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nterPro:IPR001830 trehalose related #309

Closed gocentral closed 9 years ago

gocentral commented 17 years ago

Hi Sandra,

I queried the annotation of TPS2 with SGD and it appears this is correct.

Could you therefore check the mapping to "alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity" should not be trehalose-phosphatase activity (it seems the complex has both activities?)

cheers

Val

Val,

The annotation we have for TPS2 (trehalose-phosphatase activity) is correct. TPS2 is similar to TPS1 which has alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity. I am guessing Interpro picked it up because of the sequence similarity.

The following paper clearly identifies the role of TPS2 as a trehalose 6-phosphate phosphatase (E.C-3.1.3.12). De Virgilio C, et al. (1993) Disruption of TPS2, the gene encoding the 100-kDa subunit of the trehalose-6-phosphate synthase/phosphatase complex in Saccharomyces cerevisiae, causes accumulation of trehalose-6-phosphate and loss of trehalose-6-phosphate phosphatase activity. Eur J Biochem 212(2):315.

You may also want to check the trehalose biosynthesis pathway page to see the role of TPS1 and TPS2 in this pathway. http://pathway.yeastgenome.org:8555/YEAST/new-image?type=PATHWAY&object=TRESYN-PWY&detail-level=2

Please let me know if you have any questions.

Best,

Rama

On Oct 13, 2006, at 9:11 AM, <yeast-curator@genome.stanford.edu> <yeast-curator@genome.stanford.edu> wrote:

> Form_Name "Suggestion" > URL "http://?" > Name "val" > Internet "val@sanger.ac.uk" > Remote Address "193.62.203.214" > Ref

erer "http://db.yeastgenome.org/cgi-bin/suggestion" > > Text "is this activity correct, or should it be alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity (I'm picking this up from an Interpro mapping and it looks correct?)"

Reported by: ValWood

Original Ticket: "geneontology/annotation-issues/309":https://sourceforge.net/p/geneontology/annotation-issues/309

gocentral commented 17 years ago

Original comment by: mah11

gocentral commented 17 years ago

Logged In: YES user_id=545117

I've taken the function mapping up to catalytic activity for this one, looks like the domain is in too broad a span of enzymes to do anything else.

Sandra

Original comment by: orchard

gocentral commented 17 years ago

Original comment by: orchard