [auth R]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N
PUC	E [auth R]	(5Z)-7-{(1R,4S,5S,6R)-6-[(1E,3S)-3-hydroxyoct-1-en-1-yl]-2-oxabicyclo[2.2.1]hept-5-yl}hept-5-enoic acid C21 H34 O4 LQANGKSBLPMBTJ-BRSNVKEHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.26 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-27 
Deposition Author(s): Matzov, D., Krawinski, P., Caffrey, M., Shalev Benami, M.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	949364

Revision History  

• Version 1.0: 2025-08-27
  Type: Initial release