Characterization of signal and transit peptides based on motif composition and taxon-specific patterns
Abstract Targeting peptides or presequences are N-terminal extensions of proteins that encode information about their cellular localization. They include signal peptides (SP), which target proteins to the endoplasmic reticulum, and transit peptides (TP) directing proteins to the organelles of endosy...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-09-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-023-42987-1 |
| _version_ | 1797452683379998720 |
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| author | Katarzyna Sidorczuk Paweł Mackiewicz Filip Pietluch Przemysław Gagat |
| author_facet | Katarzyna Sidorczuk Paweł Mackiewicz Filip Pietluch Przemysław Gagat |
| author_sort | Katarzyna Sidorczuk |
| collection | DOAJ |
| description | Abstract Targeting peptides or presequences are N-terminal extensions of proteins that encode information about their cellular localization. They include signal peptides (SP), which target proteins to the endoplasmic reticulum, and transit peptides (TP) directing proteins to the organelles of endosymbiotic origin: chloroplasts and mitochondria. TPs were hypothesized to have evolved from antimicrobial peptides (AMPs), which are responsible for the host defence against microorganisms, including bacteria, fungi and viruses. In this study, we performed comprehensive bioinformatic analyses of amino acid motifs of targeting peptides and AMPs using a curated set of experimentally verified proteins. We identified motifs frequently occurring in each type of presequence showing specific patterns associated with their amino acid composition, and investigated their position within the presequence. We also compared motif patterns among different taxonomic groups and identified taxon-specific features, providing some evolutionary insights. Considering the functional relevance and many practical applications of targeting peptides and AMPs, we believe that our analyses will prove useful for their design, and better understanding of protein import mechanism and presequence evolution. |
| first_indexed | 2024-03-09T15:12:12Z |
| format | Article |
| id | doaj.art-dae4aa07ffb54069a8a083a359b1f564 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-03-09T15:12:12Z |
| publishDate | 2023-09-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-dae4aa07ffb54069a8a083a359b1f5642023-11-26T13:18:44ZengNature PortfolioScientific Reports2045-23222023-09-0113111010.1038/s41598-023-42987-1Characterization of signal and transit peptides based on motif composition and taxon-specific patternsKatarzyna Sidorczuk0Paweł Mackiewicz1Filip Pietluch2Przemysław Gagat3Department of Bioinformatics and Genomics, Faculty of Biotechnology, University of WrocławDepartment of Bioinformatics and Genomics, Faculty of Biotechnology, University of WrocławDepartment of Bioinformatics and Genomics, Faculty of Biotechnology, University of WrocławDepartment of Bioinformatics and Genomics, Faculty of Biotechnology, University of WrocławAbstract Targeting peptides or presequences are N-terminal extensions of proteins that encode information about their cellular localization. They include signal peptides (SP), which target proteins to the endoplasmic reticulum, and transit peptides (TP) directing proteins to the organelles of endosymbiotic origin: chloroplasts and mitochondria. TPs were hypothesized to have evolved from antimicrobial peptides (AMPs), which are responsible for the host defence against microorganisms, including bacteria, fungi and viruses. In this study, we performed comprehensive bioinformatic analyses of amino acid motifs of targeting peptides and AMPs using a curated set of experimentally verified proteins. We identified motifs frequently occurring in each type of presequence showing specific patterns associated with their amino acid composition, and investigated their position within the presequence. We also compared motif patterns among different taxonomic groups and identified taxon-specific features, providing some evolutionary insights. Considering the functional relevance and many practical applications of targeting peptides and AMPs, we believe that our analyses will prove useful for their design, and better understanding of protein import mechanism and presequence evolution.https://doi.org/10.1038/s41598-023-42987-1 |
| spellingShingle | Katarzyna Sidorczuk Paweł Mackiewicz Filip Pietluch Przemysław Gagat Characterization of signal and transit peptides based on motif composition and taxon-specific patterns Scientific Reports |
| title | Characterization of signal and transit peptides based on motif composition and taxon-specific patterns |
| title_full | Characterization of signal and transit peptides based on motif composition and taxon-specific patterns |
| title_fullStr | Characterization of signal and transit peptides based on motif composition and taxon-specific patterns |
| title_full_unstemmed | Characterization of signal and transit peptides based on motif composition and taxon-specific patterns |
| title_short | Characterization of signal and transit peptides based on motif composition and taxon-specific patterns |
| title_sort | characterization of signal and transit peptides based on motif composition and taxon specific patterns |
| url | https://doi.org/10.1038/s41598-023-42987-1 |
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