EMPIAR-11925 - Structural basis of human U5 snRNP late biogenesis and recycling (single particle cryo-EM dataset) [multiple data sets in EER and MRC formats]

EMPIAR-11925

Structural basis of human U5 snRNP late biogenesis and recycling (single particle cryo-EM dataset) [multiple data sets in EER and MRC formats]

Publication:

Structural basis of human U5 snRNP late biogenesis and recycling

Riabov Bassat D, Visanpattanasin S, Vorländer MK, Fin L, Phillips AW, Plaschka C

Nature structural & molecular biology (2024)

PMID: 38467876

DOI: 10.1038/s41594-024-01243-4

Related EMDB entry:

EMD-18234 EMD-18229 EMD-18235 EMD-18237 EMD-18238 EMD-18239

Deposited:

2024-01-25

Released:

2024-05-20

Last modified:

2024-05-20

Imageset size:

1.78 TB

Imageset DOI:

10.6019/EMPIAR-11925

Experimental metadata:

Download xml json

Contains:

micrographs - single frame
picked particles - single frame - processed

Image Sets

1. Motion-corrected micrographs (non-doseweighted)

Category:

micrographs - single frame

Image format:

EER

No. of images or tilt series:

23756

Image size:

(4096, 4096)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.7445, 0.7445)

Details:

Non-doseweighted micrographs used for CTF estimation

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. Motion-corrected micrographs (doseweighted)

Category:

micrographs - single frame

Image format:

EER

No. of images or tilt series:

23756

Image size:

(4096, 4096)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.7445, 0.7445)

Details:

Doseweighted micrographs

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)

3. Particles for Map 1

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

15173

Image size:

(360, 360)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.241, 1.241)

Details:

Cryosparc directory containing restacked particles for Map 1

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)

4. Particles for Map 2

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

19303

Image size:

(360, 360)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(1.241, 1.241)

Details:

Cryosparc directory containing restacked particles for Map 2

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)

5. Particles for Map 3

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

5636

Image size:

(360, 360)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(1.241, 1.241)

Details:

Cryosparc directory containing restacked particles for Map 3

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)

6. Particles for Map 4

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

6879

Image size:

(360, 360)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(1.241, 1.241)

Details:

Cryosparc directory containing restacked particles for Map 3

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)

7. Particles for Map 5 and 6

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

265427

Image size:

(360, 360)

Pixel type:

16 BIT FLOAT

Pixel spacing:

(1.241, 1.241)

Details:

Cryosparc directory containing restacked particles for Map 5 and Map 6

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

[2024-09-04]

375 new PDB entries have been released on 2024-09-04.

[2024-08-28]

[wwPDB] Biocurator Milestone: >10,000 Depositions Processed

[2024-08-15]

[wwPDB] PDB Archive Serves Structures Determined by Integrative and Hybrid Methods (IHM)

[2024-06-19]

[wwPDB] Announcing the New PDBx/mmCIF User Guide

[2024-06-11]

[wwPDB] Paper Published on NextGen Archive