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The Plant PTM Viewer, a central resource for exploring plant protein modifications
Patrick Willems1,2,3,4, Alison Horne5, Thomas Van Parys5
1Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium.
The Plant Journal : for Cell and Molecular Biology
|April 21, 2019
Summary
The Plant PTM Viewer database integrates and compares over 370,000 post-translational modification (PTM) sites across 19 PTM types in plant proteins. This resource aids in understanding PTM roles and interactions in plant cellular signaling.
Area of Science:
- Proteomics
- Plant Biology
- Bioinformatics
Background:
- Post-translational modifications (PTMs) are crucial for cellular signaling.
- Mass spectrometry enables comprehensive PTM identification and quantification.
- Plant PTM data is currently fragmented and poorly catalogued.
Purpose of the Study:
- To develop an integrated database for plant post-translational modifications.
- To facilitate comparison and analysis of site-specific PTMs across different types and species.
- To provide tools for exploring PTM roles in plant proteins and systems biology.
Main Methods:
- Compilation of approximately 370,000 PTM sites for 19 PTM types in plant proteins from five species.
- Development of a web-based resource, the Plant PTM Viewer.
- Implementation of PTM sequence search and PTM BLAST tools for data querying and analysis.
Main Results:
- The Plant PTM Viewer integrates extensive PTM data with confidence estimates and functional annotations.
- Tools allow users to search for PTM combinations and conserved PTMs in homologous sequences.
- The database provides a comprehensive overview of experimentally evidenced PTMs in plant proteins.
Conclusions:
- The Plant PTM Viewer serves as a valuable resource for plant PTM research.
- It aids in understanding the function and interplay of PTMs in plant cellular processes.
- The open repository encourages data submission to keep pace with future discoveries.
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