search

geneontology / go-ontology

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

remove obsolete EC 2.1.1.125/126 from entries #17843

Closed rwst closed 5 years ago

rwst commented 5 years ago

enzyme.dat:

ID   2.1.1.125
DE   Transferred entry: 2.1.1.319, 2.1.1.320, 2.1.1.321 and 2.1.1.322.
//
ID   2.1.1.126
DE   Transferred entry: 2.1.1.319, 2.1.1.320, 2.1.1.321 and 2.1.1.322.

We still have:

id: GO:0016273
name: arginine N-methyltransferase activity
def: "Enables the transfer of a methyl group from S-adenosyl-L-methionine to an amino group of an arginine residue." [GOC:mah]
xref: EC:2.1.1.125

also several synonym mappings to [EC:2.1.1.125] and [EC:2.1.1.126], and a comment [EC:2.1.1.125] in a definition

hdrabkin commented 5 years ago

I could make each of these entries. Maybe old term can be parent as seems very generic. Then any annotations would need to be transfered to the correct term?

EC 2.1.1.319 RHEA:48096 GO:0035242 This eukaryotic enzyme catalyzes the sequential dimethylation of one of the terminal guanidino nitrogen atoms in arginine residues, resulting in formation of asymmetric dimethylarginine residues. EC 2.1.1.320 RHEA:48108 GO:0035243 The enzyme catalyzes the methylation of one of the terminal guanidino nitrogen atoms in arginine residues within proteins, forming monomethylarginine, followed by the methylation of the second terminal nitrogen atom to form a symmetrical dimethylarginine. EC 2.1.1.321 RHEA:48100 GO:0035241 Type III protein arginine methyltransferases catalyze the single methylation of one of the terminal nitrogen atoms of the guanidino group in an L-arginine residue within a protein. Unlike type I and type II protein arginine methyltransferases, which also catalyze this reaction, type III enzymes do not methylate the substrate any further. EC 2.1.1.322 RHEA:48116 GO:0019702 methylates the the Delta-nitrogen atom of arginine residues within proteins.

rwst commented 5 years ago

Agree! :+1:

hdrabkin commented 5 years ago

I could use the RHEA defs directly, or just keep the EC defs for now

hdrabkin commented 5 years ago

Theses terms were already in GO with different names and more textual definitions but having the EC cross refs. Adding RHEA to these to fix. (eventual def will come from RHEA). Done