The EcoCyc database: reflecting new knowledge about Escherichia coli K-12

Nucleic Acids Res. 2017 Jan 4;45(D1):D543-D550. doi: 10.1093/nar/gkw1003. Epub 2016 Nov 28.


EcoCyc ( is a freely accessible, comprehensive database that collects and summarizes experimental data for Escherichia coli K-12, the best-studied bacterial model organism. New experimental discoveries about gene products, their function and regulation, new metabolic pathways, enzymes and cofactors are regularly added to EcoCyc. New SmartTable tools allow users to browse collections of related EcoCyc content. SmartTables can also serve as repositories for user- or curator-generated lists. EcoCyc now supports running and modifying E. coli metabolic models directly on the EcoCyc website.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Computational Biology / methods*
  • Databases, Genetic*
  • Energy Metabolism
  • Escherichia coli K12 / genetics*
  • Escherichia coli K12 / metabolism*
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism
  • Gene Expression Regulation, Bacterial
  • Metabolic Networks and Pathways
  • Signal Transduction
  • Software
  • Transcription Factors / metabolism
  • Web Browser


  • Escherichia coli Proteins
  • Transcription Factors