PRODORIC2: the bacterial gene regulation database in 2018

Nucleic Acids Res. 2018 Jan 4;46(D1):D320-D326. doi: 10.1093/nar/gkx1091.


Bacteria adapt to changes in their environment via differential gene expression mediated by DNA binding transcriptional regulators. The PRODORIC2 database hosts one of the largest collections of DNA binding sites for prokaryotic transcription factors. It is the result of the thoroughly redesigned PRODORIC database. PRODORIC2 is more intuitive and user-friendly. Besides significant technical improvements, the new update offers more than 1000 new transcription factor binding sites and 110 new position weight matrices for genome-wide pattern searches with the Virtual Footprint tool. Moreover, binding sites deduced from high-throughput experiments were included. Data for 6 new bacterial species including bacteria of the Rhodobacteraceae family were added. Finally, a comprehensive collection of sigma- and transcription factor data for the nosocomial pathogen Clostridium difficile is now part of the database. PRODORIC2 is publicly available at

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacteria / genetics
  • Bacteria / metabolism
  • Binding Sites
  • Data Curation
  • Databases, Genetic*
  • Environmental Microbiology
  • Gene Expression Regulation, Bacterial*
  • Transcription Factors / metabolism*


  • Transcription Factors