RedoxiBase: A database for ROS homeostasis regulated proteins

Redox Biol. 2019 Sep;26:101247. doi: 10.1016/j.redox.2019.101247. Epub 2019 Jun 6.

Abstract

We present a new database, specifically devoted to ROS homeostasis regulated proteins. This database replaced our previous database, the PeroxiBase, which was focused only on various peroxidase families. The addition of 20 new protein families related with ROS homeostasis justifies the new name for this more complex and comprehensive database as RedoxiBase. Besides enlarging the focus of the database, new analysis tools and functionalities have been developed and integrated through the web interface, with which the users can now directly access to orthologous sequences and see the chromosomal localization of sequences when available. OrthoMCL tool, completed with a post-treatment process, provides precise predictions of orthologous gene groups for the sequences present in this database. In order to explore and analyse orthogroups results, taxonomic visualization of organisms containing sequence of a specific orthogroup as well as chromosomal distribution of the orthogroup with one or two organisms have been included.

Keywords: Catalase; Multigenic family; Oxido-reductases; Peroxidases; ROS homeostasis.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Chromosome Mapping / methods
  • Chromosomes
  • Databases, Protein*
  • Homeostasis / genetics
  • Multigene Family
  • Oxidoreductases / classification
  • Oxidoreductases / genetics*
  • Oxidoreductases / metabolism
  • Phylogeny
  • Plants / classification
  • Plants / genetics*
  • Plants / metabolism
  • Reactive Oxygen Species / metabolism*
  • Software*

Substances

  • Reactive Oxygen Species
  • Oxidoreductases