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G3 (Bethesda). 2019 Jan 9;9(1):1-11. doi: 10.1534/g3.118.200637.

iProteinDB: An Integrative Database of Drosophila Post-translational Modifications.

Author information

1
Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115.
2
Drosophila RNAi Screening Center, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115.
3
European Molecular Biology Laboratory (EMBL), European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
4
Department of Bioinformatics, Cell Signaling Technology Inc., 3 Trask Lane, Danvers, MA 01923.
5
Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115 perrimon@receptor.med.harvard.edu.
6
Howard Hughes Medical Institute, 77 Avenue Louis Pasteur, Boston, MA 02115.

Abstract

Post-translational modification (PTM) serves as a regulatory mechanism for protein function, influencing their stability, interactions, activity and localization, and is critical in many signaling pathways. The best characterized PTM is phosphorylation, whereby a phosphate is added to an acceptor residue, most commonly serine, threonine and tyrosine in metazoans. As proteins are often phosphorylated at multiple sites, identifying those sites that are important for function is a challenging problem. Considering that any given phosphorylation site might be non-functional, prioritizing evolutionarily conserved phosphosites provides a general strategy to identify the putative functional sites. To facilitate the identification of conserved phosphosites, we generated a large-scale phosphoproteomics dataset from Drosophila embryos collected from six closely-related species. We built iProteinDB (https://www.flyrnai.org/tools/iproteindb/), a resource integrating these data with other high-throughput PTM datasets, including vertebrates, and manually curated information for Drosophila At iProteinDB, scientists can view the PTM landscape for any Drosophila protein and identify predicted functional phosphosites based on a comparative analysis of data from closely-related Drosophila species. Further, iProteinDB enables comparison of PTM data from Drosophila to that of orthologous proteins from other model organisms, including human, mouse, rat, Xenopus tropicalis, Danio rerio, and Caenorhabditis elegans.

KEYWORDS:

Drosophila; phosphoproteomics; post-translational modification

PMID:
30397019
PMCID:
PMC6325894
DOI:
10.1534/g3.118.200637
[Indexed for MEDLINE]
Free PMC Article

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