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Matematicheskaya Biologiya i Bioinformatika, 2017, Volume 12, Issue 1, Pages 83–101
DOI: https://doi.org/10.17537/2017.12.83
(Mi mbb282)
 

This article is cited in 12 scientific papers (total in 12 papers)

Bioinformatics

The study of interhelical angles in the structural motifs formed by two helices

D. A. Tikhonova, L. I. Kulikovaa, A. V. Efimovb

a Institute of Mathematical Problems of Biology RAS - the Branch of Keldysh Institute of Applied Mathematics of Russian Academy of Sciences
b Institute of Protein Research of the Russian Academy of Sciences
References:
Abstract: In this paper a statistical analysis of distributions of inter-helical angles in pairs of consecutive and connected $\alpha$-helices in spatial structures of proteins is presented. A number of rules for selection of the helical pairs from a set of protein structures obtained from the Protein Data Bank (PDB) were developed. The set of helical pairs has been analyzed for the purpose of classification and finding out the features of protein structural organization. All pairs of connected helices were divided into three subsets according to the criterion of crossing of projections of the helices on parallel planes, which pass through the axes of the helices. It is shown that the distribution of all types of helical pairs, whose projections do not cross each others, covers almost the entire range of inter-helical angles. The distribution have a single maximum which is close to right angle. Most pairs in this set constitute helical pairs consisting of $\alpha$- and $3_{10}$-helices, and most pairs with the crossing projections of helices are helical pairs formed by two $\alpha$-helices. It is also shown that a great amount of the pairs of connected $\alpha$-helices has acute angle $20^\circ \leqslant\varphi \leqslant 60^\circ$ between the axes of the helices. The distribution of all types of helical pairs depending on the length of the inter-helical connections was also analyzed. It is shown that the structures with short connections occur most often in all the subsets.
Key words: structural motifs of proteins, the point model, helical pairs, angle between the axes of the helices.
Funding agency Grant number
Russian Foundation for Basic Research 16-01-00692_а
Received 22.11.2016, Published 20.02.2017
Document Type: Article
UDC: 519
Language: Russian
Citation: D. A. Tikhonov, L. I. Kulikova, A. V. Efimov, “The study of interhelical angles in the structural motifs formed by two helices”, Mat. Biolog. Bioinform., 12:1 (2017), 83–101
Citation in format AMSBIB
\Bibitem{TikKulEfi17}
\by D.~A.~Tikhonov, L.~I.~Kulikova, A.~V.~Efimov
\paper The study of interhelical angles in the structural motifs formed by two helices
\jour Mat. Biolog. Bioinform.
\yr 2017
\vol 12
\issue 1
\pages 83--101
\mathnet{http://mi.mathnet.ru/mbb282}
\crossref{https://doi.org/10.17537/2017.12.83}
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  • https://www.mathnet.ru/eng/mbb/v12/i1/p83
    Translation
    This publication is cited in the following 12 articles:
    Citing articles in Google Scholar: Russian citations, English citations
    Related articles in Google Scholar: Russian articles, English articles
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    References:39
     
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