The University of Minnesota Biocatalysis/Biodegradation Database: improving public access

Nucleic Acids Res. 2010 Jan;38(Database issue):D488-91. doi: 10.1093/nar/gkp771. Epub 2009 Sep 18.


The University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD, began in 1995 and now contains information on almost 1200 compounds, over 800 enzymes, almost 1300 reactions and almost 500 microorganism entries. Besides these data, it includes a Biochemical Periodic Table (UM-BPT) and a rule-based Pathway Prediction System (UM-PPS) ( that predicts plausible pathways for microbial degradation of organic compounds. Currently, the UM-PPS contains 260 biotransformation rules derived from reactions found in the UM-BBD and scientific literature. Public access to UM-BBD data is increasing. UM-BBD compound data are now contributed to PubChem and ChemSpider, the public chemical databases. A new mirror website of the UM-BBD, UM-BPT and UM-PPS is being developed at ETH Zürich to improve speed and reliability of online access from anywhere in the world.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Access to Information
  • Biochemistry / methods
  • Biodegradation, Environmental*
  • Biotransformation
  • Computational Biology / methods*
  • Computational Biology / trends
  • Databases, Genetic*
  • Databases, Nucleic Acid*
  • Dictionaries, Chemical as Topic
  • Environmental Pollutants
  • Genome, Bacterial
  • Information Storage and Retrieval / methods
  • Internet
  • Microbiology
  • Software
  • User-Computer Interface


  • Environmental Pollutants