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Automation of Image Processing in Electron Crystallography

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Electron Crystallography of Soluble and Membrane Proteins

Part of the book series: Methods in Molecular Biology ((MIMB,volume 955))

Abstract

Electron crystallography of membrane proteins records images and diffraction patterns of frozen-hydrated two-dimensional (2D) crystals. To reconstruct the high-resolution three-dimensional (3D) structure of a membrane protein, a multitude of images of 2D crystals have to be processed. Certain processing steps are thereby similar for batches of images that were recorded under similar conditions. Here we describe how the 2dx software package can be used to automate the processing of 2D crystal images, and how the 2D and 3D merging results can be used to iteratively reprocess the images. While the processing of 2D crystal images has been fully automated, the merging process is still semi-manual.

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Acknowledgment

This work was in part supported by the Swiss initiative for Systems Biology (SystemsX.ch, grant CINA), Swiss National Science Foundation (Grant 205321_126490), the NCCR TransCure, and the NCCR Structural Biology.

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Authors and Affiliations

  1. C-CINA, Biozentrum, University Basel, Basel, Switzerland

    Marcel Arheit, Daniel Castaño-Díez, Raphaël Thierry & Henning Stahlberg

  2. Department of Computer Sciences, Rice University, Houston, TX, USA

    Bryant R. Gipson

  3. Department of Mathematics and Computer Science, Fort Valley State University, Fort Valley, GA, USA

    Xiangyan Zeng

Authors
  1. Marcel Arheit
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  2. Daniel Castaño-Díez
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  3. Raphaël Thierry
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  4. Bryant R. Gipson
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  5. Xiangyan Zeng
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  6. Henning Stahlberg
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Corresponding author

Correspondence to Henning Stahlberg .

Editor information

Editors and Affiliations

  1. School of Biology, Georgia Institute of Technology, Ferst Dr. 310, Atlanta, 30332, Georgia, USA

    Ingeborg Schmidt-Krey

  2. , Dept. Biochemistry & Biophysics, University of California, San Francisco, 16th St. 600, San Francisco, 94158, California, USA

    Yifan Cheng

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© 2013 Springer Science+Business Media New York

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Arheit, M., Castaño-Díez, D., Thierry, R., Gipson, B.R., Zeng, X., Stahlberg, H. (2013). Automation of Image Processing in Electron Crystallography. In: Schmidt-Krey, I., Cheng, Y. (eds) Electron Crystallography of Soluble and Membrane Proteins. Methods in Molecular Biology, vol 955. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-176-9_18

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  • DOI: https://doi.org/10.1007/978-1-62703-176-9_18

  • Published:

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-62703-175-2

  • Online ISBN: 978-1-62703-176-9

  • eBook Packages: Springer Protocols

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