8UYU | pdb_00008uyu

HBV T=3 capsid from HEK-293T cells

• PDB DOI: https://doi.org/10.2210/pdb8UYU/pdb
• EM Map EMD-42823: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Hepatitis B virus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2023-11-14 Released: 2024-11-20 
• Deposition Author(s): Bianchini, E.N., Wang, J.C.Y., Hu, J.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Cryo-EM Structures of HBV Capsids from Human Cells at Near-Atomic Resolution

Bianchini, E.N., Perez-Segura, C., Liu, H., Luckenbaugh, L., Flanagan, J., Cai, Y., Shanklin, J., Zlotnick, A., Hadden-Perilla, J.A., Hu, J., Wang, J.C.Y.

(2025) Structure 

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Homo 180-mer - A180 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 63.47 kDa 
• Atom Count: 3,462 
• Modeled Residue Count: 433 
• Deposited Residue Count: 549 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein	A, B, C	183	Hepatitis B virus	Mutation(s): 0  Gene Names: pre-c/core, C, core, pre-C/C, PreC, preC/C, precore-core, HBVgp4
UniProt
Find proteins for P03146 (Hepatitis B virus genotype D subtype ayw (isolate France/Tiollais/1979)) Explore P03146  Go to UniProtKB:  P03146

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	ISOLDE
MODEL REFINEMENT	PHENIX
MODEL REFINEMENT	Coot
RECONSTRUCTION	RELION	3.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-20 
Deposition Author(s): Bianchini, E.N., Wang, J.C.Y., Hu, J.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI173104
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI043453

Revision History  

• Version 1.0: 2024-11-20
  Type: Initial release
  
• Version 1.1: 2025-02-26
  Changes: Data collection, Structure summary
• Version 1.2: 2025-12-03
  Changes: Data collection, Database references