EMPIAR-13426 - Cryo-EM SPA dataset of arginine oxidase from Pseudomonas sp. TRU 7192 [5035 multi-frame micrographs composed of 40 frames each in TIFF format]

EMPIAR-13426

Cryo-EM SPA dataset of arginine oxidase from Pseudomonas sp. TRU 7192 [5035 multi-frame micrographs composed of 40 frames each in TIFF format]

Publication:

Open and closed structures of L-arginine oxidase by cryo-electron microscopy and X-ray crystallography

Yamaguchi H, Takahashi K, Numoto N, Suzuki H, Tatsumi M, Kamegawa A, Nishikawa K, Asano Y, Mizukoshi T, Miyano H, Fujiyoshi Y, Sugiki M

Journal of biochemistry (2025)

PMID: 39420599

DOI: 10.1093/jb/mvae070

Related EMDB entry:

EMD-36635

Deposited:

2024-12-05

Released:

2026-06-17

Last modified:

2026-06-17

Imageset size:

916.40 GB

Imageset DOI:

10.6019/EMPIAR-13426

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Structure of arginine oxidase from Pseudomonas sp. TRU 7192

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

5035

Image size:

(3710, 3838)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(0.96, 0.96)

Details:

- Microscope: JEOL JEM-Z320FHC
- Acceleration voltage (kV): 300
- Spherical aberration (mm) : 3.4
- Detector: Gatan K2 Summit
- Please ignore the pixel size in the header; use 0.96 A/px.
- Dose per frame (e-/A^2): 1.74
- Number of frames per image: 40
- Gain reference (MRC format) is included in the folder with the movie files. The gain was created from the dataset by using the 'relion_estimate_gain' command and can be used in RELION without flipping/rotation. In CryoSPARC, select "flip gain ref in Y".
- Please ignore the pixel size in the header; use 0.96 A/px.

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Citations

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Yu C, Xu Z, Zeng Q, Wan X, El-Messiry H, Zhang F, Han R. (2026)

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Deng Y, Wang S, Xiang M, Li Y, Zhuo L, Cao D, Fu X, Zou Q. (2026)

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

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[2026-06-17]

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