EMPIAR-12070 - Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) [ three datasets, in TIF format] [multiple data sets in TIFF format]

EMPIAR-12070

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) [ three datasets, in TIF format] [multiple data sets in TIFF format]

Publication:

Regulation of translation by ribosomal RNA pseudouridylation

Zhao Y, Rai J, Li H

Science advances 9 (2023)

PMID: 37595043

DOI: 10.1126/sciadv.adg8190

Related EMDB entry:

EMD-28642 EMD-28632 EMD-28633 EMD-28636 EMD-28643 EMD-28634 EMD-28635 EMD-28610

Deposited:

2024-04-17

Released:

2024-06-16

Last modified:

2024-06-16

Imageset size:

17.59 TB

Imageset DOI:

10.6019/EMPIAR-12070

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Unalinged multi-frame micrographs of Hypopseudouridylated yeast 80S bound with TSV-IRES RNA [initiation complex]

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

3878

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.53, 0.53)

Details:

Gain ref is save in data/Initiation_Complex/gain/ folder.
Total dose 60 e.
no rotation, Flip upsidedown for motioncor in RELION; no rotation, no flip in CryoSPARC.

Files:

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. Unalinged multi-frame micrographs of Hypopseudouridylated yeast 80S bound with TSV-IRES RNA [sordarin bound translocation complex]

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

6082

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.53, 0.53)

Details:

Gain ref is save in data/Initiation_Complex/gain/ folder.
Total dose 60 e.
no rotation, Flip upsidedown for motioncor in RELION; no rotation, no flip in CryoSPARC.

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)

3. Unalinged multi-frame micrographs of Hypopseudouridylated yeast 80S bound with TSV-IRES RNA [termination complex]

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

16443

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.53, 0.53)

Details:

Gain ref is save in data/Initiation_Complex/gain/ folder.
Total dose 60 e.
no rotation, Flip upsidedown for motioncor in RELION; no rotation, no flip in CryoSPARC.

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)

Browse All Files

Quick Links

Browse EMPIAR

Sample Preparation Widget

Volume Browser

Tomo Viewer Prototype

Claim entries to your ORCiD

Talks and Tutorials

EMPIAR Quick tour

Publications

Re-use study

Statistics

EMPIAR in the news

COVID-19 Data Portal

EMDB

BioImage Archive

PDBe

EMNavigator@PDBj

PDBj

Citations

High-resolution ab initio reconstruction enables cryo-EM structure determination of small particles

Kim K, Li H, Clarke OB. (2025)

CLEM-Reg: an automated point cloud-based registration algorithm for volume correlative light and electron microscopy.

Krentzel D, Elphick M, Domart MC, Peddie CJ, Laine RF, Shand C, Henriques R, Collinson LM, Jones ML. (2025)

CryoEMNet driven symmetry-aware molecular reconstruction through deep learning enhanced electron microscopy.

Arora S, Pan SH, Kumar S, Singh SK, Chauhan U, Alhalabi W, Arya V, Alsulami BS, Hsu CH, Chui KT, Gupta BB. (2025)

PERC: a suite of software tools for the curation of cryoEM data with application to simulation, modeling and machine learning.

Costa-Gomes B, Greer J, Juraschko N, Parkhurst J, Mirecka J, Famili M, Rangel-Smith C, Strickson O, Lowe A, Basham M, Burnley T. (2025)

Self-supervised learning for generalizable particle picking in cryo-EM micrographs.

Zamanos A, Koromilas P, Bouritsas G, Kastritis PL, Panagakis Y. (2025)

Laser flash melting cryo-EM samples to overcome preferred orientation.

Straub MS, Harder OF, Mowry NJ, Barrass SV, Hruby J, Drabbels M, Lorenz UJ. (2025)

In situ structure determination of conformationally flexible targets using nextPYP.

Liu HF, Zhou Y, Huang Q, Martin J, Bartesaghi A. (2025)

EMICSS: added-value annotations for EMDB entries.

Duraisamy AK, Fonseca N, Kleywegt GJ, Patwardhan A, Morris KL. (2025)

Global conformations of <i>Pichia pastoris</i> complex I are distinguished by the binding of a unique interdomain bridging subunit.

Lee CS, Grba DN, Wright JJ, Ivanov BS, Hirst J. (2025)

Overcoming Preferred Orientation in Cryo-EM With Ultrasonic Excitation During Vitrification

Williams HM, Curtis WA, Haubner M, Hruby J, Drabbels M, Lorenz UJ. (2025)

See all citations

Protein Data Bank Japan News

[2025-10-08]

342 new PDB entries have been released on 2025-10-08.

[2025-09-26]

[wwPDB] Introducing the first 3DEM Model-Map percentile slider to the wwPDB validation report

[2025-07-17]

[wwPDB] Transitioning to PDBx/mmCIF and Extended PDB IDs

[2025-06-25]

[wwPDB] Extension to EMDB Accession Codes

[2025-04-18]

[wwPDB] Download Snapshots of the PDB Core Archive via HTTPS, SYNC, RSYNC, or FTP

[2025-03-25]

Announcement of the PDBj Newsletter Vol.25 release

[2025-03-11]

[wwPDB] Poster Prize Awarded at The Biophysical Society Meeting

[2025-03-10]

[wwPDB] New version of PDB-IHM validation reports now include assessments of crosslinking mass spectrometry-based structure models

[2025-01-30]

[wwPDB] Take the PDBx/mmCIF User Guide Survey and Win!

[2025-01-17]

[wwPDB] PDB-Dev now PDB-IHM

See all news