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)

Experimental Data Snapshot

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

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8UYU

This is version 1.2 of the entry. See complete history.

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

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

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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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03146
Sequence Annotations Expand
Reference Sequence

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

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-11-20

Deposition Author(s):

Bianchini, E.N.

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 (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.