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Spatiotemporal Control of Protein Activity through Optogenetic Allosteric Regulation

Spatiotemporal Control of Protein Activity through Optogenetic Allosteric Regulation

Published on: October 4, 2024

dbCRY: a Web-based comparative and evolutionary genomics platform for blue-light receptors.

Yong-Min Kim¹, Jaeyoung Choi, Hye-Young Lee

¹Department of Plant Science and Plant Genomics and Breeding Institute, Seoul National University, Seoul 151-921, Korea, Department of Agricultural Biotechnology, Fungal Bioinformatics Laboratory, Seoul National University, Seoul 151-921, Korea, Department of Bioinformatics and Life Science, Soongsil University, Seoul 156-743, Korea and Center for Fungal Genetic Resources and Center for Fungal Pathogenesis, Seoul National University, Seoul 151-742, Korea.

Database : the Journal of Biological Databases and Curation

|May 13, 2014

Summary

This study introduces dbCRY, a new web platform for comparative and evolutionary genomics of cryptochromes, essential proteins for circadian rhythms. dbCRY analyzes 1309 cryptochrome genes across 1438 genomes, aiding research into these vital flavoproteins.

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Area of Science:

Genomics
Evolutionary Biology
Biochemistry

Background:

Cryptochromes are flavoproteins crucial for circadian rhythms in most organisms.
They belong to the photolyase/cryptochrome superfamily and exhibit conserved domain structures.
Despite conserved architecture, molecular mechanisms vary between plants and animals, highlighting their evolutionary significance.

Purpose of the Study:

To develop a comprehensive web-based platform, dbCRY, for comparative and evolutionary studies of cryptochromes.
To facilitate systematic analysis of cryptochrome gene families across diverse species.

Main Methods:

A pipeline utilizing consensus domain profiles was applied to 1438 genomes.
Identification of 1309 cryptochrome genes.
Development of a web interface with functions for browsing, domain analysis, sequence alignment, and homology search.

Main Results:

dbCRY successfully identified 1309 cryptochrome genes from 1438 analyzed genomes.
The platform offers integrated tools for in-depth comparative and evolutionary genomics research.
Includes features like 'Favorite Browser' powered by CFGP 2.0 for extended analysis.

Conclusions:

dbCRY provides a standardized and systematic solution for cryptochrome genomics.
The platform will advance comparative and evolutionary studies of cryptochromes.
Facilitates a deeper understanding of cryptochrome function and evolution across life.