EMPIAR-10078 - Volta phase plate with defocus cryo-EM dataset of Thermoplasma acidophilum 20S proteasome [427 multi-frame micrographs composed of 24 frames each in TIFF format]

EMPIAR-10078

Volta phase plate with defocus cryo-EM dataset of Thermoplasma acidophilum 20S proteasome [427 multi-frame micrographs composed of 24 frames each in TIFF format]

Publication:

Using the Volta phase plate with defocus for cryo-EM single particle analysis

Danev R, Tegunov D, Baumeister W

bioRxiv (---)

DOI: 10.1101/085530

Related EMDB entry:

EMD-3457 EMD-3456 EMD-3455

Deposited:

2016-11-03

Released:

2016-11-10

Last modified:

2016-11-10

Imageset size:

92.54 GB

Imageset DOI:

10.6019/EMPIAR-10078

Experimental metadata:

Download xml json

Version history:

2017-01-03

REL

Added the citation information.

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame micrographs of 20S proteasome acquired with a Volta phase plate and defocus

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

427

Image size:

(7676, 7420)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.53, 0.53)

Details:

The movies were acquired with SerialEM as dark-subtracted but non-gain-normalized stacks and saved as LZW-compressed TIFFs. The gain reference is in the "SuperRef_20S_000_Mar28_14.49.23.mrc" file. "MotionCor2_patch9_DW1.sh" is an example shell script for using MotionCor2 to gain normalize, align and dose-weight the movies. "micrographs_ctf.star" is a Relion 2.0 .star file containing the CTF fit results from ctffind4 v4.1.5. "particles.star" is a Relion 2.0 .star file containing particle coordinates and CTF fit parameters. Other details about the dataset are in "dataset_parameters.txt".
The data was used for three reconstruction strategies. All frames were used in the Relion particle polishing and Warp approaches. The first two frames were discarded in the MotionCor2 approach.

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Citations

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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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