Construction and Analysis of Amino Acid Substitution Matrices for Optimal Alignment of Microbial Rhodopsin Sequences

Novoseletsky, V.N.; Armeev, G.A.; Shaitan, K.V.

Информация о цитировании статьи получена из Scopus
Статья опубликована в журнале из списка Web of Science и/или Scopus
Дата последнего поиска статьи во внешних источниках: 11 ноября 2019 г.

Авторы: Novoseletsky V.N., Armeev G.A., Shaitan K.V.
Журнал: Moscow University Biological Sciences Bulletin
Том: 74
Номер: 1
Год издания: 2019
Издательство: Allerton Press
Местоположение издательства: New York, N.Y., United States
Первая страница: 21
Последняя страница: 25
DOI: 10.3103/s009639251901005x
Аннотация: Abstract—Pairwise alignment of amino acid sequences is the basic tool of bioinformatics, which is widely used both independently and within numerous more complex methods. The effectiveness of this tool critically depends on the scoring function used, which consists of a substitution matrix and gap penalties. In this work, amino acid substitution matrices for the superfamily of microbial rhodopsins (RHOD) were constructed and analyzed and then compared with a set of general-purpose matrices (BLOSUM, VTML, PFASUM). It was shown that all matrices allow constructing alignments of microbial rhodopsin sequences of almost the same quality, but only BLOSUM and VTML matrices and their linear combinations with RHOD matrices allow revealing homology between microbial rhodopsins and heliorhodopsin.
Добавил в систему: Новоселецкий Валерий Николаевич

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Construction and Analysis of Amino Acid Substitution Matrices for Optimal Alignment of Microbial Rhodopsin Sequencesстатья

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