EMPIAR-11211 - Single-particle cryo-EM dataset of ALC1 bound to an asymmetric, site-specifically PARylated nucleosome [multiple data sets in TIFF and MRCS formats]

EMPIAR-11211

Single-particle cryo-EM dataset of ALC1 bound to an asymmetric, site-specifically PARylated nucleosome [multiple data sets in TIFF and MRCS formats]

Publication:

TBD

Bacic L

(---)

PMID: 38307862

DOI: 10.1038/s41467-024-45237-8

Related EMDB entry:

EMD-15777

Deposited:

2022-09-06

Released:

2023-09-21

Last modified:

2024-02-27

Imageset size:

8.31 TB

Imageset DOI:

10.6019/EMPIAR-11211

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
picked particles - single frame - processed

Image Sets

1. Raw movies from grid 1

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

13668

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.8617, 0.8617)

Details:

Movies from grid 1 and final set of particles from both grids.

Files:

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2. Raw movies from grid 2

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

8487

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.8617, 0.8617)

Details:

Movies from grid 2 and final set of particles from both grids.

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.

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3. Final set of particles after refinement in cryoSPARC

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

212256

Image size:

(256, 256)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.8617, 0.8617)

Details:

Final set of particles that produced the map in EMD-15777 after refinement in cryoSPARC.

Files:

This entry cannot be downloaded from PDBj.

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

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4. Intermediate set of particles after classification in RELION, before 3DVA clustering in cryoSPARC

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

739042

Image size:

(256, 256)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.8617, 0.8617)

Details:

Intermediate set of particles obtained after classification in RELION. This was the input of cryoSPARC 3DVA and clustering.

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.

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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)