9JZQ | pdb_00009jzq

The glycoprotein E of Varicella-Zoster Virus in complex with WLL-1/WLL-28 Fab

• PDB DOI: https://doi.org/10.2210/pdb9JZQ/pdb
• EM Map EMD-61939: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Homo sapiens, Human herpesvirus 3 strain Oka vaccine
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-10-14 Released: 2025-09-03 
• Deposition Author(s): Wang, L., Zhang, N., Guo, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

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

Literature

Discovery and structural investigation of Varicella-Zoster virus gE-neutralizing antibodies isolated from a convalescent patient.

Wang, L., Jia, Z., Ye, X., Chen, C., Sun, B., Zhao, X., Zhang, R., Li, Y., Wang, W., Sun, Z., Zhou, L., Ni, Z., Zhang, N., Guo, Y.

(2025) Protein Cell 16: 1054-1059

• PubMed: 40583453 
• DOI: https://doi.org/10.1093/procel/pwaf051
• Primary Citation Related Structures: 
  9JZQ

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Organizational Affiliation: 
• State Key Laboratory of Medicinal Chemical Biology and College of Life Sciences, Nankai University, Tianjin 300071, China.
Affiliated Hospital of Hebei Engineering University, Hebei University of Engineering, Handan 056002, China.
Guangzhou National Laboratory, Guangzhou International Bio Island, Guangzhou 510005, China.
Central Laboratory, Hebei Collaborative Innovation Center of Tumor Microecological Metabolism Regulation, Affiliated Hospital of Hebei University, Baoding 071000, China.
Tianjin Second People's Hospital, Tianjin 300192, China.
Frontiers Science Center for New Organic Matter, Nankai University, Tianjin 300071, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A3B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 157.55 kDa 
• Atom Count: 7,652 
• Modeled Residue Count: 1,001 
• Deposited Residue Count: 1,437 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
WLL-1 Fab heavy chain	A	224	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
WLL-1 Fab light chain	B	214	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
WLL-28 Fab heavy chain	C	225	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
WLL-28 Fab light chain	D	214	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein E	E	560	Human herpesvirus 3 strain Oka vaccine	Mutation(s): 0  Gene Names: gE, ORF68
UniProt
Find proteins for Q9J3M8 (Varicella-zoster virus (strain Oka vaccine)) Explore Q9J3M8  Go to UniProtKB:  Q9J3M8

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
RECONSTRUCTION	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-09-03 
Deposition Author(s): Wang, L., Zhang, N., Guo, Y.

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

Revision History  

• Version 1.0: 2025-09-03
  Type: Initial release
  
• Version 1.1: 2026-01-07
  Changes: Data collection, Database references
• Version 2.0: 2026-02-04
  Type: Coordinate replacement
  Reason: Sequence discrepancy
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Refinement description, Source and taxonomy, Structure summary