EMPIAR-11906 - UFM1 ribosome E3 ligase complex bound to the 60S ribosomal subunit [multiple data sets in EER and MRC formats]

EMPIAR-11906

UFM1 ribosome E3 ligase complex bound to the 60S ribosomal subunit [multiple data sets in EER and MRC formats]

Publication:

The UFM1 E3 ligase recognizes and releases 60S ribosomes from ER translocons

Makhlouf L, Peter JJ, Magnussen HM, Thakur R, Millrine D, Minshull TC, Harrison G, Varghese J, Lamoliatte F, Foglizzo M, Macartney T, Calabrese AN, Zeqiraj E, Kulathu Y

Nature 627 (2024) 437-444

PMID: 38383789

DOI: 10.1038/s41586-024-07093-w

Related EMDB entry:

EMD-18381 EMD-18382

Deposited:

2024-01-26

Released:

2024-07-12

Last modified:

2024-07-12

Imageset size:

22.58 TB

Imageset DOI:

10.6019/EMPIAR-11906

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
micrographs - single frame

Image Sets

1. Unaligned multiframe micrographs in EER format of the UFM1 ribosome E3 ligase complex bound to the 60S ribosome subunit

Category:

micrographs - multiframe

Image format:

EER

No. of images or tilt series:

59394

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(0.74, 0.74)

Details:

Dose per physical pixel/s of 6.85 used resulting in a total dose of 33.4 e/Å2. Defocus range of -0.2 to -2. For motion correction, 819 internal frames were grouped by 20 resulting in 42 EER fractions with a dose per frame of 0.8 e/A2. Gain reference file called "20221115_154105_EER_GainReference.gain".

Files:

This entry cannot be downloaded from PDBj.

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

Depending on the number and size of files to be downloaded, this can take an enormous amount of time. Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.

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)

2. Aligned micrographs of the UFM1 ribosome E3 ligase complex bound to the 60S ribosome subunit

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

59394

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(None, None)

Details:

Raw movie frames are aligned with RELION's own implementation of the MotionCor2 algorithm using an EER fractionation of 20 and dose per frame of 0.8 e/A2. 5, 5 patches were used.

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.

rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

Browse All Files

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.

rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

Quick Links

Talks and Tutorials

EMPIAR Quick tour

Statistics

Publications

Re-use case study

EMPIAR in the news

Claim entries to your ORCiD

COVID-19 Data Portal

EMDB

PDBe

BioImage Archive

EMNavigator@PDBj

PDBj

RCSB@PDBj

EMDataResoruce@RCSB,EMDB,NCMI

Citations

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)

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)

CryoTRANS: predicting high-resolution maps of rare conformations from self-supervised trajectories in cryo-EM.

Fan X, Zhang Q, Zhang H, Zhu J, Ju L, Shi Z, Hu M, Bao C. (2024)

Self-assembled superstructure alleviates air-water interface effect in cryo-EM.

Zheng L, Xu J, Wang W, Gao X, Zhao C, Guo W, Sun L, Cheng H, Meng F, Chen B, Sun W, Jia X, Zhou X, Wu K, Liu Z, Ding F, Liu N, Wang HW, Peng H. (2024)

See all citations

Protein Data Bank Japan News

[2020-07-15]

PDBj는 2020 년 7 월에 20 주년을 맞이했습니다.

[2019-02-20]

[wwPDB] 고분자결정구조 등록 시 PDBx/mmCIF 형식 파일만 허용됩니다.

[2017-11-16]

11 월 24 일 ~ 26 일, 텔레콤 센터 빌딩 (도쿄 오다이바)에서 개최되는 「사이언스 아고라 2017」에 출전합니다

[2016-01-28]

News on 2016-1-11

See all news