EMPIAR-13082 - CryoEM movies of the IFIT2-IFIT3 heterodimer from Mus musculus [multiple data sets in MRC format]

EMPIAR-13082

CryoEM movies of the IFIT2-IFIT3 heterodimer from Mus musculus [multiple data sets in MRC format]

Publication:

The IFIT2-IFIT3 antiviral complex targets short 5' untranslated regions on viral mRNAs for translation inhibition

Glasner DR, Todd C, Cook B, D'Urso A, Khosla S, Estrada E, Wagner JD, Bartels MD, Hung CT, Ford P, Prych J, Hatch KS, Yee BA, Ego KM, Liang Q, Holland SR, Case JB, Corbett KD, Diamond MS, Lee B, Yeo GW, Herzik Jr MA, Van Nostrand EL, Daugherty MD

Nature microbiology (2025)

PMID: 41093992

DOI: 10.1038/s41564-025-02138-w

Related EMDB entry:

EMD-48323

Deposited:

2025-09-23

Released:

2025-11-13

Last modified:

2025-11-13

Imageset size:

497.61 GB

Imageset DOI:

10.6019/EMPIAR-13082

Experimental metadata:

Download xml json

Compressed by PDBj:

Image formats and pixel types shown below are those of the original, non-compressed files.

Movies in this entry (Movies/FoilHole_*.mrc) were compressed to TIFF by EMPIAR Japan to save space and bandwidth.
The compression is lossless in that all pixel intensities remain exactly the same after decompression.
However, some metadata in the MRC header were lost.
The original files before compression are available from EMPIAR EBI.

Original size:   1,637,346,724 kilobytes
Compressed size:   390,739,510 kilobytes

Contains:

micrographs - multiframe
micrographs - single frame

Image Sets

1. Unaligned multi-frame micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

2355

Image size:

(3838, 3710)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.854, 0.854)

Details:

Unaligned multi-frame micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus. Data were collected on a Titan Krios G3 electron microscope operating at 300 kV and equipped with a Gatan BioContinuum energy filter with a 20-eV slit width. All images were collected at a nominal magnification of 165,000x in EF-TEM mode (with a calibrated pixel size of 0.854 Å) on a Gatan K2 detector direct electron detector. Micrographs were acquired in MRC format with a cumulative electron exposure of 65 electrons/Å2 with a defocus range of − 1.0 to − 2.5 µm. Data were collected automatically using EPU with aberration free image shift.

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2. Aligned micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

2355

Image size:

(3838, 3710)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.854, 0.854)

Details:

Aligned micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus. Data were collected on a Titan Krios G3 electron microscope operating at 300 kV and equipped with a Gatan BioContinuum energy filter with a 20-eV slit width. All images were collected at a nominal magnification of 165,000x in EF-TEM mode (with a calibrated pixel size of 0.854 Å) on a Gatan K2 detector direct electron detector. Micrographs were acquired in MRC format with a cumulative electron exposure of 65 electrons/Å2 with a defocus range of − 1.0 to − 2.5 µm. Data were collected automatically using EPU with aberration free image shift.

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)

3. Gain file for motion correction of unaligned micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

Image size:

(3838, 3710)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.854, 0.854)

Details:

Gain file for motion correction of unaligned micrographs of the IFIT2-IFIT3 heterodimer from Mus musculus.

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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Citations

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Deng Y, Wang S, Xiang M, Li Y, Zhuo L, Cao D, Fu X, Zou Q. (2026)

prismPYP: Power-spectrum and image domain learning for self-supervised micrograph evaluation.

He L, Bartesaghi A. (2026)

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Fonseca N, Duraisamy AK, Wang Z, Somasundharam S, Tayebinia M, de Oliveira LC, Ma M, Turner J, Patwardhan A, Kleywegt GJ, Hartley M, Morris KL. (2026)

CryoVirusDB: An Annotated Dataset for AI-Based Virus Particle Identification in Cryo-EM Micrographs.

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

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.

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

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

Zeng B, Liu S, Cheng S, Xu G, Fan H. (2026)

Point cloud deformation modeling for particle selection following cryo-EM 2D classification.

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

ICECREAM: high-fidelity equivariant cryo-electron tomography.

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)