University of Minnesota Biocatalysis/Biodegradation Database Progress Report 96 - April 16, 2002 Thank you for your interest in the UM-BBD. If you wish to be removed from this mailing list or change your options, send a message to: [log in to unmask] with the word 'help' in the subject or body (don't include the quotes), and you will get back an email message with instructions. - Pathways for the biodegradation of bisphenol A, tetrabromobisphenol A, and technetium have been added, and the pathway for Mordant Yellow 3 has been updated. Mechanism graphics were drawn for three reactions in the bisphenol A pathway, bringing to 30 the number of such graphics. A list of these is available. The tetrabromobisphenol A pathway was developed by a student in the 2001 Biocatalysis and Biodegradation class, offered completely over the Internet. The technetium pathway brings to ten the number of metal, metalloid and metal chelator pathways in the UM-BBD. A list of these is available. http://umbbd.ahc.umn.edu/bpa/bpa_map.html http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'bpa_map'] http://umbbd.ahc.umn.edu/tbp2/tbp2_map.html http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'tbp2_map'] http://umbbd.ahc.umn.edu/tc/tc_map.html http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'tc_map'] http://umbbd.ahc.umn.edu/my3/my3_map.html http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'my3_map'] http://umbbd.ahc.umn.edu:8080/search/graph_BBD.html#mechanisms http://www.cbs.umn.edu/class/bioc/5309/idl/ http://umbbd.ahc.umn.edu/metals.html - A second form of structure-based searching has been added to the UM-BBD. You can draw the compound you wish to search for using a Java applet. Then enter the type of structure search (similarity, substructure or exact) you wish to do, the similarity threshold to use. the maximum time to search and the maximum number of hits. Images of matching structures in the UM-BBD are returned. Clicking on "More info" leads to the UM-BBD compound page, and from there to reactions of and biodegradation pathways for the compound. This is a step towards predicting biodegradation pathways for compounds the UM-BBD does not contain. The biodegradation pathways for UM-BBD compounds that are similar to the query compound can suggest ways the query might be degraded. This Java applet does not work with all browsers. If you have problems with it, please use the text-based simple structure search. Both structure searches are linked to on the main search page and are based on the JChem toolkit from ChemAxon, Ltd., listed on the UM-BBD Tools page. http://umbbd.ahc.umn.edu:8005/umbbd/query.html http://umbbd.ahc.umn.edu/search/ssmiles.html http://umbbd.ahc.umn.edu/search/index.html http://umbbd.ahc.umn.edu/tools.html - On the Useful Internet Resources page, the link to Chemfinder from CambridgeSoft has been updated. http://umbbd.ahc.umn.edu/resources.html If you have comments on any aspect of the UM-BBD, please let us know. Lynda Ellis <[log in to unmask]>
