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- EMDB-17750: A tomogram of focal adhesion of VASP knockout MEF -

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Basic information

Entry
Database: EMDB / ID: EMD-17750
TitleA tomogram of focal adhesion of VASP knockout MEF
Map data
Sample
  • Cell: Mouse embryonic fibroblast
Keywordsfocal adhesion / stress fiber / CELL ADHESION
Biological speciesMus musculus (house mouse)
Methodelectron tomography / cryo EM
AuthorsWen-Lu C / Ohad M
Funding supportEuropean Union, 1 items
OrganizationGrant numberCountry
European Research Council (ERC)European Union
CitationJournal: To Be Published
Title: A mixed polarity actin network at focal adhesion
Authors: Wen-Lu C / Ohad M
History
DepositionJun 27, 2023-
Header (metadata) releaseJul 10, 2024-
Map releaseJul 10, 2024-
UpdateJul 10, 2024-
Current statusJul 10, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_17750.png

Downloads & links

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Map

FileDownload / File: emd_17750.map.gz / Format: CCP4 / Size: 637.2 MB / Type: IMAGE STORED AS SIGNED BYTE
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
8.84 Å/pix.
x 750 pix.
= 6629.28 Å		8.84 Å/pix.
x 928 pix.
= 8202.629 Å		8.84 Å/pix.
x 960 pix.
= 8485.479 Å

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 8.83904 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-128.0 - 127.0
Average (Standard dev.)58.264384999999997 (±7.9043584)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin16-16-375
Dimensions928960750
Spacing960928750
CellA: 8485.479 Å / B: 8202.629 Å / C: 6629.28 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Mouse embryonic fibroblast

EntireName: Mouse embryonic fibroblast
Components
  • Cell: Mouse embryonic fibroblast

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Supramolecule #1: Mouse embryonic fibroblast

SupramoleculeName: Mouse embryonic fibroblast / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Mus musculus (house mouse)

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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
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: Aurion / Diameter: 10 nm

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 117.67 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 4.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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