Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm

Bliven, Spencer E.; Lafita, Aleix; Rose, Peter W.; Capitani, Guido; Prlić, Andreas; Bourne, Philip E.

doi:10.1101/297960

Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-3860

Publication type:	Other (textual)
Title:	Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm
Authors:	Bliven, Spencer E. Lafita, Aleix Rose, Peter W. Capitani, Guido Prlić, Andreas Bourne, Philip E.
DOI:	10.1101/297960 10.21256/zhaw-3860
Extent:	21
Issue Date:	9-Apr-2018
Publisher / Ed. Institution:	bioRxiv
Language:	English
Subject (DDC):	572: Biochemistry
Abstract:	Many proteins fold into highly regular and repetitive three dimensional structures. The analysis of structural patterns and repeated elements is fundamental to understand protein function and evolution. We present recent improvements to the CE-Symm tool for systematically detecting and analyzing the internal symmetry and structural repeats in proteins. In addition to the accurate detection of internal symmetry, the tool is now capable of i) reporting the type of symmetry, ii) identifying the smallest repeating unit, iii) describing the arrangement of repeats with transformation operations and symmetry axes, and iv) comparing the similarity of all the internal repeats at the residue level. CE-Symm 2.0 helps the user investigate proteins with a robust and intuitive sequence-to-structure analysis, with many applications in protein classification, functional annotation and evolutionary studies. We describe the algorithmic extensions of the method and demonstrate its applications to the study of interesting cases of protein evolution.
Further description:	Now published in PLOS Computational Biology doi:10.1371/journal.pcbi.1006842
URI:	https://digitalcollection.zhaw.ch/handle/11475/7969
Fulltext version:	Submitted version
License (according to publishing contract):	CC BY 4.0: Attribution 4.0 International
Departement:	Life Sciences and Facility Management
Organisational Unit:	Institute of Computational Life Sciences (ICLS)
Appears in collections:	Publikationen Life Sciences und Facility Management

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Bliven, S. E., Lafita, A., Rose, P. W., Capitani, G., Prlić, A., & Bourne, P. E. (2018). Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. bioRxiv. https://doi.org/10.1101/297960

Bliven, S.E. et al. (2018) Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. bioRxiv. Available at: https://doi.org/10.1101/297960.

S. E. Bliven, A. Lafita, P. W. Rose, G. Capitani, A. Prlić, and P. E. Bourne, Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. bioRxiv, 2018. doi: 10.1101/297960.

BLIVEN, Spencer E., Aleix LAFITA, Peter W. ROSE, Guido CAPITANI, Andreas PRLIĆ und Philip E. BOURNE, 2018. Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. bioRxiv

Bliven, Spencer E., Aleix Lafita, Peter W. Rose, Guido Capitani, Andreas Prlić, and Philip E. Bourne. 2018. Analyzing the Symmetrical Arrangement of Structural Repeats in Proteins with CE-Symm. bioRxiv. https://doi.org/10.1101/297960.

Bliven, Spencer E., et al. Analyzing the Symmetrical Arrangement of Structural Repeats in Proteins with CE-Symm. bioRxiv, 2018, https://doi.org/10.1101/297960.