EMPIAR-11521 - CryoEM of E. coli RNA polymerase Sigma N bound to mismatch DNA fragment dhsU36mm2 (-12A) [multiple data sets in TIFF, MRC and MRCS formats]

EMPIAR-11521

CryoEM of E. coli RNA polymerase Sigma N bound to mismatch DNA fragment dhsU36mm2 (-12A) [multiple data sets in TIFF, MRC and MRCS formats]

Publication:

A general mechanism for transcription bubble nucleation in bacteria

Mueller AU, Chen J, Wu M, Chiu C, Nixon BT, Campbell EA, Darst SA

Proceedings of the National Academy of Sciences of the United States of America 120 (2023)

PMID: 36972428

DOI: 10.1073/pnas.2220874120

Related EMDB entry:

EMD-28783 EMD-28785 EMD-28784

Deposited:

2023-04-05

Released:

2023-05-16

Last modified:

2023-05-16

Imageset size:

8.23 TB

Imageset DOI:

10.6019/EMPIAR-11521

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
micrographs - single frame
picked particles - single frame - processed

Image Sets

1. Unaligned micrographs (raw movies)

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

7101

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.54, 0.54)

Details:

FEI Titan Krios + Gatan K3, super-resolution, image shift, BioQuantum energy filter 20 eV slit, Cs correction; accelerating voltage 300 kV; dose 30 e-/px(detector)/s; dose 7.5 e-/px(image)/s; pixel size 1.08 A/px(detector); pixel size 0.54 A/px(image); exposure 2.5 s; dose/frame 1.286008 e-/A^2/frame; frame time 0.05 s; total dose 64.30041 e-/A^2; total frames 50; defocus range -1 to -2.5um; gain correction was applied on the fly during collection
Picked particles star file "EsN-dhsU36mm2_particles_picked.star" ("aux_files" folder) contains all particles picked initially and is only provided for reference.

Files:

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2. Motion-corrected micrographs

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

7101

Image size:

(5760, 4092)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.08, 1.08)

Details:

See also the "corrected_micrographs.star" file in the "aux_files" folder.
Raw micrographs were binned by 2 during motion correction.
Picked particles star file "EsN-dhsU36mm2_particles_picked.star" ("aux_files" folder) contains all particles picked initially and is only provided for reference.

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.

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

3. Non-dose-weighted motion-corrected micrographs

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

7101

Image size:

(5760, 4092)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.08, 1.08)

Details:

non-dose-weighted micrographs from motioncor2 output

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.

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4. Particle images for map 1

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

7018

Image size:

(256, 256)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.08, 1.08)

Details:

Particle stack for map 1 after Bayesian polishing (see "EsN-dhsU36mm2_particles_map1.star" (final refinement parameters) and "EsN-dhsU36mm2_particles_shiny.star" (output from Bayesian Polishing) in "aux_files" folder)

Files:

This entry cannot be downloaded from PDBj.

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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. Particle images for map 2 (subtracted particles)

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

398

Image size:

(256, 256)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.08, 1.08)

Details:

Particle stack for map 2 after masked subtraction (see "EsN-dhsU36mm2_particles_map2.star" (final refinement parameters) and "EsN-dhsU36mm2_particles_original_map2.star" (original particles) in "aux_files" folder)

Files:

This entry cannot be downloaded from PDBj.

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Download a list of selected files.

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