2dx_automator: Implementation of a semiautomatic high-throughput high-resolution cryo-electron crystallography pipeline

Scherer, Sebastian and Kowal, Julia and Chami, Mohamed and Dandey, Venkata and Arheit, Marcel and Ringler, Philippe and Stahlberg, Henning. (2014) 2dx_automator: Implementation of a semiautomatic high-throughput high-resolution cryo-electron crystallography pipeline. Journal of Structural Biology, 186 (2). pp. 302-307.

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Official URL: http://edoc.unibas.ch/dok/A6263209

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The introduction of direct electron detectors (DED) to cryo-electron microscopy has tremendously increased the signal-to-noise ratio (SNR) and quality of the recorded images. We discuss the optimal use of DEDs for cryo-electron crystallography, introduce a new automatic image processing pipeline, and demonstrate the vast improvement in the resolution achieved by the use of both together, especially for highly tilted samples. The new processing pipeline (now included in the software package 2dx) exploits the high SNR and frame readout frequency of DEDs to automatically correct for beam-induced sample movement, and reliably processes individual crystal images without human interaction as data are being acquired. A new graphical user interface (GUI) condenses all information required for quality assessment in one window, allowing the imaging conditions to be verified and adjusted during the data collection session. With this new pipeline an automatically generated unit cell projection map of each recorded 2D crystal is available less than 5min after the image was recorded. The entire processing procedure yielded a three-dimensional reconstruction of the 2D-crystallized ion-channel membrane protein MloK1 with a much-improved resolution of 5Å in-plane and 7Å in the z-direction, within 2days of data acquisition and simultaneous processing. The results obtained are superior to those delivered by conventional photographic film-based methodology of the same sample, and demonstrate the importance of drift-correction.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Former Organization Units Biozentrum > Structural Biology (Stahlberg)
05 Faculty of Science > Departement Biozentrum > Services Biozentrum > BioEM Lab (Chami)
UniBasel Contributors:Stahlberg, Henning and Chami, Mohamed and Ringler, Philippe
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:15 Mar 2023 11:06
Deposited On:20 Jun 2014 07:56

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