EMPIAR-12094 - Structural basis for translational control by the human 48S initiation complex [multiple data sets in MRC and MRCS formats]

EMPIAR-12094

Structural basis for translational control by the human 48S initiation complex [multiple data sets in MRC and MRCS formats]

Publication:

Structural basis for translational control by the human 48S initiation complex

Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N

Nature structural & molecular biology 32 (2024) 62-72

PMID: 39289545

DOI: 10.1038/s41594-024-01378-4

Related EMDB entry:

EMD-17696 EMD-17698 EMD-17699 EMD-17697 EMD-17700 EMD-17701 EMD-19128

Deposited:

2024-02-16

Released:

2025-05-04

Last modified:

2025-05-04

Imageset size:

---

Imageset DOI:

10.6019/EMPIAR-12094

Experimental metadata:

Download xml json

Contains:

micrographs - single frame
picked particles - single frame - processed

Image Sets

1. Motion-corrected, dose-weighted micrographs

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

93510

Image size:

(4096, 4096)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.16, 1.16)

Details:

Micrographs were obtained from movie-stacks of 20 frames à 2-2.5 e/A^2 by global motion-correction and dose-weighting using Relion 4.0, CTF parameters were estimated with GCTF 1.06 and particles were selected by GAUTOMATCH 0.56.
- Micrographs star-file (Micrographs with FinalResolution better 4.5A): data/corrected_micrographs.star
- Particle coordinates: data/corrected_micrographs/*_automatch.star

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2. Shiny particles, obtained by Bayesian polishing in Relion 4.0

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

1308019

Image size:

(360, 360)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.16, 1.16)

Details:

Star-files for individual particle populations are located in data/particles (see below), masks used for sorting and final refinements in data/particles/masks360.
Star-file for all shiny particles:
- data/shiny_particles360_all.star
Star-files for shiny particles of major states
- data/particles/shiny_particles360_48S-1.star
- data/particles/shiny_particles360_48S-2.star
- data/particles/shiny_particles360_48S-3.star
- data/particles/shiny_particles360_48S-4.star
- data/particles/shiny_particles360_48S-5.star
Star-files for shiny particles of eIF2, tRNA and eIFB5 substates:
- data/particles/shiny_particles360_48S-2-1.star
- data/particles/shiny_particles360_48S-2-2.star
- data/particles/shiny_particles360_48S-2-3.star
- data/particles/shiny_particles360_48S-3-1.star
- data/particles/shiny_particles360_48S-3-2.star
- data/particles/shiny_particles360_48S-3-3.star
- data/particles/shiny_particles360_48S-4-1.star
- data/particles/shiny_particles360_48S-4-2.star
- data/particles/shiny_particles360_48S-5-1.star
- data/particles/shiny_particles360_48S-5-2.star
- data/particles/shiny_particles360_48S-5-3.star
Star-files for shiny particles of eIF3bi substates:
- data/particles/shiny_particles360_48S-1_eIF3bi_majorstate.star
- data/particles/shiny_particles360_closed48S_eIF3bi_majorstate.star
- data/particles/shiny_particles360_closed48S_eIF3bi_minorstate1.star
- data/particles/shiny_particles360_closed48S_eIF3bi_minorstate2.star

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. Signal-subtracted particles - eIF3core in open 48S

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

92749

Image size:

(240, 240)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.16, 1.16)

Details:

Star-files with subtracted particles used for local refinement of eIF3core in open 48S (48S-1):
- data/subtracted_particles/subtracted_particles240_eIF3core_open48S.star
Masks used for refinements are located in data/subtracted_particles/masks240.

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)

4. Signal-subtracted particles - eIF3core in closed 48S

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

356632

Image size:

(240, 240)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.16, 1.16)

Details:

Star-files with subtracted particles used for local refinement of eIF3core in closed 48S (48S-2 to 5):
- data/subtracted_particles/subtracted_particles240_eIF3core_closed48S.star
Masks used for refinements are located in data/subtracted_particles/masks240.

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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