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 9JLI | pdb_00009jli

Structure of HHV6B glycoprotein B


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.84 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9JLI

This is version 1.1 of the entry. See complete history. 

Literature

Human herpesvirus 6B glycoprotein B postfusion structure, vulnerability mapping, and receptor recognition.

Xie, C., Fang, X.Y., Liu, Y.T., Tian, X.S., Zhong, L.Y., Wu, P.H., Zhou, H., Li, P.L., Yang, Y.L., Jiang, Z.Y., Sui, S.F., Liu, Z., Zeng, M.S., Sun, C.

(2025) PLoS Pathog 21: e1013300-e1013300

  • DOI: https://doi.org/10.1371/journal.ppat.1013300
  • Primary Citation Related Structures: 
    9JLI

  • PubMed Abstract: 

    Human herpesvirus 6B (HHV-6B), a β-herpesvirus that significantly threatens immunocompromised individuals, currently lacks targeted antiviral therapies or vaccines. Glycoprotein B (gB), the primary mediator of membrane fusion during viral entry, is a key target for neutralizing antibody (nAb) and vaccine development. In this study, we determined a 2.8 Å cryo-EM structure of the HHV-6B gB ectodomain in its postfusion conformation, unveiling unique N-terminal features and resolving the furin site for the first time in herpesviruses. Comparative analyses highlighted similarities between HHV-6B gB and gB from human cytomegalovirus (HCMV) and Epstein-Barr virus (EBV), mapping conserved residues across herpesviruses. Cross-binding assays indicated minimal cross-epitope recognition by nAbs from other herpesviruses, while several potential vulnerable sites on HHV-6B gB were identified. These insights advance our understanding of HHV-6B infection mechanisms and support future development of antibodies or vaccines targeting gB.


  • Organizational Affiliation: 
    • State Key Laboratory of Oncology in South China, Guangdong Provincial Clinical Research Center for Cancer, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Sun Yat-sen University Cancer Center, Guangzhou, China.

Macromolecule Content 

  • Total Structure Weight: 218.95 kDa 
  • Atom Count: 14,104 
  • Modeled Residue Count: 1,806 
  • Deposited Residue Count: 1,899 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Envelope glycoprotein B
A, B, C
633Human herpesvirus 6 strain Z29Mutation(s): 0 
Gene Names: gB
UniProt
Find proteins for P36320 (Human herpesvirus 6B (strain Z29))
Explore P36320 
Go to UniProtKB:  P36320
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36320
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.84 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China82030046

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-25
    Type: Initial release
  • Version 1.1: 2026-01-21
    Changes: Data collection, Database references