EMPIAR-10327 - Processed FIB SEM images of a parasitophorous vacuole containing Toxoplasma gondii ∆CAP parasites, complemented with CAP. [1 multi-frame micrographs composed of 1 frames each in MRC format]

EMPIAR-10327

Processed FIB SEM images of a parasitophorous vacuole containing Toxoplasma gondii ∆CAP parasites, complemented with CAP. [1 multi-frame micrographs composed of 1 frames each in MRC format]

Publication:

Differential requirements for cyclase-associated protein (CAP) in actin-dependent processes of Toxoplasma gondii

Hunt A, Russell MRG, Wagener J, Kent R, Carmeille R, Peddie CJ, Collinson L, Heaslip A, Ward GE, Treeck M

eLife 8 (2019)

PMID: 31577230

DOI: 10.7554/elife.50598

Related EMDB entry:

Deposited:

2019-09-27

Released:

2019-10-07

Last modified:

2019-10-07

Imageset size:

583.83 MB

Imageset DOI:

10.6019/EMPIAR-10327

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Processed FIB SEM images of a parasitophorous vacuole containing Toxoplasma gondii ∆CAP parasites, complemented with CAP.

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

Image size:

(1540, 1254)

Pixel type:

SIGNED BYTE

Pixel spacing:

(100.0, 100.0)

Details:

Image acquisition;
5 nm voxels: xy pixel set to 5 nm, FIB mill every 5 nm.
SEM: 1.5 kV with 1 nA current, 10 μs dwell time.
EsB detector grid voltage: 1200 V.
Ion beam milling: 30 kV, 700 pA.

Image processing;
Zeiss Atlas 5.2.1.25;
Gradient align
Export of cropped region of interest exported as 8 bit TIF files

Fiji;
Invert
Gaussian blur: Sigma 0.75
Unsharp mask: Radius (Sigma) 1 pixel, Mask weight 0.6
Rotate to straighten XY (D19: no rotation)
Reslice: YZ assigned to XY plane
Scale to 10 nm isotropic voxels

IMOD;
tif2mrc

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Files:

Archives and downloads the selected files into an uncompressed zip file.

We recommend using rsync, aspera, globus, etc.

Download a list of selected files.

It is possible to download files by specifying the file list with rsync command, etc.

rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

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