EMPIAR-13152 - Complex of BREX proteins BrxB and PglZ from Salmonella typhimurium [multiple data sets in MRC and TIFF formats]

EMPIAR-13152

Complex of BREX proteins BrxB and PglZ from Salmonella typhimurium [multiple data sets in MRC and TIFF formats]

Publication:

PglZ from Type I BREX phage defence systems is a metal-dependent nuclease that forms a sub-complex with BrxB

Readshaw JJ, Doyle LA, Puiu M, Kelly A, Nelson A, Kaiser AJ, McGuire SF, Peralta Acosta J, Smith DL, Stoddard BL, Kaiser BK, Blower TR

Nucleic acids research 53 (2025)

PMID: 40548935

DOI: 10.1093/nar/gkaf540

Related EMDB entry:

EMD-49827

Deposited:

2025-04-21

Released:

2025-12-22

Last modified:

2025-12-22

Imageset size:

9.05 TB

Imageset DOI:

10.6019/EMPIAR-13152

Experimental metadata:

Download xml json

Contains:

micrographs - single frame
micrographs - multiframe

Image Sets

1. Motion corrected micrographs for dataset 1 of BrxB/PglZ

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

4679

Image size:

(5760, 4092)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.122, 1.122)

Details:

The micrographs are averages motion corrected with WARP, binning pixels from 0.561 to 1.122 Å/px. Prior to motion fitting, the gain was corrected and CTF fitted.

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 for dataset 2 of BrxB/PglZ

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

4728

Image size:

(5760, 4092)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.122, 1.122)

Details:

The micrographs are averages motion corrected with WARP, binning pixels from 0.561 to 1.122 Å/px. Prior to motion fitting, the gain was corrected and CTF fitted.

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. Unaligned multi-frame movies for dataset 2 of BrxB/PglZ

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

4731

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.561, 0.561)

Details:

The data is raw, multi-frame movies without any correction applied collected with SerialEM as LZW compressed TIFFs.

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. Unaligned multi-frame movies for dataset 1 of BrxB/PglZ

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

4676

Image size:

(11520, 8184)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.561, 0.561)

Details:

The data is raw, multi-frame movies without any correction applied collected with SerialEM as LZW compressed TIFFs.

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

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

CryoSIP: unleashing protein high-resolution Cryo-EM via semantic-instance collaborative picking.

Deng Y, Wang S, Xiang M, Li Y, Zhuo L, Cao D, Fu X, Zou Q. (2026)

prismPYP: Power-spectrum and image domain learning for self-supervised micrograph evaluation.

He L, Bartesaghi A. (2026)

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Fonseca N, Duraisamy AK, Wang Z, Somasundharam S, Tayebinia M, de Oliveira LC, Ma M, Turner J, Patwardhan A, Kleywegt GJ, Hartley M, Morris KL. (2026)

CryoVirusDB: An Annotated Dataset for AI-Based Virus Particle Identification in Cryo-EM Micrographs.

Gyawali R, Dhakal A, Wang L, Cheng J. (2026)

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.

Jones HN, Deshmukh A, Pande K. (2026)

CryoGS: High-Quality Cryo-EM Homogeneous Reconstruction by Gaussian Splatting

Zeng B, Liu S, Cheng S, Xu G, Fan H. (2026)

Point cloud deformation modeling for particle selection following cryo-EM 2D classification.

Wang X, Mo Z, Li F, Zhang F, Wan X. (2026)

ICECREAM: high-fidelity equivariant cryo-electron tomography.

Kishore V, Debarnot V, Righetto RD, Engel BD, Dokmanić I. (2026)

CryoSift: an accessible and automated CNN-driven tool for cryo-EM 2D class selection.

Schäfer JH, Calza A, Hom K, Damodar P, Peng R, Bogdanović N, Lander GC, Stagg SM, Cianfrocco MA. (2025)