Proteome-wide comparison between the amino acid composition of domains and linkers

被引：28

作者：

Brüne D. ^{[1
]}

Andrade-Navarro M.A. ^{[2
]}

Mier P. ^{[2
]}

机构：

[1] Institute of Pharmacy and Molecular Biotechnology, Ruprecht Karls University Heidelberg, Heidelberg

[2] Faculty of Biology, Johannes Gutenberg University Mainz, Gresemundweg 2, Mainz

来源：

BMC Research Notes | / 11卷 / 1期

关键词：

Amino acid composition; Domains; Linkers;

D O I：

10.1186/s13104-018-3221-0

中图分类号：

学科分类号：

摘要：

Objective: Amino acid composition is a sequence feature that has been extensively used to characterize proteomes of many species and protein families. Yet the analysis of amino acid composition of protein domains and the linkers connecting them has received less attention. Here, we perform both a comprehensive full-proteome amino acid composition analysis and a similar analysis focusing on domains and linkers, to uncover domain- or linker-specific differential amino acid usage patterns. Results: The amino acid composition in the 38 proteomes studied showcase the greater variability found in archaea and bacteria species compared to eukaryotes. When focusing on domains and linkers, we describe the preferential use of polar residues in linkers and hydrophobic residues in domains. To let any user perform this analysis on a given domain (or set of them), we developed a dedicated R script called RACCOON, which can be easily used and can provide interesting insights into the compositional differences between a domain and its surrounding linkers. © 2018 The Author(s).

引用

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