pyrE

Existing Annotations Review

GO Term	Evidence	Action	Reason
GO:0000287 magnesium ion binding	IEA GO_REF:0000104	KEEP AS NON CORE	Summary: Magnesium is the annotated cofactor for PyrE. Reason: Cofactor binding supports catalysis but is not the primary function. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
GO:0004588 orotate phosphoribosyltransferase activity	IEA GO_REF:0000120	ACCEPT	Summary: PyrE transfers phosphoribose from PRPP to orotate to form OMP. Reason: The reviewed entry assigns EC 2.4.2.10 and Rhea 10380. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt EC=2.4.2.10 file:PSEPK/pyrE/pyrE-deep-research-openscientist.md Q88C92 is a bona fide OPRTase
GO:0005737 cytoplasm	IEA GO_REF:0000118	KEEP AS NON CORE	Summary: PyrE is a soluble biosynthetic enzyme expected in the bacterial cytoplasm. Reason: Plausible and useful localization, but secondary to the catalytic and pathway annotations.
GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process	IEA GO_REF:0000118	MARK AS OVER ANNOTATED	Summary: PyrE acts in de novo pyrimidine synthesis. Reason: Retain the more specific de novo UMP process. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt PATHWAY: Pyrimidine metabolism; UMP biosynthesis via de novo pathway;
GO:0006221 pyrimidine nucleotide biosynthetic process	IEA GO_REF:0000120	MARK AS OVER ANNOTATED	Summary: This process parent is correct but broad. Reason: Retain GO:0044205. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt UMP biosynthesis via de novo pathway
GO:0044205 'de novo' UMP biosynthetic process	IEA GO_REF:0000120	ACCEPT	Summary: PyrE performs the first of two reactions converting orotate to UMP. Reason: The reviewed record assigns this exact pathway step. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt UMP from orotate: step 1/2.
GO:0046132 pyrimidine ribonucleoside biosynthetic process	IEA GO_REF:0000118	REMOVE	Summary: PyrE forms the nucleotide OMP, not a pyrimidine ribonucleoside. Reason: This TreeGrafter process transfer does not match the phosphorylated product of the reaction. Supporting Evidence: file:PSEPK/pyrE/pyrE-uniprot.txt orotidine monophosphate (OMP).