8Z0Z | pdb_00008z0z

Cryo-EM structure of the panda P2X7 receptor in complex with JNJ-54175446

• PDB DOI: https://doi.org/10.2210/pdb8Z0Z/pdb
• EM Map EMD-39716: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Ailuropoda melanoleuca
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2024-04-10 Released: 2025-04-16 
• Deposition Author(s): Sheng, D., Hattori, M.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of the panda P2X7 receptor in complex with JNJ-54175446

Sheng, D., Hattori, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 118.8 kDa 
• Atom Count: 7,470 
• Modeled Residue Count: 960 
• Deposited Residue Count: 1,026 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
P2X purinoceptor	A, B, C	342	Ailuropoda melanoleuca	Mutation(s): 0  Gene Names: PANDA_000894
UniProt
Find proteins for G1M6C4 (Ailuropoda melanoleuca) Explore G1M6C4  Go to UniProtKB:  G1M6C4
Glycosylation
Glycosylation Sites: 2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1L0I	F [auth A], I [auth B], L [auth C]	JNJ-54175446 C18 H13 Cl F4 N6 O CWFVVQFVGMFTBD-SECBINFHSA-N
NAG (Subject of Investigation/LOI)	D [auth A], E [auth A], G [auth B], H [auth B], J [auth C], K [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-16 
Deposition Author(s): Sheng, D., Hattori, M.

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

Revision History  

• Version 1.0: 2025-04-16
  Type: Initial release
  
• Version 1.1: 2025-06-18
  Changes: Data collection
• Version 1.2: 2025-11-26
  Changes: Data collection, Derived calculations, Structure summary