EMPIAR-11724 - Cryo-EM structure of T. pseudonana PyShell helical tube [5994 multi-frame micrographs composed of 52 frames each in TIFF format]

EMPIAR-11724

Cryo-EM structure of T. pseudonana PyShell helical tube [5994 multi-frame micrographs composed of 52 frames each in TIFF format]

Publication:

Diatom pyrenoids are encased in a protein shell that enables efficient CO<sub>2</sub> fixation

Shimakawa G, Demulder M, Flori S, Kawamoto A, Tsuji Y, Nawaly H, Tanaka A, Tohda R, Ota T, Matsui H, Morishima N, Okubo R, Wietrzynski W, Lamm L, Righetto RD, Uwizeye C, Gallet B, Jouneau PH, Gerle C, Kurisu G, Finazzi G, Engel BD, Matsuda Y

Cell 187 (2024) 5919-5934.e19

PMID: 39357521

DOI: 10.1016/j.cell.2024.09.013

Related EMDB entry:

EMD-37751

Deposited:

2023-10-13

Released:

2024-11-12

Last modified:

2024-11-12

Imageset size:

1.36 TB

Imageset DOI:

10.6019/EMPIAR-11724

Experimental metadata:

Download xml json

Deposited via PDBj

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame micrographs of T. pseudonana PyShell helical tube

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

5994

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.87, 0.87)

Details:

For gain references, use "gain.mrc" instead of the one listed in the header.
(Rotation and flipping are also noted.)
- Cs: 0.01 mm
- HT: 300 kV
- Pixel size: 0.87 Å/pix (If the values listed in the header are different, they should be noted.)
- Dose per frame: 0.961 electron/Å^2

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)