EMPIAR-12568 - Cryo electron micrographs of Arabidopsis thaliana H2A.W-nucleosome with Arabidopsis native 147bp DNA 15.2.2 [multiple data sets in TIFF and MRCS formats]

EMPIAR-12568

Cryo electron micrographs of Arabidopsis thaliana H2A.W-nucleosome with Arabidopsis native 147bp DNA 15.2.2 [multiple data sets in TIFF and MRCS formats]

Publication:

Structural and functional interrelationship of histone H2A and its variants H2A.Z and H2A.W in Arabidopsis

Wang Y, Wu J, Yang S, Li X, Wang J, Lv Q, Zhu X, Lu G, Zhang J, Shen W, Liu B, Lin J, Dong A

bioRxiv (2024)

DOI: 10.1101/2024.12.03.626673

Related EMDB entry:

EMD-62037 EMD-62038

Deposited:

2025-02-14

Released:

2025-07-25

Last modified:

2025-07-25

Imageset size:

1.33 TB

Imageset DOI:

10.6019/EMPIAR-12568

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
picked particles - single frame - unprocessed

Image Sets

1. Cryo electron micrographs of Arabidopsis thaliana H2A.W-nucleosome with Arabidopsis native 147bp DNA 15.2.2

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

1521

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(1.072, 1.072)

Details:

These micrographs doesn't need a gain file.

Files:

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2. Particles for cryo electron micrographs of Arabidopsis thaliana H2A.W-nucleosome with Arabidopsis native 147bp DNA 15.2.2

Category:

picked particles - single frame - unprocessed

Image format:

MRCS

No. of images or tilt series:

1497

Image size:

(256, 256)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(1.072, 1.072)

Details:

The folder cryosparc/J1 is "Imported particles" of CryoSPARC-v4.3.1, and the particles is imported from "Particle extraction" of relion-v3.1.3.
The folder cryosparc/J18 is "Homogeneous Refinement" of CryoSPARC-v4.3.1, and this "Homogeneous Refinement" which imposed C1 symmetry is at a resolution of 3.05 angstrom.
The folder cryosparc/J22 is "Homogeneous Refinement" of CryoSPARC-v4.3.1, and this "Homogeneous Refinement" which imposed C2 symmetry is at a resolution of 2.81 angstrom.

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

Small LEA proteins mitigate air-water interface damage to fragile cryo-EM samples during plunge freezing.

Abe KM, Li G, He Q, Grant T, Lim CJ. (2024)

Outer membrane protein assembly mediated by BAM-SurA complexes.

Fenn KL, Horne JE, Crossley JA, Böhringer N, Horne RJ, Schäberle TF, Calabrese AN, Radford SE, Ranson NA. (2024)

Ubiquitinated histone H2B as gatekeeper of the nucleosome acidic patch.

Hicks CW, Rahman S, Gloor SL, Fields JK, Husby NL, Vaidya A, Maier KE, Morgan M, Keogh MC, Wolberger C. (2024)

Molecular recognition of an odorant by the murine trace amine-associated receptor TAAR7f.

Gusach A, Lee Y, Khoshgrudi AN, Mukhaleva E, Ma N, Koers EJ, Chen Q, Edwards PC, Huang F, Kim J, Mancia F, Veprintsev DB, Vaidehi N, Weyand SN, Tate CG. (2024)

The novel ribosome biogenesis inhibitor usnic acid blocks nucleolar pre-60S maturation.

Kofler L, Grundmann L, Gerhalter M, Prattes M, Merl-Pham J, Zisser G, Grishkovskaya I, Hodirnau VV, Vareka M, Breinbauer R, Hauck SM, Haselbach D, Bergler H. (2024)

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