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Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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GO:0101020 estrogen 16-alpha-hydroxylase activity with no cross reference #29025

Closed raymond91125 closed 2 days ago

raymond91125 commented 1 month ago

See https://github.com/geneontology/go-ontology/issues/28340.

GO:0101020 estrogen 16-alpha-hydroxylase activity lacks a published xref.

"The four major naturally occurring estrogens in women are estrone (E1), estradiol (E2), estriol (E3), and estetrol (E4" (https://en.wikipedia.org/wiki/Estrogen). Thus, this activity may apply to 4 or more reactions, one for each estrogen substrate.

The super class activity is probably EC:1.14.14.1 unspecific monooxygenase , RHEA:17149, that is GO:0070330 aromatase activity, based on the the shared UniProt annotation of all genes annotated (EXP) with GO:0101020. RHEA:17149 has many specific reactions listed but those may not be exhaustive.

Some possible relevant RHEAs RHEA:47204 estrone + O2 + reduced [NADPH--hemoprotein reductase] = 16alpha-hydroxyestrone + H(+) + H2O + oxidized [NADPH--hemoprotein reductase] RHEA:47260 O2 + progesterone + reduced [NADPH--hemoprotein reductase] = 16alpha-hydroxyprogesterone + H(+) + H2O + oxidized [NADPH--hemoprotein reductase] RHEA:47332 17beta-estradiol + O2 + reduced [NADPH--hemoprotein reductase] = 16alpha,17beta-estriol + H(+) + H2O + oxidized [NADPH--hemoprotein reductase] RHEA:53216 17alpha-hydroxyprogesterone + O2 + reduced [NADPH--hemoprotein reductase] = 16alpha,17alpha-dihydroxyprogesterone + H(+) + H2O + oxidized [NADPH--hemoprotein reductase]

raymond91125 commented 1 month ago

GO:0070330 aromatase activity is not XREF'ed to EC:1.14.14.1 anymore (https://github.com/geneontology/go-ontology/issues/28295). There is now no exact match to EC:1.14.14.1.

pgaudet commented 1 month ago

hi @raymond91125

Please update definition and parent to match the RHEA reaction.

Thanks, Pascale

pgaudet commented 3 days ago

Based on the ChEBI hierarchy, progesterone is not an estrogen, so I removed the mappings to RHEA:47260 O2 + progesterone + reduced [NADPH--hemoprotein reductase] = 16alpha-hydroxyprogesterone + H(+) + H2O + oxidized [NADPH--hemoprotein reductase] and RHEA:53216 17alpha-hydroxyprogesterone + O2 + reduced [NADPH--hemoprotein reductase] = 16alpha,17alpha-dihydroxyprogesterone + H(+) + H2O + oxidized [NADPH--hemoprotein reductase]

pgaudet commented 3 days ago

Fixed definition to match RHEA Catalysis of the reaction: estrogen + reduced [NADPH--hemoprotein reductase] + O2 = 16-alpha-hydroxyestrogen + oxidized [NADPH--hemoprotein reductase] + H2O.

ie reduced [NADPH--hemoprotein reductase] rather than the generic AH2 acceptor.

pgaudet commented 3 days ago

Changed parent from GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen

to more specific 'oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen' (since donor is reduced [NADPH--hemoprotein reductase] )