sjm41
commented
3 months ago This issue has been addressed elsewhere - closing.
We now have:
id: GO:0033976 name: 2-haloacid dehalogenase (configuration-inverting) activity namespace: molecular_function def: "Catalysis of the reactions: an (S)-2-haloacid + H2O = a (2R)-2-hydroxycarboxylate + a halide anion + H+, and an (R)-2-haloacid + H2O = a (2S)-2-hydroxycarboxylate + a halide anion + H+." [EC:3.8.1.10] synonym: "2-haloalkanoic acid dehalogenase activity" BROAD [EC:3.8.1.10] synonym: "2-haloalkanoid acid halidohydrolase activity" BROAD [] synonym: "DL-2-haloacid dehalogenase (inversion of configuration) activity" RELATED [] synonym: "DL-2-haloacid dehalogenase activity" BROAD [] synonym: "DL-2-haloacid halidohydrolase (inversion of configuration) activity" RELATED [] synonym: "DL-DEXi" RELATED [] xref: EC:3.8.1.10 {source="skos:exactMatch"} xref: MetaCyc:2-HALOACID-DEHALOGENASE-RXN {source="skos:exactMatch"} is_a: GO:0019120 ! hydrolase activity, acting on acid halide bonds, in C-halide compounds property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28188" xsd:anyURI
id: GO:0018778 name: obsolete DL-2 haloacid dehalogenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: trichloroacetate + 2 H2O = 3 H+ + 3 Cl- + oxalate." [PMID:7068529] comment: This term was obsoleted because it corresponds to (R)-2-haloacid dehalogenase activity ; GO:0033975 and (S)-2-haloacid dehalogenase ; GO:0018784. property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28188" xsd:anyURI is_obsolete: true consider: GO:0018784 consider: GO:0033975
https://enzyme.expasy.org/EC/3.8.1.10 ENZYME entry: 3.8.1.10 Accepted Name: 2-haloacid dehalogenase (configuration-inverting) Alternative names: 2-haloalkanoic acid dehalogenase, 2-haloalkanoid acid halidohydrolase, DL-2-haloacid dehalogenase, DL-2-haloacid dehalogenase (inversion of configuration), DL-2-haloacid halidohydrolase (inversion of configuration), DL-DEXi Reaction catalysed: an (S)-2-haloacid + H2O <=> a (2R)-2-hydroxycarboxylate + a halide anion + H(+) an (R)-2-haloacid + H2O <=> a (2S)-2-hydroxycarboxylate + a halide anion + H(+)
This EC appears on these two GO terms:
id: GO:0018778 name: DL-2 haloacid dehalogenase activity def: "Catalysis of the reaction: trichloroacetate + 2 H2O = 3 H+ + 3 Cl- + oxalate." [UM-BBD_reactionID:r0382] xref: EC:3.8.1.10 xref: MetaCyc:RXN-9150 xref: UM-BBD_reactionID:r0382 is_a: GO:0019120 ! hydrolase activity, acting on acid halide bonds, in C-halide compounds
id: GO:0033976 name: 2-haloacid dehalogenase (configuration-inverting) activity def: "Catalysis of the reactions: (S)-2-haloacid + H2O = (R)-2-hydroxyacid + halide, and (R)-2-haloacid + H2O = (S)-2-hydroxyacid + halide." [GOC:curators] synonym: "2-haloalkanoic acid dehalogenase activity" BROAD [EC:3.8.1.10] synonym: "2-haloalkanoid acid halidohydrolase activity" BROAD [] synonym: "DL-2-haloacid dehalogenase (inversion of configuration) activity" RELATED [] synonym: "DL-2-haloacid dehalogenase activity" BROAD [] synonym: "DL-2-haloacid halidohydrolase (inversion of configuration) activity" RELATED [] synonym: "DL-DEXi" RELATED [] xref: MetaCyc:3.8.1.10-RXN is_a: GO:0019120 ! hydrolase activity, acting on acid halide bonds, in C-halide compounds
I think GO:0018778 should either be obsoleted or merged with GO:0033976 because:
If merging, then transfer the EC:3.8.1.10 xref (but not the MetaCyc:RXN-9150 xref) to GO:0033976.