EMPIAR-13054 - Single particle reconstruction of LGTV TP21 strain [7111 multi-frame micrographs composed of 40 frames each in MRC format]

EMPIAR-13054

Single particle reconstruction of LGTV TP21 strain [7111 multi-frame micrographs composed of 40 frames each in MRC format]

Publication:

Influence of the pre-membrane and envelope proteins on structure, pathogenicity, and tropism of tick-borne encephalitis virus

Rosendal E, Bisikalo K, Willekens SMA, Lindgren M, Holoubek J, Svoboda P, Lappalainen A, Könighofer E, Mirgorodskaya E, Nordén R, Morini F, Rosenbaum W, Růžek D, Ahlgren U, Anastasina M, Merits A, Butcher SJ, Nilsson E, Överby AK

Journal of virology 99 (2025)

PMID: 40827915

DOI: 10.1128/jvi.00870-25

Related EMDB entry:

EMD-50624

Deposited:

2025-10-13

Released:

2025-10-20

Last modified:

2025-10-20

Imageset size:

4.04 TB

Imageset DOI:

10.6019/EMPIAR-13054

Experimental metadata:

Download xml json

Compressed by PDBj:

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

MRC movies (FoilHole_*_Fractions.mrc) in this entry were compressed by bzip2 (pbzip2)
by EMPIAR Japan to save space and bandwidth.

Some programs (e.g. RELION >= 4.0.1 and CryoSPARC) can process compressed movies without explicit
decompression. For other programs, movies have to be decompressed beforehand. In this case,
you might want to convert decompressed MRC movies into TIFF to save your local storage.

Original size:   9,011,207,111 kilobytes
Compressed size: 4,339,845,251 kilobytes

Contains:

micrographs - multiframe

Image Sets

1. Unaligned movies of the purified LGTV TP21 strain

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

7111

Image size:

(4096, 4096)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(0.96, 0.96)

Details:

Micrographs collected of a Talos Arctica 200 keV, equipped with a Falcon 3. Spherical aberration 2.7, total dose 40. Most particles come from the smallest datset, labelled "set_airfuge"

Files:

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

Depending on the number and size of files to be downloaded, this can take an enormous amount of time. Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.

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)

Browse All Files

Quick Links

Browse EMPIAR

Sample Preparation Widget

Volume Browser

Tomo Viewer Prototype

Claim entries to your ORCiD

Talks and Tutorials

EMPIAR Quick tour

Publications

Re-use study

Statistics

EMPIAR in the news

COVID-19 Data Portal

EMDB

BioImage Archive

PDBe

EMNavigator@PDBj

PDBj

Citations

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

He L, Bartesaghi A. (2026)

CryoSIP: unleashing protein high-resolution Cryo-EM via semantic-instance collaborative picking.

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