#38 New linoleate reactions

None
closed
Lucila
None
5
2014-03-05
2013-07-04
No

Hello,

Could I please have Rhea entries to annotate the following reactions as seen in PMID:10455113
(http://www.ncbi.nlm.nih.gov/pubmed/?term=10455113):

Substrate: linoleic acid

Products:
8(Z),11(Z),14(Z)-Heptadecatrienal
2(R)-Hydroxy-9(Z),12(Z),15(Z)-octadecatrienoic acid
8(Z),11(Z),14(Z)-Heptadecatrienoic acid

These would be needed to create GO terms to represent the corresponding enzymatic activities. I can't see these reactions in Rhea or in http://www.chem.qmul.ac.uk/iubmb/enzyme, nor can I see the products in ChEBI. (There's a slight chance I might have missed them, as the names are not simple to search for.) So right now I wouldn't know what to call the enzymatic activities - we'd like to have specific names for the various lipoxygenases. This all stems from an ontology request, FYI:

https://sourceforge.net/p/geneontology/ontology-requests/10241/

Thanks,
Paola

Discussion

  • Kristian Axelsen

    • assigned_to: Lucila
    • Group: -->
     
  • Lucila

    Lucila - 2013-10-24

    Hi Paola,
    I was assigned this issue today, please bear with me, and I'll take a look at this publication next week if possible.
    Best,
    Lucila

     
  • Paola Roncaglia

    Paola Roncaglia - 2013-10-24

    Thanks Lucila, sure, next week is fine!
    Best regards,
    Paola

     
  • Lucila

    Lucila - 2013-10-31

    Hi Paola,
    I've created a Rhea reaction to describe the enzymatic activity for PIOX (α-dioxygenase):
    Rhea:16332 α-linolenate +O2 <=> 2R-hydroperoxy-α-linolenate
    The products you mention in your request are not due to the specific activity of this enzyme. They are produced from 2R-hydroperoxy-α-linolenate, either spontaneously or by other enzymes present in the cell lysate (PMID:10455113, PMID:12432929, PMID:16137659).
    Hope this helps. Best regards,
    Lucila

     
  • Paola Roncaglia

    Paola Roncaglia - 2013-10-31

    Dear Lucila,

    Thanks for your work. I'm on leave for the rest of the week, but will look into this as soon as I manage and will let you know if I have any questions.

    Best regards,
    Paola

     
  • Paola Roncaglia

    Paola Roncaglia - 2013-11-03

    Thanks again Lucila, I've closed the GO ticket.
    Paola

     
  • Kristian Axelsen

    • status: open --> closed
     

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