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Precise improvement of ISAF reconstruction algorithm based on the computational radius of density function

Issue title: Frontiers in Biomedical Engineering and Biotechnology – Proceedings of the 3rd International Conference on Biomedical Engineering and Biotechnology, 25–28 September 2014, Beijing, China

Article type: Research Article

Authors: Wang, Gongming; | Xu, Fan

Affiliations: Department of Information Art and Design, Academy of Art and Design, Tsinghua University, Haidian District, 100084, Beijing, China | Institute of Computing Technology, Chinese Academy of Science, Haidian District, 100190, Beijing, China

Note: [] Corresponding author: Gongming Wang, Department of Information Art and Design, Academy of Art and Design, Tsinghua University. No 1 Tsinghua Park, Haidian District, Beijing, ZIP 100084, China. Tel.: +86 15001012036; Fax.: +86 10 62798933; E-mail.: [email protected].

Keywords: Single-particle reconstruction, icosahedral symmetry-adapted functions, virus capsid, density function, Fourier shell correlation

DOI: 10.3233/BME-141208

Journal: Bio-Medical Materials and Engineering, vol. 24, no. 6, pp. 3787-3795, 2014

Published: 2014
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Abstract

The output of icosahedral symmetry-adapted functions (ISAF) reconstruction algorithm is a virus capsid, where the density function of every outside point is theoretically zero. However, original ISAF algorithm takes reconstructed map as a solid sphere and density function of every point in the whole sphere is calculated. The density functions outside virus capsid may not be always zero, which may sometimes produce noise. In this study, Fourier shell correlation (FSC) is used for proving that density function calculation of original ISAF algorithm can reduce reconstruction precision. Subsequently, the range of virus capsid is determined with radial density function curve and the original ISAF algorithm is improved by calculating density function inside virus capsid. The experimental results on Cryo-electron microscopy (Cryo-EM) data of cytoplasmic polyhedrosis virus (CPV) indicate that the improved ISAF algorithm can generate more details of virus capsid and achieve a higher resolution.

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