EMPIAR-11989 - Alligator haemoglobin in oxy form [multiple data sets in TIFF format]

EMPIAR-11989

Alligator haemoglobin in oxy form [multiple data sets in TIFF format]

Publication:

A unique allosteric property of crocodilian haemoglobin revealed by cryo-EM

Takahashi K, Lee Y, Fago A, Bautista NM, Storz JF, Kawamoto A, Kurisu G, Nishizawa T, Tame JRH

(---)

DOI: 10.1038/s41467-024-49947-x

Related EMDB entry:

EMD-37572

Deposited:

2024-03-07

Released:

2024-08-11

Last modified:

2024-08-11

Imageset size:

2.63 TB

Imageset DOI:

10.6019/EMPIAR-11989

Experimental metadata:

Download xml json

Deposited via PDBj

Contains:

micrographs - multiframe

Image Sets

1. Imageset 1

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

7953

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.51, 0.51)

Details:

- Please use gain.tiff as a gain reference without flipping or rotation.
- The pixel size in the image header (1.00 Å/px) is not accurate. The right value is 0.51 Å/px.
- The flux is 58.4 e/A^2, 54 frames

Files:

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2. Imageset 2

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

2673

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.51, 0.51)

Details:

Files:

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. Imageset 3

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

1425

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.51, 0.51)

Details:

- Please use gain.tiff as a gain reference without flipping or rotation.
- The pixel size in the image header (1.00 Å/px) is not accurate. The right value is 0.51 Å/px.
- The flux is 60.0 e/A^2, 54 frames

Files:

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. Imageset 4

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

4005

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.51, 0.51)

Details:

Files:

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)

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)

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)