EMPIAR-13388 - Cryo-EM micrographs of the clathrin adaptor complex AP-2 and the assembly chaperone CCDC32; dataset contains multiple assembly and conformational states [multiple data sets in TIFF format]

EMPIAR-13388

Cryo-EM micrographs of the clathrin adaptor complex AP-2 and the assembly chaperone CCDC32; dataset contains multiple assembly and conformational states [multiple data sets in TIFF format]

Publication:

CCDC32 collaborates with the membrane to assemble the AP-2 clathrin adaptor complex

Sloan DE, Yanagisawa H, Kikkawa M, Baker RW

bioRxiv (2025)

PMID: 40799577

DOI: 10.1101/2025.08.05.668722

Related EMDB entry:

EMD-71905 EMD-71914 EMD-71909 EMD-71913 EMD-71907 EMD-71906 EMD-71910 EMD-71912 EMD-71911

Deposited:

2026-03-13

Released:

2026-05-02

Last modified:

2026-05-02

Imageset size:

17.71 TB

Imageset DOI:

10.6019/EMPIAR-13388

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Raw, aligned cryo-EM micrographs of the clathrin adaptor complex AP-2 bound to CCDC32 - dataset 1

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

31870

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.657, 0.657)

Details:

This deposition contains two datasets, collected on the same microscope with the same settings. The datasets come from two grids made during the same freezing session, differing only in the amount of time the proteins were allowed to incubate before freezing (dataset 1 = short incubation; dataset 2 = long incubation).

Aligned, dose-weighted micrographs from cryoSPARC v4.7.0 are also included for each dataset.

The dataset contains at least three distinct assemblies: AP-2 in the closed conformation; AP-2 bound to CCDC32 in a "bowl" conformation; and AP-2 bound to CCDC32 in the "cargo-like" conformation. The datasets only differ in the relative proportion of these three assemblies.

keV - 300
Cs - 2.7
Ac - 0.1
Angpix = 0.657
Frames - 60
Total dose - 60 e-/A2

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2. Raw, aligned cryo-EM micrographs of the clathrin adaptor complex AP-2 bound to CCDC32 - dataset 2

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

36778

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.657, 0.657)

Details:

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)

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Citations

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

He L, Bartesaghi A. (2026)

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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)

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

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

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

ICECREAM: high-fidelity equivariant cryo-electron tomography.

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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)