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GO terms for EC:1.14.14.180 #28224

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sjm41 opened this issue Jun 20, 2024 · 1 comment
Closed

GO terms for EC:1.14.14.180 #28224

sjm41 opened this issue Jun 20, 2024 · 1 comment

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@sjm41
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sjm41 commented Jun 20, 2024

I think these three terms should be merged into a single term matching EC:1.14.14.180.

Problems is that EC name and def are specific:
brassinolide synthase
castasterone + O2 + reduced [NADPH--hemoprotein reductase] <=> brassinolide + H(+) + H2O + oxidized [NADPH--hemoprotein reductase]

Whereas EC comment says:
This cytochrome P450 (heme thiolate) plant enzyme catalyzes the lactonization of several brassinosteroids, including castasterone, teasterone, and typhasterol.

id: GO:0102734 (3 annotations, 1 EXP)
name: brassinolide synthase activity
namespace: molecular_function
def: "Catalysis of the reaction: castasterone + O2 + reduced [NADPH--hemoprotein reductase] = brassinolide + H+ + H2O + oxidized [NADPH--hemoprotein reductase]." [RHEA:69923]
xref: EC:1.14.14.180 {source="skos:broadMatch"}
xref: MetaCyc:RXN-720 {source="skos:exactMatch"}
xref: RHEA:69923 {source="skos:exactMatch"}
is_a: GO:0016712 ! 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
property_value: term_tracker_item "#28199" xsd:anyURI

id: GO:0102137 (0 annotations)
name: 7-oxateasterone synthase activity
namespace: molecular_function
def: "Catalysis of the reaction: O2 + reduced [NADPH--hemoprotein reductase] + teasterone = 7-oxateasterone + H+ + H2O + oxidized [NADPH--hemoprotein reductase]." [RHEA:70015]
xref: EC:1.14.14.180 {source="skos:broadMatch"}
xref: MetaCyc:RXN-11537 {source="skos:exactMatch"}
xref: RHEA:70015 {source="skos:exactMatch"}
is_a: GO:0016712 ! 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
property_value: term_tracker_item "#28199" xsd:anyURI

id: GO:0102138 (0 annotations)
name: 7-oxatyphasterol synthase activity
namespace: molecular_function
def: "Catalysis of the reaction: O2 + reduced [NADPH--hemoprotein reductase] + typhasterol = 7-oxatyphasterol + H+ + H2O + oxidized [NADPH--hemoprotein reductase]." [RHEA:70019]
xref: EC:1.14.14.180 {source="skos:broadMatch"}
xref: MetaCyc:RXN-11538 {source="skos:exactMatch"}
xref: RHEA:70019 {source="skos:exactMatch"}
is_a: GO:0016712 ! 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
property_value: term_tracker_item "#28199" xsd:anyURI

@sjm41 sjm41 added this to To do in GO-EC-RHEA xref alignment via automation Jun 20, 2024
pgaudet added a commit that referenced this issue Jul 5, 2024
@pgaudet pgaudet closed this as completed in 571e4d0 Jul 5, 2024
GO-EC-RHEA xref alignment automation moved this from To do to Done Jul 5, 2024
@sjm41
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sjm41 commented Jul 8, 2024

Thanks @pgaudet !

The final term now looks like this:
id: GO:0102734
name: brassinolide synthase activity
namespace: molecular_function
def: "Catalysis of the reaction: castasterone + O2 + reduced [NADPH--hemoprotein reductase] = brassinolide + H+ + H2O + oxidized [NADPH--hemoprotein reductase]. Broad specificity for several brassinosteroids, including castasterone, teasterone, and typhasterol." [RHEA:69923]
xref: EC:1.14.14.180 {source="skos:broadMatch"}
xref: MetaCyc:RXN-720 {source="skos:exactMatch"}
xref: RHEA:69923 {source="skos:exactMatch"}
xref: RHEA:70015 {source="skos:narrowMatch"}
xref: RHEA:70019 {source="skos:narrowMatch"}
is_a: GO:0016712 ! 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
property_value: term_tracker_item "#28199" xsd:anyURI

I think the EC should be exactMatch and RHEA:69923 should be narrowMatch, with the EC used as the def xref.
I'll go ahead and change those now.

@sjm41 sjm41 reopened this Jul 8, 2024
GO-EC-RHEA xref alignment automation moved this from Done to In progress Jul 8, 2024
sjm41 added a commit that referenced this issue Jul 8, 2024
sjm41 added a commit that referenced this issue Jul 8, 2024
@sjm41 sjm41 closed this as completed Jul 8, 2024
GO-EC-RHEA xref alignment automation moved this from In progress to Done Jul 8, 2024
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