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Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions
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CSDB_GT: a new curated database on glycosyltransferases
Ksenia S Egorova1, Philip V Toukach1
1N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky prospect 47, Moscow, Russia.
Glycobiology
|December 25, 2016
Summary
A new database, CSDB_GT, now curates glycosyltransferase (GT) activities from Arabidopsis thaliana. This resource supports biotechnology and pharmaceutics by organizing essential glycan synthesis data from GT enzymes.
Area of Science:
- Biochemistry and Glycoscience
- Bioinformatics and Cheminformatics
Background:
- Glycosyltransferases (GTs) are crucial carbohydrate-active enzymes (CAZy) for synthesizing natural glycan structures, with significant demand in biotechnology and pharmaceutics.
- Existing research data repositories for GTs are fragmented and lack comprehensive quality, hindering their application.
- Arabidopsis thaliana GTs are key targets for understanding plant glycan biosynthesis.
Discussion:
- The Carbohydrate Structure Glycosyltransferase Database (CSDB_GT) has been developed to address the need for a centralized, high-quality data repository.
- CSDB_GT currently contains approximately 780 documented GT activities and other CAZy from Arabidopsis thaliana, sourced from around 180 publications.
- The database integrates published data on GTs with experimentally evidenced functions, covering most available information for A. thaliana.
Key Insights:
- CSDB_GT provides a curated collection of GT activities and associated data, enhancing accessibility for researchers.
- The database links to the comprehensive Carbohydrate Structure Database (CSDB), encompassing glycan data from various organisms.
- All data within CSDB_GT is experimentally validated and traceable to original publications, ensuring data integrity.
Outlook:
- CSDB_GT is expected to accelerate research and development in glycoscience, biotechnology, and pharmaceutics by providing reliable GT data.
- Future updates may expand the database to include GTs from other species and additional functional data.
- The resource facilitates deeper understanding of plant glycan structures and their biosynthesis pathways.
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