Comments (3)
Thanks both I will add!
from go-ontology.
Feedback from Ben Kellman (expect contacted by Frederique Lisacek):
I am not an experienced curator, so I can't comment with certainty on the meaning of parentage. However, I have spent time in glycan biosynthesis, so I may be of help there.
Since you work in yeast, you are likely aware of ALG genes. For citations, PMID:11425794 provides some useful citations in the broader context of Dolichol-P-P-GlcNAc2Man9Glc3 biosynthesis. The final paragraph references the yeast knockouts that uncovered the alg genes responsible for the process.
Here is a more modern figure summarizing the process and context:
Essentials of Glycobiology [Internet]. 4th edition. Cold Spring Harbor (NY)
I'm pointing at the whole process because when I think of the dolichol-P-glycan precursor to N-glycosylation, I rarely think specifically of the terminal tri-glucose additions. Over a dozen enzymes are responsible for building N-glycan precursor. That said, these three enzymes are similar in that they share a precursor, glucose.
In summary, I think your proposal makes sense due to the similarity of these reactions. And, provided some structure already exists surrounding the context of these three reactions. E.g.:
N-glycan biosynthesis
N-glycan precursor biosynthesis
dol-P synthesis
cytosolic
glcnac additions
DPAGT1, 13/14
mannose additions
ALG1, 2, 2, 11, 11
in ER
flip dol-PP-glycan into ER
mannose additions
ALG3, ALG9, ALG12, ALG9
glucose additions
ALG6, ALG8, ALG10
dolichol to protein transfer ....
Hope this is helpful,
Ben
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I agree with the suggestion to create a new superclass for these three genes.
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Related Issues (20)
- Textual definition update: GO:0044577 and GO:0044836 (xylose catabolic process to ethanol and child) HOT 3
- Change some terms from gocheck_do_not_annotate to subset: gocheck_obsoletion_candidate HOT 1
- Textual definition update: GO:0004856 HOT 1
- TEST Add terms from do_not_annotate subset
- Transferred ECs to update HOT 1
- Standardize arachidonic acid and arachidonate terms HOT 1
- Missing parent: sulfite transport (GO:0000316) HOT 4
- Query: 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity (GO:0003871)/Methionine synthase ? HOT 6
- 'detection of light stimulus involved in visual perception' should not be SubClassOf 'detection of visible light' HOT 5
- NTR: mitochondrial disulfide relay system HOT 4
- Obsoletion request: GO:1904925 positive regulation of autophagy of mitochondrion in response to mitochondrial depolarization
- Taxon constraint: GO:0070814 | hydrogen sulfide biosynthetic process
- Term merge: sulfate assimilation pathways
- GO:0003961 O-acetylhomoserine aminocarboxypropyltransferase and O-acetylhomoserine sulfhydrylase activity (GO:0051009) HOT 2
- Are these the same? GO:0052654 L-leucine transaminase activity/GO:0050048 L-leucine:2-oxoglutarate aminotransferase activity HOT 9
- NTR: L-valine biosynthetic process HOT 3
- Taxon constraint: GO:0035658 Mon1-Ccz1 complex
- Taxon constraint: GO:0004131 cytosine deaminase activity
- NTR: mitochondrion membrane tether activity HOT 1
- Mapping file from KO to GO HOT 1
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