EMPIAR-12791 - CryoEM dataset of Cas12j3 (Casphi3) in complex with crRNA and target DNA after cleavage (postcatalytic state) [4445 multi-frame micrographs composed of 40 frames each in MRC format]

EMPIAR-12791

CryoEM dataset of Cas12j3 (Casphi3) in complex with crRNA and target DNA after cleavage (postcatalytic state) [4445 multi-frame micrographs composed of 40 frames each in MRC format]

Publication:

Structure of the mini-RNA-guided endonuclease CRISPR-Cas12j3

Carabias A, Fuglsang A, Temperini P, Pape T, Sofos N, Stella S, Erlendsson S, Montoya G

Nature communications 12 (2021) 4476-na

PMID: 34294706

DOI: 10.1038/s41467-021-24707-3

Related EMDB entry:

EMD-12827

Deposited:

2025-05-08

Released:

2025-07-01

Last modified:

2025-07-01

Imageset size:

2.70 TB

Imageset DOI:

10.6019/EMPIAR-12791

Experimental metadata:

Download xml json

Compressed by PDBj:

Image formats and pixel types shown below are those of the original, non-compressed files.

--- file not found ---

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame movies of Cas12j3/crRNA/DNA complex in postcleavage state.

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

4445

Image size:

(4096, 4096)

Pixel type:

SIGNED 16 BIT INTEGER

Pixel spacing:

(0.832, 0.832)

Details:

Movies were collected in a Titan Krios G2 equipped with a TFS Falcon III camera operated at 300 keV in counting mode at a magnification of x 96000 (0.832 A˚ /px) using a total dose of 42 e/A˚ 2. Spherical Aberration: 2.7 mm. Out of the 4445 original micrographs deposited (gain-corrected, non-motion-corrected, 40 fractions), 4393 were used for picking.

Microscope Settings:
-Acceleration Voltage: 300 kV
-Pixel Size: 0.832 Å
-Spherical Aberration: 2.7 mm
-Total Exposure Dose: 42 e/Å²
-Number of Fractions: 40

Files:

選択したファイルを無圧縮zipファイルにアーカイブ化してダウンロードします。

ダウンロードするファイル数やサイズによっては、膨大な時間がかかります。また、この機能は不安定で正常に動作しない可能性があり、ダウンロードされたファイルのチェックサムは検証されません。

rsync、aspera、globus 等の利用をおすすめします。

選択したファイルのリストをダウンロードします。

rsyncコマンド等でファイルリストを指定してダウンロードすることが可能です。

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

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

He L, Bartesaghi A. (2026)

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)

Unbend, correction of local beam-induced sample motion in cryo-EM images using a 3D spline model.

Kong L, Zottig X, Elferich J, Grigorieff N. (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)

Dual site targeting of the bacterial 70S ribosome by tetracyclines.

Devarkar SC, Lomakin IB, Wang J, Grada A, Bunick CG. (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)