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- EMDB-69831: CryoEM SPA of Rotavirus triple layer particles collected with Cc ... -

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Basic information

Entry
Database: EMDB / ID: EMD-69831
TitleCryoEM SPA of Rotavirus triple layer particles collected with Cc corrector and energy filter slit width of 60 eV
Map datamain map
Sample
  • Virus: Rotavirus
KeywordsRotavirus triple layer particles / VIRUS
Biological speciesRotavirus
Methodsingle particle reconstruction / cryo EM / Resolution: 3.21 Å
AuthorsZhu Y / Zhong L / Wu J / Boyce M / Krebs SA / Chen L / Stuart ID / Wang P / Ni T / Zhang P
Funding support United Kingdom, 1 items
OrganizationGrant numberCountry
Wellcome Trust United Kingdom
CitationJournal: To Be Published
Title: Chromatic Aberation Correction for High-Resolution Single Particle Cryo-EM and Cryo-electron Tomography
Authors: Zhu Y / Zhong L / Wu J / Boyce M / Krebs SA / Chen L / Stuart ID / Wang P / Ni T / Zhang P
History
DepositionMar 22, 2026-
Header (metadata) releaseApr 1, 2026-
Map releaseApr 1, 2026-
UpdateApr 1, 2026-
Current statusApr 1, 2026Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_69831.png

Downloads & links

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Map

FileDownload / File: emd_69831.map.gz / Format: CCP4 / Size: 1.4 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationmain map
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.08 Å/pix.
x 720 pix.
= 776.16 Å		1.08 Å/pix.
x 720 pix.
= 776.16 Å		1.08 Å/pix.
x 720 pix.
= 776.16 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.078 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.00715
Minimum - Maximum-0.010868022 - 0.023394717
Average (Standard dev.)0.00046729125 (±0.0021614174)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions720720720
Spacing720720720
CellA=B=C: 776.16 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: half1

Fileemd_69831_half_map_1.map
Annotationhalf1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half2

Fileemd_69831_half_map_2.map
Annotationhalf2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Rotavirus

EntireName: Rotavirus
Components
  • Virus: Rotavirus

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Supramolecule #1: Rotavirus

SupramoleculeName: Rotavirus / type: virus / ID: 1 / Parent: 0 / NCBI-ID: 10912 / Sci species name: Rotavirus / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: SPECIES / Virus enveloped: No / Virus empty: No

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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
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: TFS FALCON 4i (4k 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: 40.0 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: 3.21 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 94200
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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