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

Brüne, Daniel ; Navarro, Miguel A. ; Mier, Pablo

In: BMC Research Notes, 11 (2018), Nr. 117. pp. 1-6. ISSN 1756-0500

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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.

Item Type: Article
Journal or Publication Title: BMC Research Notes
Volume: 11
Number: 117
Publisher: BioMed Central
Place of Publication: London
Date Deposited: 30 Apr 2018 07:48
Date: 2018
ISSN: 1756-0500
Page Range: pp. 1-6
Faculties / Institutes: The Faculty of Bio Sciences > Institute of Pharmacy and Molecular Biotechnology
Subjects: 570 Life sciences
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