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- EMDB-10015: Cryo-ET on apoferritin -

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Basic information

Entry
Database: EMDB / ID: EMD-10015
TitleCryo-ET on apoferritin
Map data
Sample
  • Complex: Apoferritin
Biological speciesEquus caballus (horse)
Methodelectron tomography / cryo EM
AuthorsZou XD / Zhao JJ / Xu HY / Carroni M
Funding support Sweden, 2 items
OrganizationGrant numberCountry
Swedish Research Council2012.0112 Sweden
Knut and Alice Wallenberg Foundation Sweden
CitationJournal: To Be Published
Title: A simple pressure-assisted method for cryo-EM specimen preparation
Authors: Zou XD / Zhao JJ / Xu HY / Carroni M
History
DepositionJun 2, 2019-
Header (metadata) releaseDec 16, 2020-
Map releaseDec 16, 2020-
UpdateDec 16, 2020-
Current statusDec 16, 2020Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Solid view (volume rendering)
  • Imaged by UCSF Chimera
  • Download
  • Solid view (volume rendering)
  • Imaged by UCSF Chimera
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Movie viewer
Supplemental images

emd_10015.png

Downloads & links

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Map

FileDownload / File: emd_10015.map.gz / Format: CCP4 / Size: 48.9 MB / Type: IMAGE STORED AS SIGNED BYTE
Voxel sizeX=Y=Z: 13.8 Å
Density
Minimum - Maximum-128.0 - 127.0
Average (Standard dev.)3.0234263 (±28.825129)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-441433
Dimensions83781675
Spacing81683775
CellA: 11260.8 Å / B: 11550.601 Å / C: 1035.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeenvelope stored as signed bytes (from -128 lowest to 127 highest)
Å/pix. X/Y/Z13.813.80000119474313.8
M x/y/z81683775
origin x/y/z0.0000.0000.000
length x/y/z11260.80011550.6011035.000
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS14-4433
NC/NR/NS81683775
D min/max/mean-128.000127.0003.023

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Supplemental data

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Sample components

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Entire : Apoferritin

EntireName: Apoferritin
Components
  • Complex: Apoferritin

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Supramolecule #1: Apoferritin

SupramoleculeName: Apoferritin / type: complex / ID: 1 / Parent: 0
Details: Horse spleen apoferritin was bought from Sigma (A3641, 481.2 kDa).
Source (natural)Organism: Equus caballus (horse)
Recombinant expressionOrganism: Equus caballus (horse)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE / Details: New freezing method, called Preassis.
SectioningOther: NO SECTIONING

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 1.4 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionNumber images used: 50

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