PTHR11559: Difference between revisions
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**Since acetic acid is a carboxylic acid, acetylcholine is an acylcholine. | **Since acetic acid is a carboxylic acid, acetylcholine is an acylcholine. | ||
**'''Curator answer: '''"I just checked with ChEBI. I think the [above] is true, but not the [BP assertion below], as long as cholinesterase really does only work on acylcholines. A choline ester is not a choline in ChEBI, so the latter is not true. [We] are starting to work through the GO-ChEBI misalignements. We will put this one at the top of the list." | **'''Curator answer: '''"I just checked with ChEBI. I think the [above] is true, but not the [BP assertion below], as long as cholinesterase really does only work on acylcholines. A choline ester is not a choline in ChEBI, so the latter is not true. [We] are starting to work through the GO-ChEBI misalignements. We will put this one at the top of the list." | ||
***http://wiki.geneontology.org/index.php/Chemical_terms_in_GO | |||
*'''Question: '''GO:0017171 "serine hydrolase activity" is defined as "Catalysis of the hydrolysis of a substrate by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile ..." In other words, the definition specifies a reaction mechanism. Is this a valid use of GO? | *'''Question: '''GO:0017171 "serine hydrolase activity" is defined as "Catalysis of the hydrolysis of a substrate by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile ..." In other words, the definition specifies a reaction mechanism. Is this a valid use of GO? | ||
**'''Curator answer: '''Insert answer here. | **'''Curator answer: '''Insert answer here. | ||
Revision as of 12:28, 21 March 2011
This is a list of questions that arose while PAINTing PTHR11559.
Questions for ontology curators
Molecular Function
- Question: Shouldn't GO:0003990 "acetylcholinesterase activity" be a child of GO:0004104 "cholinesterase activity"? (SF# 3220868)
- GO:0004104 "cholinesterase activity" is defined as "Catalysis of the reaction: an acylcholine + H2O = choline + a carboxylic acid anion."
- Acylcholine (CHEBI:35287) is defined as "A choline ester formed from choline and a carboxylic acid."
- GO:0003990 "acetylcholinesterase activity" is defined as "Catalysis of the reaction: acetylcholine + H2O = choline + acetate."
- Acetylcholine (CHEBI:15355) "is an ester of acetic acid and choline..."
- Since acetic acid is a carboxylic acid, acetylcholine is an acylcholine.
- Curator answer: "I just checked with ChEBI. I think the [above] is true, but not the [BP assertion below], as long as cholinesterase really does only work on acylcholines. A choline ester is not a choline in ChEBI, so the latter is not true. [We] are starting to work through the GO-ChEBI misalignements. We will put this one at the top of the list."
- GO:0004104 "cholinesterase activity" is defined as "Catalysis of the reaction: an acylcholine + H2O = choline + a carboxylic acid anion."
- Question: GO:0017171 "serine hydrolase activity" is defined as "Catalysis of the hydrolysis of a substrate by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile ..." In other words, the definition specifies a reaction mechanism. Is this a valid use of GO?
- Curator answer: Insert answer here.
Biological Process
- Question: Similar to the MF annotations above, shouldn't GO:0008291 "acetylcholine metabolic process" be a child of GO:0019695 "choline metabolic process"? (SF# 3220868)
- Curator answer: Probably not. See above.