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- EMDB-50070: Tomogram showing an HA remodelled membrane in an A549wt cell infe... -

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Basic information

Entry
Database: EMDB / ID: EMD-50070
TitleTomogram showing an HA remodelled membrane in an A549wt cell infected with HK68 at 16 hpi [figure 1].
Map dataTomogram showing an HA remodelled membrane in an A549wt cell infected with HK68 at 16 hpi [figure 1].
Sample
  • Cell: A549wt cell infected with HK68 virus at 16 hpi.
KeywordsInfluenza A virus / VIRUS
Biological speciesHomo sapiens (human)
Methodelectron tomography / cryo EM
AuthorsWachsmuth-Melm M / Chlanda P
Funding support Germany, 3 items
OrganizationGrant numberCountry
Other privateChica and Heinz Schaller Foundation Germany
German Research Foundation (DFG)437060729 Germany
German Research Foundation (DFG)240245660 Germany
CitationJournal: To Be Published
Title: Influenza A virus hemagglutinin remodels membranes into a vRNP clustering platform
Authors: Wachsmuth-Melm M / Chlanda P / Peterl S / Makroczyova J / Vale-Costa S / Amorim MJ
History
DepositionApr 11, 2024-
Header (metadata) releaseApr 23, 2025-
Map releaseApr 23, 2025-
UpdateApr 23, 2025-
Current statusApr 23, 2025Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_50070.png

Downloads & links

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Map

FileDownload / File: emd_50070.map.gz / Format: CCP4 / Size: 227.6 MB / Type: IMAGE STORED AS SIGNED BYTE
AnnotationTomogram showing an HA remodelled membrane in an A549wt cell infected with HK68 at 16 hpi [figure 1].
Voxel sizeX=Y=Z: 10.684 Å
Density
Minimum - Maximum-128.0 - 127.0
Average (Standard dev.)52.739113000000003 (±14.593953000000001)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-208209-81
Dimensions14401023162
Spacing10231440162
CellA: 10929.732 Å / B: 15384.96 Å / C: 1730.808 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : A549wt cell infected with HK68 virus at 16 hpi.

EntireName: A549wt cell infected with HK68 virus at 16 hpi.
Components
  • Cell: A549wt cell infected with HK68 virus at 16 hpi.

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Supramolecule #1: A549wt cell infected with HK68 virus at 16 hpi.

SupramoleculeName: A549wt cell infected with HK68 virus at 16 hpi. / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human) / Organ: Lung

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statecell

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE
SectioningFocused ion beam - Instrument: OTHER / Focused ion beam - Ion: OTHER / Focused ion beam - Voltage: 30 / Focused ion beam - Current: 0.05 / Focused ion beam - Duration: 300 / Focused ion beam - Temperature: 95 K / Focused ion beam - Initial thickness: 1000 / Focused ion beam - Final thickness: 100
Focused ion beam - Details: The value given for _em_focused_ion_beam.instrument is TFS Aquilos 2. This is not in a list of allowed values {'OTHER', 'DB235'} so OTHER is written into the XML file.

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 3.3 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 3.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionNumber images used: 41

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