Japan Agency for Medical Research and Development (AMED)
the Cyclic Innovation for Clinical Empowerment (CiCLE)
Japan
Japan Society for the Promotion of Science
24657111
Japan
Japan Science and Technology
SENTAN
Japan
Citation
Journal: J Struct Biol / Year: 2019 Title: A new cryo-EM system for single particle analysis. Authors: Tasuku Hamaguchi / Saori Maki-Yonekura / Hisashi Naitow / Yoshinori Matsuura / Tetsuya Ishikawa / Koji Yonekura / Abstract: A new cryo-EM system has been investigated for single particle analysis of protein structures. The system provides parallel illumination of a highly-coherent 300 kV electron beam from a cold-field ...A new cryo-EM system has been investigated for single particle analysis of protein structures. The system provides parallel illumination of a highly-coherent 300 kV electron beam from a cold-field emission gun, and boosts image contrast with an in-column energy filter and a hole-free phase plate. It includes motorized cryo-sample loading and automated liquid-nitrogen filling for cooling multiple samples. In this study, we describe gun and electron beam characteristics, and demonstrate the suitability of this system for single particle reconstructions. The performance of the system is tested on two examples, a spherical virus and apoferritin. GUI programs have also been developed to control and monitor the system for correct illumination, imaging with less ellipticity and steady magnification, and timing of flashing and liquid-nitrogen filling. These programs are especially useful for efficient application of the system to single particle cryo-EM.
History
Deposition
Apr 19, 2019
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Header (metadata) release
May 15, 2019
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Map release
May 15, 2019
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Update
Jun 19, 2019
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Current status
Jun 19, 2019
Processing site: PDBj / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-50 / Number real images: 1292 / Average exposure time: 10.0 sec. / Average electron dose: 101.0 e/Å2
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Image processing
Particle selection
Number selected: 210065
CTF correction
Software - Name: CTFFIND (ver. 4.1.10)
Initial angle assignment
Type: ANGULAR RECONSTITUTION
Final angle assignment
Type: MAXIMUM LIKELIHOOD
Final reconstruction
Applied symmetry - Point group: O (octahedral) / Resolution.type: BY AUTHOR / Resolution: 1.9 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0) / Number images used: 36855
FSC plot (resolution estimation)
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