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Nucleic Acids Research 2006 34(Database Issue):D517-D521; doi:10.1093/nar/gkj076
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Nucleic Acids Research, 2006, Vol. 34, Database issue D517-D521
© The Author 2006. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oxfordjournals.org

Article

The University of Minnesota Biocatalysis/Biodegradation Database: the first decade

Lynda B. M. Ellis*, Dave Roe and Lawrence P. Wackett1

Department of Laboratory Medicine and Pathology, University of Minnesota Minneapolis, Mayo Mail Code 609, 420 SE Delaware Street, MN 55455, USA 1BioTechnology Institute, University of Minnesota St Paul, MN 55108, USA

*To whom correspondence should be addressed. Tel: +1 612 625 9122; Fax: +1 612 624 6404; Email: lynda{at}tc.umn.edu

Received September 12, 2005. Revised October 8, 2005. Accepted October 8, 2005.

As the University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD, http://umbbd.ahc.umn.edu/) starts its second decade, it includes information on over 900 compounds, over 600 enzymes, nearly 1000 reactions and about 350 microorganism entries. Its Biochemical Periodic Tables have grown to include biological information for almost all stable, non-noble-gas elements (http://umbbd.ahc.umn.edu/periodic/). Its Pathway Prediction System (PPS) (http://umbbd.ahc.umn.edu/predict/) is now an internationally recognized, open system for predicting microbial catabolism of organic compounds. Graphical display of PPS rules, a stand-alone version of the PPS and guidance for PPS users are being developed. The next decade should see the PPS, and the UM-BBD on which it is based, find increasing use by national and international government agencies, commercial organizations and educational institutions.


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