gocentral
commented
9 years ago I think 'regulation of protein stability' is fine. I've tweaked the def very slightly, making it more clearly applicable:
"Any process that affects the structure and integrity of a protein by altering the likelihood of its degradation or aggregation."
"Any process that affects the structure and integrity of a protein by altering the likelihood of its degradation or aggregation."
This is also justified in that it puts this def in sync with the subclass 'protein destabilization':
"Any process that decreases the stability of a protein, making it more vulnerable to degradative processes or aggregation."
Original comment by: dosumis
Hello,
We are looking for a term to describe the role of Bag6 and the Bag6/BAT3 complex during ERAD (ER-associated protein degradation) (PMID:21636303)
Bag6 contains a chaperone-like activity (holdase) that maintains an aggregation-prone substrate in an unfolded yet soluble state, a condition that favours their turnover by the proteasome.
The existing term ‘protein stabilization ; GO:0050821’ doesn’t fit (Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation) because Bag6 is promoting protein degradation and is maintaining its lack-of-structure.
One suggestion (though we are after better ideas!) is:
regulation of protein stability ; GO:0031647 —[isa]maintenance of unfolded protein ; GO:NEW1 ——[isa]maintenance of unfolded protein involved in ERAD pathway ; GO:NEW2
maintenance of unfolded protein ; GO:NEW1 Maintaining a protein in an unfolded, soluble state. related synonym: negative regulation of protein aggregation related synonym: positive regulation of protein solubility GOC:PARL, GOC:BHF GOC:bf, GOC:nc
maintenance of unfolded protein involved in ERAD pathway ; GO:NEW2 Maintaining an endoplasmic reticulum (ER) protein in an unfolded, soluble state that contributes to its degradation by the cytoplasmic proteasome. Maintaining ER-resident proteins in an unfolded yet soluble state condition after their retro-translocation favors their turnover by the cytosolic proteasome. related synonym: holdase activity [21636303, 23417671] related synonym: chaperone holdase activity [21636303, 23417671] PMID: 21636303 PMID: 23417671 GOC:PARL, GOC:BHF GOC:bf, GOC:nc
The Bag6 complex also chaperones/shuttles proteins from the translocon in the ER to the cytosolic proteasome. So suggested new terms for this part of its role are:
protein localization to organelle ; GO:0033365 —[isa]protein localization to proteasome ; GO:NEW1 ——[isa]protein localization to cytosolic proteasome ; GO:NEW2 ———[isa]protein localisation to cytosolic proteasome involved in ERAD pathway ; GO:NEW3
protein localization to proteasome ; GO:NEW1 A cellular protein localization process in which a protein is transported to, or maintained at, the proteasome. intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0000502 ! proteasome complex
protein localization to cytosolic proteasome ; GO:NEW2 A cellular protein localization process in which a protein is transported to, or maintained at, the cytosolic proteasome. intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0031597 ! cytosolic proteasome complex
protein localisation to cytosolic proteasome involved in ERAD pathway ; GO:NEW3 part_of: GO:0036503 (ERAD pathway)
Thanks, Nancy and Rebecca
I'm happy to do edits, but am after suggestions for better placement/naming of the holdase term.
Reported by: rebeccafoulger
Original Ticket: geneontology/ontology-requests/11714