EMPIAR-13137 - Cryo electron ptychography of the Thermoplasma acidophilum 20S proteasome [multiple data sets in MRC format]

EMPIAR-13137

Cryo electron ptychography of the Thermoplasma acidophilum 20S proteasome [multiple data sets in MRC format]

Publication:

Sampling Mismatch and Correction for Ptychographic Single-Particle Analysis

Li T, Li S, Yan Z, Shen Y, Li X

(---)

Related EMDB entry:

EMD-67291 EMD-67292

Deposited:

2025-11-23

Released:

2025-12-22

Last modified:

2025-12-22

Imageset size:

1.84 TB

Imageset DOI:

10.6019/EMPIAR-13137

Experimental metadata:

Download xml json

Contains:

diffraction images

Image Sets

1. Diffraction images of T20S proteasome

Category:

diffraction images

Image format:

MRC

No. of images or tilt series:

222

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(None, None)

Details:

These are the convergent beam electron diffraction (CBED) images of T20S proteasome in EMPAD G1 data format (.raw). Each set of CBED images corresponds to one ptychographic micrograph. Key parameters of each set of CBED images are listed below:
1. Acceleration voltage: 300 kV
2. Convergence semi-angle: ~ 3.69 mrad
3. Defocus: ~ 1.0-2.0 μm
4. Scanning step size: 10.20 Å (nominal value: 11.20 Å)
5. STEM array: 300 × 300
6. CBED image pixel size: 0.005570 1/Å
7. Number of CBED image pixels: 128 × 128

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2. Diffraction images of T20S proteasome

Category:

diffraction images

Image format:

MRC

No. of images or tilt series:

166

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(None, None)

Details:

These are the convergent beam electron diffraction (CBED) images of T20S proteasome in EMPAD G1 data format (.raw). Each set of CBED images corresponds to one ptychographic micrograph. Key parameters of each set of CBED images are listed below:
1. Acceleration voltage: 300 kV
2. Convergence semi-angle: ~ 3.69 mrad
3. Defocus: ~ 1.0-2.0 μm
4. Scanning step size: 12.25 Å (nominal value: 13.44 Å)
5. STEM array: 250 × 250
6. CBED image pixel size: 0.005570 1/Å
7. Number of CBED image pixels: 128 × 128

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)