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Basic information

Entry
Database: EMDB / ID: EMD-72794
TitleStructure of the Adenovirus-7 VLP
Map data
Sample
  • Virus: Human adenovirus 7
KeywordsAdenovirus / vaccine / VLP / maturation / VIRUS LIKE PARTICLE
Biological speciesHuman adenovirus 7
Methodsingle particle reconstruction / cryo EM / Resolution: 4.2 Å
AuthorsKhayat R / Madoo K
Funding support United States, 5 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)5SC1GM139701 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)5G12MD007603-30 United States
Simons Foundation349247 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)GM103310 United States
Department of Defense (DOD, United States)W81XH19C0169 United States
CitationJournal: Proc.Natl.Acad.Sci.USA / Year: 2026
Title: Structure of Human adenovirus 7 virus-like particles, a platform for developing nanotherapeutics and studying capsid assembly.
Authors: Madoo K / Mazboudi R / Islam ZM / Luo J / Kuschner RA / Gottlieb P / Dennehy JJ / Abzalimov RR / Galarza JM / Khayat R
History
DepositionSep 21, 2025-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_72794.png

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Map

FileReleased
Voxel sizeX=Y=Z: 1.083 Å
Density
Contour LevelBy AUTHOR: 1.0
Minimum - Maximum-5.052835 - 11.442728000000001
Average (Standard dev.)-0.000000000063739 (±1.0)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions128012801280
Spacing128012801280
CellA=B=C: 1386.24 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Human adenovirus 7

EntireName: Human adenovirus 7
Components
  • Virus: Human adenovirus 7

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Supramolecule #1: Human adenovirus 7

SupramoleculeName: Human adenovirus 7 / type: virus / ID: 1 / Parent: 0 / Details: Adenovirus 7 Virus-like particles / NCBI-ID: 10519 / Sci species name: Human adenovirus 7 / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: STRAIN / Virus enveloped: No / Virus empty: Yes
Host (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 18.2 MDa
Virus shellShell ID: 1 / Name: Hexon / Diameter: 960.0 Å / T number (triangulation number): 25

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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

Concentration1 mg/mL
BufferpH: 7.4
GridModel: Quantifoil Active R2/1 / Material: COPPER / Mesh: 400 / Support film - Material: CARBON / Support film - topology: HOLEY ARRAY / Pretreatment - Type: PLASMA CLEANING / Pretreatment - Time: 30 sec. / Pretreatment - Atmosphere: AIR
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (6k x 4k) / Digitization - Dimensions - Width: 5760 pixel / Digitization - Dimensions - Height: 4092 pixel / Number grids imaged: 1 / Number real images: 13608 / Average exposure time: 50.0 sec. / Average electron dose: 53.35 e/Å2 / Details: Not all images had particles
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsCalibrated defocus min: 2.5 µm / Calibrated magnification: 81000 / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.6 µm / Nominal defocus min: 0.5 µm / Nominal magnification: 81000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: cryoSPARC (ver. 4.13) / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionNumber classes used: 1 / Applied symmetry - Point group: I (icosahedral) / Algorithm: BACK PROJECTION / Resolution.type: BY AUTHOR / Resolution: 4.2 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: FREALIGN (ver. 9.03) / Number images used: 15808
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. 4.13)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 4)
Final 3D classificationSoftware - Name: cryoSPARC (ver. 4.13)

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