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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: improving public access.

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  • 1Department of Laboratory Medicine and Pathology, University of Minnesota, Minneapolis, MN 55455, USA.

Abstract

The University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD, http://umbbd.msi.umn.edu/) 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) (http://umbbd.msi.umn.edu/predict/) 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 Z├╝rich to improve speed and reliability of online access from anywhere in the world.

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