8Y3R | pdb_00008y3r

ASFV p72 in complex with Fab H3

• PDB DOI: https://doi.org/10.2210/pdb8Y3R/pdb
• EM Map EMD-38896: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): African swine fever virus, Sus scrofa
• Expression System: Homo sapiens, Sus scrofa
• Mutation(s): No 


• Deposited: 2024-01-29 Released: 2024-09-04 
• Deposition Author(s): Wang, X., Fu, W., Yu, Q.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.48 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

p72 antigenic mapping reveals a potential supersite of vulnerability for African swine fever virus.

Yu, Q., Liang, D., Fu, W., Zhang, L., Wang, J., Zhang, Z., Sun, Y., Zhu, D., Zheng, B., Zhu, L., Xiang, Y., Zhao, D., Wang, X.

(2024) Cell Discov 10: 80-80

• PubMed: 39080252 
• DOI: https://doi.org/10.1038/s41421-024-00692-x
• Primary Citation Related Structures: 
  8Y3O, 8Y3P, 8Y3Q, 8Y3R, 8ZL9

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Organizational Affiliation: 
• CAS Key Laboratory of Infection and Immunity, National Laboratory of Macromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.
University of Chinese Academy of Sciences, Beijing, China.
Department of Vaccine Clinical Evaluation, Jiangsu Provincial Center for Disease Prevention and Control, Nanjing, Jiangsu, China.
Yunnan Tropical and Subtropical Animal Viral Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, Yunnan, China.
State Key Laboratory for Animal Disease Control and Prevention, National African Swine Fever Para-reference Laboratory, National High Containment Facilities for Animal Diseases Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, Heilongjiang, China.
Beijing Advanced Innovation Center for Structural Biology, Beijing Frontier Research Center for Biological Structure, Center for Infectious Disease Research, Department of Basic Medical Sciences, School of Medicine, Tsinghua University, Beijing, China.
State Key Laboratory for Animal Disease Control and Prevention, National African Swine Fever Para-reference Laboratory, National High Containment Facilities for Animal Diseases Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, Heilongjiang, China. [e-mail].
CAS Key Laboratory of Infection and Immunity, National Laboratory of Macromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China. [e-mail].
University of Chinese Academy of Sciences, Beijing, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A3B3C3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 9-mer - A6B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 311.38 kDa 
• Atom Count: 15,735 
• Modeled Residue Count: 2,001 
• Deposited Residue Count: 2,769 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
B646L	A, D [auth C], G [auth D]	693	African swine fever virus	Mutation(s): 0  Gene Names: p72, B646L, B646L CDS, ASFV-Georgia_4-106
UniProt
Find proteins for P22776 (African swine fever virus (strain Badajoz 1971 Vero-adapted)) Explore P22776  Go to UniProtKB:  P22776

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Heavy chain of H3	B, E, H [auth F]	122	Sus scrofa	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Light chain of H3	C [auth L], F [auth G], I [auth H]	108	Sus scrofa	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.48 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: 2024-09-04 
Deposition Author(s): Wang, X., Fu, W., Yu, Q.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-09-04
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Structure summary
• Version 1.2: 2025-07-02
  Changes: Data collection