EMPIAR-12780 - Cryo-ET of S. cerevisiae Not4Δ Nup188::GFP Nup170::mars cells [multiple data sets in MRC format]

EMPIAR-12780

Cryo-ET of S. cerevisiae Not4Δ Nup188::GFP Nup170::mars cells [multiple data sets in MRC format]

Publication:

The small GTPase Ran defines nuclear pore complex asymmetry

Sachweh J, Börmel M, Klumpe S, Becker A, Taniguchi R, Kubańska MA, Pintschovius V, Kaindl E, Plitzko JM, Wilfling F, Beck M, Hampoelz B

Cell (2025)

PMID: 40829587

DOI: 10.1016/j.cell.2025.07.025

Related EMDB entry:

EMD-53729 EMD-53728 EMD-53727 EMD-53725 EMD-53732 EMD-53731 EMD-53722 EMD-53721 EMD-53723 EMD-53724

Deposited:

2025-04-25

Released:

2025-10-09

Last modified:

2025-10-09

Imageset size:

176.60 GB

Imageset DOI:

10.6019/EMPIAR-12780

Experimental metadata:

Download xml json

Contains:

tilt series
reconstructed volumes

Image Sets

1. Tilt series of S. cerevisiae Not4Δ Nup188::GFP Nup170::mars cells

Category:

tilt series

Image format:

MRC

No. of images or tilt series:

Image size:

(5760, 4092)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(2.176, 2.176)

Details:

Tilt series were frame-aligned in SerialEM during acquisition, mrc and mdoc files for the stacks are provided. The subfolder "alignment_files", contains alignment files (.xf) and tilt files (.tlt) that were generated by AreTomo, CTF estimation from gctf are included as gctf.star files. The cleaned tilt fils lists images excluded from raw stacks.

Files:

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2. Filtered tomograms of S. cerevisiae Not4Δ Nup188::GFP Nup170::mars cells

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(1016, 1440)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(8.704, 8.704)

Details:

Non-CTF corrected tomograms reconstructed at bin 4 with AreTomo and processed by SIRT-like filtering in IMOD are provided.

Files:

This entry cannot be downloaded from PDBj.

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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Citations

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Gyawali R, Dhakal A, Wang L, Cheng J. (2026)

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Jones HN, Deshmukh A, Pande K. (2026)

CryoGS: High-Quality Cryo-EM Homogeneous Reconstruction by Gaussian Splatting

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Wang X, Mo Z, Li F, Zhang F, Wan X. (2026)

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Kishore V, Debarnot V, Righetto RD, Engel BD, Dokmanić I. (2026)

CryoSift: an accessible and automated CNN-driven tool for cryo-EM 2D class selection.

Schäfer JH, Calza A, Hom K, Damodar P, Peng R, Bogdanović N, Lander GC, Stagg SM, Cianfrocco MA. (2025)