EMPIAR-10712 - Transmission electron micrographs of mouse RNF213 incubated with ATPγS [multiple data sets in TIFF format]

このエントリはPDBjのストレージからは削除されました。 Please download it from EMPIAR-EBI.

EMPIAR-10712

Transmission electron micrographs of mouse RNF213 incubated with ATPγS [multiple data sets in TIFF format]

Publication:

E3 ubiquitin ligase RNF213 employs a non-canonical zinc finger active site and is allosterically regulated by ATP

Ahel J, Clausen T, Virdee S, Fletcher AJ, Grabarczyk DB, Deszcz L, Lehner A, Roitinger E

BiorXiv (---)

Related EMDB entry:

EMD-12932

Deposited:

2020-06-17

Released:

2022-06-14

Last modified:

2022-06-14

Imageset size:

2.34 TB

Imageset DOI:

10.6019/EMPIAR-10712

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. unaligned multi-frame micrographs from a dataset collected without grid tilting

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

5950

Image size:

(3838, 3710)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(1.04, 1.04)

Details:

set1_noTilt/raw_micrographs/ == unaligned multi-frame micrographs, not gain-corrected
==
set1_noTilt/set1_GainReference.mrc == gain reference for the dataset
set1_noTilt/set1_micrographs_ctf.star == relion 3.1 star file describing the gain-corrected dose-weighed motion-corrected micrographs
set1_noTilt/micrographs_ctf_motioncorr/ == gain-corrected dose-weighed motion-corrected micrographs
==
set1_noTilt/coordinates_initial_cryolo/ == particle coordinates picked by cryolo
set1_noTilt/coordinates_final_refined/ == particle coordinates for the particles used in the final reconstruction
set1_noTilt/particles/ == particles used in the final reconstruction, Bayesian-polished by relion 3.1
==
./refined_particles_combined.star == relion 3.1 star file describing the particles after the final reconstruction, including angular assignment
==
./cryolo_YOLO_RNF213.h5 == cryolo network model used for initial particles picking
./cryolo_YOLO_RNF213_config.json == config file for the cryolo network model used for initial particles picking
./MTF_K2summit_300kV.star == MTF file used for MTF correction for this dataset

Files:

このエントリはPDBjからダウンロードすることはできません。

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)

2. unaligned multi-frame micrographs from a dataset collected with a 30 deg grid tilt

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

3055

Image size:

(5760, 4092)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(1.052, 1.052)

Details:

set2_withTilt/raw_micrographs/ == unaligned multi-frame micrographs, not gain-corrected
==
set2_withTilt/set2_GainReference.mrc == gain reference for the dataset
set2_withTilt/set2_micrographs_ctf.star == relion 3.1 star file describing the gain-corrected dose-weighed motion-corrected micrographs
set2_withTilt/micrographs_ctf_motioncorr/ == gain-corrected dose-weighed motion-corrected micrographs
==
set2_withTilt/coordinates_initial_3Dpick/ == particle coordinates picked by the relion 3D template picker
set2_withTilt/coordinates_final_refined/ == particle coordinates for the particles used in the final reconstruction
set2_withTilt/particles/ == particles used in the final reconstruction, Bayesian-polished by relion 3.1
==
./refined_particles_combined.star == relion 3.1 star file describing the particles after the final reconstruction, including angular assignment
==
./mtf_k3_standard_300kV_FL2.star == MTF file used for MTF correction for this dataset

Files:

このエントリはPDBjからダウンロードすることはできません。

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。

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)