search

geneontology / go-ontology

Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
Creative Commons Attribution 4.0 International
219 stars 40 forks source link

sequence-specific regulation of translation #15049

Closed slaulederkind closed 6 years ago

slaulederkind commented 6 years ago

I would like to see "sequence-specific regulation of translation”, “sequence-specific positive regulation of…” and "sequence-specific negative regulation of…” added to the GO ontology under the parent term "regulation of translation” (GO:0006417). The definitions could be "Any sequence-specific process that modulates/increases/decreases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.” Example can be found in PMID: 7523370.

pgaudet commented 6 years ago

Hi @slaulederkind

Can you use ' GO:0008494 translation activator activity'? It doesn't mention RNA binding but it's a parent of RNA binding. If needed we could probably add 'sequence-specific' in the term label (but at least RNA binding seems necessary).

What do you think ?

Thanks, Pascale

slaulederkind commented 6 years ago

"translation repressor activity, nucleic acid binding" (GO:0000900) should work, but I still think a granular BP term would be nice.

pgaudet commented 6 years ago

Hi @slaulederkind

In fact the definition of "translation repressor activity, nucleic acid binding" (GO:0000900) seems to describe what is reported in the paper quite well: Antagonizes the ribosome-mediated translation of mRNA into a polypeptide via direct binding (through a selective and non-covalent interaction) to nucleic acid.

How about if we changed the term label to "translation repressor activity, mRNA regulatory element binding"?

(Do you have examples of activators? GO:0008494 could perhaps be improved as well) .

Thanks, Pascale

slaulederkind commented 6 years ago

The term label change would be fine, as long as the current term label could be kept as a synonym. As for activators, I don't have any specific examples.