University of Minnesota Biocatalysis/Biodegradation Database
Progress Report 106 - May 28, 2003
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.
- The pathways for anaerobic trichloroethane, nicotine, and alpha-pinene
have been updated.
http://umbbd.ahc.umn.edu/tce2/tce2_map.html
http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'tce2_map']
http://umbbd.ahc.umn.edu/nic/nic_map.html
http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'nic_map']
http://umbbd.ahc.umn.edu/apn/apn_map.html
http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'apn_map']
- The Pathway Prediction System (PPS) biotransformation rules have been
added to and updated. With 172 rules, the PPS could correctly predict
known metabolism for 97 (90%) of the 108 compounds containing C, H, O,
N, S, P and halides that initiate UM-BBD pathways of two or more
reactions. There are now 180 rules. A list of all rules is available.
http://umbbd.ahc.umn.edu/predict/
http://umbbd.ahc.umn.edu/servlets/pageservlet?ptype=allrules
- Reaction pages now list btrules, if any, that are in accord with
the reaction. For example, see the page for the reaction:
1,2-dichloroethane to 2-chloroethanol. The format of UM-BBD
pathway, reaction, enzyme and compound pages is described in
"About the UM-BBD."
http://umbbd.ahc.umn.edu/servlets/pageservlet?ptype=r&reacID=r0001
http://umbbd.ahc.umn.edu/aboutBBD.html
- In Biochemical Periodic Tables, there are new entries for
Polonium (Po), Uranium (U) and Cadmium (Cd) and updated entries
for Technetium (Tc), Bismuth (Bi), Ruthenium (Ru), Rhodium (Rh),
Palladium (Pd), Platinum (Pt), Gallium (Ga), Indium (In),
Thallium (Tl), Tin (Sn) and Germanium (Ge).
http://umbbd.ahc.umn.edu/periodic/
http://umbbd.ahc.umn.edu/periodic/elements/po.html
http://umbbd.ahc.umn.edu/periodic/elements/u.html
http://umbbd.ahc.umn.edu/periodic/elements/cd.html
http://umbbd.ahc.umn.edu/periodic/elements/tc.html
http://umbbd.ahc.umn.edu/periodic/elements/bi.html
http://umbbd.ahc.umn.edu/periodic/elements/ru.html
http://umbbd.ahc.umn.edu/periodic/elements/rh.html
http://umbbd.ahc.umn.edu/periodic/elements/pd.html
http://umbbd.ahc.umn.edu/periodic/elements/pt.html
http://umbbd.ahc.umn.edu/periodic/elements/ga.html
http://umbbd.ahc.umn.edu/periodic/elements/in.html
http://umbbd.ahc.umn.edu/periodic/elements/tl.html
http://umbbd.ahc.umn.edu/periodic/elements/sn.html
http://umbbd.ahc.umn.edu/periodic/elements/ge.html
- The results of the Seventh User Survey are now available.
http://umbbd.ahc.umn.edu/stats3/results7.html
If you have comments on any aspect of the UM-BBD, please let us know.
Lynda Ellis <[log in to unmask]>
-------------------------------------
University of Minnesota Biocatalysis/Biodegradation Database
Progress Report 105 - April 10, 2003
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.
- The pathways for hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX)
and nitroglycerin have been updated.
http://umbbd.ahc.umn.edu/rdx/rdx_map.html
http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'rdx_map']
http://umbbd.ahc.umn.edu/ng/ng_map.html
http://srs.ebi.ac.uk/srs6bin/cgi-bin/wgetz?-e+[upathway-id:'ng_map']
- The Pathway Prediction System (PPS) biotransformation rules have been
added to and updated. There are now 146 rules. The current PPS
can correctly predict known metabolism for 77 (71.3%) of the 108
compounds containing C, H, O, N, S, P and halides that initiate UM-BBD
pathways of two or more reactions. A list of all rules is available.
A organic functional group name contains search for btrules is now
available on the UM-BBD Search
page and the all rules page.
http://umbbd.ahc.umn.edu/predict/
http://umbbd.ahc.umn.edu/servlets/pageservlet?ptype=allrules
http://umbbd.ahc.umn.edu/search/
- In Biochemical Periodic Tables, entries for Urnaium (U), and
Cadmium (Cd) have been added, and the entry for Technicium (Tc)
has been updated.
http://umbbd.ahc.umn.edu/periodic/
http://umbbd.ahc.umn.edu/periodic/elements/u.html
http://umbbd.ahc.umn.edu/periodic/elements/cd.html
http://umbbd.ahc.umn.edu/periodic/elements/tc.html
- A new UM-BBD publication is available: Hou, B.K., Wackett, L.P.,
and Ellis, L.B.M. (2003) "Predicting Microbial Catabolism:
A Functional Group Approach" Journal of Chemical Information
and Computer Sciences, ASAP Web Release Date: April 4, 2003.
http://umbbd.ahc.umn.edu/publications/
http://pubs3.acs.org/acs/journals/doilookup?in_doi=10.1021/ci034018f
If you have comments on any aspect of the UM-BBD, please let us know.
Lynda Ellis <[log in to unmask]>
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