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Research Abstracts Online
January 2009 - March 2010

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University of Minnesota Twin Cities
Medical School
Department of Laboratory Medicine and Pathology

PI: Lynda B.M. Ellis, Associate Fellow

Biocatalysis and Biodegradation Database

These researchers have developed several databases and tools that are housed in the SDML. The University of Minnesota Biocatalysis and Biodegradation Database (UM-BBD, contains information on microbial biocatalytic reactions and biodegradation pathways for primarily xenobiotic, chemical compounds. The goal of the UM-BBD is to provide information on microbial enzyme-catalyzed reactions that are important for biotechnology. Its Pathway Prediction System (PPS, /predict/) predicts microbial catabolic reactions using substructure searching, a rule-base, and atom-to-atom mapping. The system can recognize organic functional groups found in a compound and predict transformations based on biotransformation rules. The biotransformation rules are based on reactions found in the UM-BBD or in the scientific literature. The UM-BBD and its PPS are housed in the SDML.

Group Members

Kathrin Fenner, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
Jeff Gao, Graduate Student
Carol Gross, Staff
Carlos Sosa, Adjunct Faculty Collaborator
Michael Turnbull, Staff