EMPIAR-11525 - Ex vivo murine AApoAII amyloid fibril [3083 multi-frame micrographs composed of 40 frames each in TIFF format]

EMPIAR-11525

Ex vivo murine AApoAII amyloid fibril [3083 multi-frame micrographs composed of 40 frames each in TIFF format]

Publication:

Insights into the Structural Basis of Amyloid Resistance Provided by Cryo-EM Structures of AApoAII Amyloid Fibrils

Andreotti G, Baur J, Ugrina M, Pfeiffer PB, Hartmann M, Wiese S, Miyahara H, Higuchi K, Schwierz N, Schmidt M, Fändrich M

Journal of molecular biology 436 (2024)

PMID: 38199491

DOI: 10.1016/j.jmb.2024.168441

Related EMDB entry:

EMD-17104 EMD-17105

Deposited:

2023-03-31

Released:

2024-03-18

Last modified:

2024-03-18

Imageset size:

510.55 GB

Imageset DOI:

10.6019/EMPIAR-11525

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame micrographs of ex vivo murine AApoAII fibrils

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

3083

Image size:

(3838, 3710)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(None, None)

Details:

Krios1 Quantum-K2
Cs 2.7
300kV EFTEM nanpprobe
x130k spot 8 beam size 620nm
c2=50 objective_aperture=100

GIF-K2 counting
12s exposure 40 frames
total dose at the sample 42.70e/A2
1 pixel = 1.04A
dose rate ~3 e/pix/s

defocus range -1.2 to -2.5

Gain reference is already applied to the micrographs and the NOTE.txt contains the EM information.
Thumbnails and power spectra (/data/thumbs) are provided, as well as the defect files (/data/data).
The ManualPick folder contains the coordinates for two different fibril morphologies. Coordinates files are divided in part_1 and part_2 for each morphologies and they are connected to micrographs with different defect files.

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)

Browse All Files

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)

Quick Links

Talks and Tutorials

EMPIAR Quick tour

Statistics

Publications

Re-use case study

EMPIAR in the news

Claim entries to your ORCiD

COVID-19 Data Portal

EMDB

PDBe

BioImage Archive

EMNavigator@PDBj

PDBj

RCSB@PDBj

EMDataResoruce@RCSB,EMDB,NCMI

Citations

Structural basis for HIV-1 antagonism of host APOBEC3G via Cullin E3 ligase.

Ito F, Alvarez-Cabrera AL, Liu S, Yang H, Shiriaeva A, Zhou ZH, Chen XS. (2023)

The 2023 Nucleic Acids Research Database Issue and the online molecular biology database collection.

Rigden DJ, Fernández XM. (2023)

EMPIAR: the Electron Microscopy Public Image Archive.

Iudin A, Korir PK, Somasundharam S, Weyand S, Cattavitello C, Fonseca N, Salih O, Kleywegt GJ, Patwardhan A. (2023)

CLEMSite, a software for automated phenotypic screens using light microscopy and FIB-SEM.

Serra Lleti JM, Steyer AM, Schieber NL, Neumann B, Tischer C, Hilsenstein V, Holtstrom M, Unrau D, Kirmse R, Lucocq JM, Pepperkok R, Schwab Y. (2023)

Structure of a RecT/Redβ family recombinase in complex with a duplex intermediate of DNA annealing.

Caldwell BJ, Norris AS, Karbowski CF, Wiegand AM, Wysocki VH, Bell CE. (2022)

See all citations

Protein Data Bank Japan News

[2024-04-24]

354 new PDB entries have been released on 2024-04-24.

[2024-04-09]

[wwPDB] CASP16 Call for Targets

[2024-04-02]

Announcement of the PDBj Newsletter Vol.24 release

[2024-03-21]

[wwPDB] Paper Published on NMR Restraint Validation

[2024-03-13]

[wwPDB] Paper Published on CryoEM Archiving and Validation Recommendations

[2024-03-06]

[wwPDB] Poster Prize Awarded at The Biophysical Society Meeting

[2024-02-15]

Notice of Service Suspension (ASH, DASH, SeSAW, MAFFTash, Spanner, SFAS)

[2024-02-13]

[wwPDB] Biocurator Milestone: >10,000 Depositions Processed

[2024-02-06]

[wwPDB] Preprint Published on NMR Restraint Validation

[2024-02-05]

[wwPDB] Preprint Published on CryoEM Archiving and Validation Recommendations

See all news