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3D reconstruction of 2D crystals

Published: 24 March 2011 Publication History

Abstract

High Resolution three-dimensional (3D) reconstruction of several proteins has been achieved from two-dimensional (2D) crystals by electron crystallography structure determination. However, for badly ordered 2D crystals, especially non-flat crystals, Fourier-filtering based methods fail, while single particle processing approaches can produce reconstructions of superior resolution by aligning particles in 3D space. We have investigated a single particle processing approach combined with the crystallographic method to generate images centered on the unit cells of 2D crystal images. The implemented software uses the predictive lattice node tracking in 2dx/MRC software to extract particles from the microscope images. These particles are then subjected to a local contrast transfer function (CTF) correction. The tilt geometry obtained in the 2dx software is used to initialize the Euler angles, which along with translations are then refined by a single particle processing approach. Finally, iterative transform algorithms, namely the error reduction algorithm and the hybrid input-output algorithm, are applied to retrieve missing information in the previously obtained 3D reconstruction. Compared with conventional single particle processing for randomly oriented particles, the required computational costs are greatly reduced as the 2D crystals restrict the parameter search space. Preliminary results from a 3D reconstruction of the membrane protein GlpF suggest that the iterative transform process improves 3D resolution.

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cover image ACM Conferences
ACMSE '11: Proceedings of the 49th annual ACM Southeast Conference
March 2011
399 pages
ISBN:9781450306867
DOI:10.1145/2016039
Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]

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Publication History

Published: 24 March 2011

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Author Tags

  1. 3D reconstruction
  2. electron crystallography
  3. error reduction algorithm
  4. hybrid input-output algorithm
  5. single particle processing

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ACM SE '11
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ACM SE '11: ACM Southeast Regional Conference
March 24 - 26, 2011
Georgia, Kennesaw

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