EMPIAR-12963 - Melbournevirus Mini variant Nucleosome [multiple data sets in EER and MRC formats]

EMPIAR-12963

Melbournevirus Mini variant Nucleosome [multiple data sets in EER and MRC formats]

Publication:

Melbournevirus encodes a shorter H2B-H2A doublet histone variant that forms structurally distinct nucleosome structures

Villalta A, Bisio H, Toner CM, Abergel C, Luger K

Nature communications 16 (2025)

PMID: 40715086

DOI: 10.1038/s41467-025-62031-2

Related EMDB entry:

EMD-45966

Deposited:

2025-08-14

Released:

2025-12-07

Last modified:

2025-12-07

Imageset size:

3.58 TB

Imageset DOI:

10.6019/EMPIAR-12963

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
micrographs - single frame
picked particles - multiframe - processed
reconstructed volumes

Image Sets

1. Unaligned multi-frame micrographs

Category:

micrographs - multiframe

Image format:

EER

No. of images or tilt series:

2894

Image size:

(8192, 8192)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.97, 0.97)

Details:

Raw EER micrographs from Falcon 4 detector, acquired with EPU and a total dose of 50 e-/Å2

Files:

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2. Motion-corrected and dose-weighted micrographs

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

2894

Image size:

(4096, 4096)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.49, 0.49)

Details:

Motion-corrected and dose-weighted micrographs

Files:

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3. Gain Reference file

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

Image size:

(8192, 8192)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.97, 0.97)

Details:

Gain reference file for motion correction

Files:

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4. Final particles used for reconstruction

Category:

picked particles - multiframe - processed

Image format:

MRC

No. of images or tilt series:

36051

Image size:

(448, 448)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.49, 0.49)

Details:

Selected particles used for reconstruction

Files:

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5. CryoSPARC job of the final 3D reconstruction

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

36051

Image size:

(None, None)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(None, None)

Details:

CryoSPARC job of the final 3D reconstruction

Files:

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Citations

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)

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)