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- EMDB-64532: Structure of MHV68 glycoprotein B -

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Basic information

Entry
Database: EMDB / ID: EMD-64532
TitleStructure of MHV68 glycoprotein B
Map data
Sample
  • Complex: Murid herpesvirus 68 glycoprotein B
    • Protein or peptide: Murid herpesvirus 68 glycoprotein B
KeywordsMHV68 / gB / VIRAL PROTEIN
Biological speciesMurid gammaherpesvirus 4 (Murine herpesvirus 68)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.3 Å
AuthorsCheng BZ / Fang XY / Xie C / Sun C / Liu Z / Zeng MS
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)82030046 China
CitationJournal: Nature / Year: 2026
Title: A broadly protective antibody targeting gammaherpesvirus gB.
Authors: Cong Sun / Chu Xie / Bing-Zhen Cheng / Zi-Ying Jiang / Pei-Huang Wu / Xin-Yan Fang / Peng-Lin Li / Xian-Shu Tian / Hang Zhou / Yan-Lin Yang / Jing Wang / Sen-Fang Sui / Zheng Liu / Mu-Sheng Zeng /
Abstract: Gammaherpesvirus is a subfamily of herpesvirus, distinct phylogenetically from alphaherpesvirus and betaherpesvirus and characterized by its oncogenic subtypes, including Epstein-Barr virus and ...Gammaherpesvirus is a subfamily of herpesvirus, distinct phylogenetically from alphaherpesvirus and betaherpesvirus and characterized by its oncogenic subtypes, including Epstein-Barr virus and Kaposi's sarcoma-associated herpesvirus. It broadly infects humans and other vertebrates and causes various diseases and malignancies. However, no specific antiviral agents are available for each subtype or the whole family. gB is a common fusion protein that is vital for herpesvirus infection and is an ideal target for broad vaccine development; however, a lack of structural and mechanistic understanding of gB hinders this effort. Here we report the molecular basis of broad gB binding and cross-genus virus neutralization by an antibody, Fab5. This antibody confers effective protection against authentic virus challenges in immunocompetent mice, non-human primates and humanized mice with murine, rhesus and human gammaherpesvirus. Cryo-electron microscopy structures reveal that Fab5 targets a conserved and vulnerable epitope of gammaherpesvirus gB that is antigenically exposed in both pre-fusion and post-fusion states. This finding not only demonstrates that Fab5 is a cross-genus antibody that is broadly reactive to gammaherpesvirus infection and pathogenesis progression, but also offers insights into potential common mechanisms for herpesvirus infection and facilitates the development of broad-spectrum vaccines against gammaherpesviruses.
History
DepositionMay 9, 2025-
Header (metadata) releaseJan 21, 2026-
Map releaseJan 21, 2026-
UpdateFeb 18, 2026-
Current statusFeb 18, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_64532.png

Downloads & links

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Map

FileDownload / File: emd_64532.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.92 Å/pix.
x 300 pix.
= 276. Å		0.92 Å/pix.
x 300 pix.
= 276. Å		0.92 Å/pix.
x 300 pix.
= 276. Å

Surface

Projections

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Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.92 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0777
Minimum - Maximum-0.15747505 - 0.49565285
Average (Standard dev.)0.00017253323 (±0.015563984)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 276.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_64532_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_64532_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Murid herpesvirus 68 glycoprotein B

EntireName: Murid herpesvirus 68 glycoprotein B
Components
  • Complex: Murid herpesvirus 68 glycoprotein B
    • Protein or peptide: Murid herpesvirus 68 glycoprotein B

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Supramolecule #1: Murid herpesvirus 68 glycoprotein B

SupramoleculeName: Murid herpesvirus 68 glycoprotein B / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Murid gammaherpesvirus 4 (Murine herpesvirus 68)

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Macromolecule #1: Murid herpesvirus 68 glycoprotein B

MacromoleculeName: Murid herpesvirus 68 glycoprotein B / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Murid gammaherpesvirus 4 (Murine herpesvirus 68)
Molecular weightTheoretical: 74.91975 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MYPTVKSMRV AHLTNLLTLL CLLCHTHLYV CQPTTLRQPS DMTPAQDAPT ETPPPLSTNT NRGFEYFRVC GVAATGETFR FDLDKTCPS TQDKKHVEGI LLVYKINIVP YIFKIRRYRK IITQLTIWRG HRTSSVTGKF EMATQAHEWE VGDFDSIYQC Y NSATMVVN ...String:
MYPTVKSMRV AHLTNLLTLL CLLCHTHLYV CQPTTLRQPS DMTPAQDAPT ETPPPLSTNT NRGFEYFRVC GVAATGETFR FDLDKTCPS TQDKKHVEGI LLVYKINIVP YIFKIRRYRK IITQLTIWRG HRTSSVTGKF EMATQAHEWE VGDFDSIYQC Y NSATMVVN NVRQVYVDRD GVNKTVNIRP VDGLTGNIQR YFSQPTLYSE PGRVEATYRV RTTVNCEIVD MVARSMDPYN YI ATALGDS LELSPFQTFD NTSQSTAPKR ADMRVREVKN YKFVDYNNRG TAPAGQSRTF LETPSATYSW KTATRQTATC DLV HWKTFP RAIQTAHEHS YHFVANEVTA TFNTPLTEVE NFTSTYSCVS DQINKTISEY IQKLNNSYVA SGKTQYFKTD GNLY LIWQP LEHPEIEDID EDSDPEPTPA PPKSTGGSGE AADNGNSTSE VSKGSENPLI TAQIQFAYDK LTTSVNNVLE ELSRA WCRE QVRDTLMWYE LSKVNPTSVM SAIYGKPVAA RYVGDAISVT DCIYVDQSSV NIHQSLRLQH DKTTCYSRPR VTFKFI NST DPLTGQLGPR KEIILSNTNI ETCKDESEHY FIVGEYIYYY KNYIFEEKLN LSSIATLDTF IALNISFIEN IDFKTVE LY SSTERKLASS HHHHHH

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.3
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.3 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 109332
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER
FSC plot (resolution estimation)

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Atomic model buiding 1

RefinementProtocol: RIGID BODY FIT
Output model

PDB-9uvc:
Structure of MHV68 glycoprotein B

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