GO_REF:0000002

Gene Ontology annotation through association of InterPro records with GO terms

GO_REF:0000117

Electronic Gene Ontology annotations created by ARBA machine learning models

DOI:10.3390/microorganisms12010115

Regulatory role of GgaR (YegW) for glycogen accumulation in Escherichia coli K-12.

yegV is part of the yegTUV operon (~3.3 kb transcript), repressed by the single-target regulator GgaR/YegW. ADPG disrupts GgaR-DNA binding. Deletion of ggaR causes ~30-fold higher yegTUV mRNA and increased glycogen accumulation, linking the operon to carbon/glycogen metabolism.

"yegV is described as the putative sugar kinase within the yegTUV operon; deletion of ggaR yields ~30-fold higher yegTUV mRNA and increased glycogen accumulation"

DOI:10.3390/proteomes9020016

The protein interactome of glycolysis in Escherichia coli.

YegV (P76419) appears as a highly conserved (Top 10%) candidate interactor of the glycolytic enzyme GpmI in high-throughput PPI analysis, suggesting possible integration with central carbon metabolism.

"YegV is listed as an uncharacterized sugar kinase and a Top 10% conserved candidate interactor of the glycolytic enzyme GpmI"

DOI:10.1128/JB.01214-10

Novel Members of the Cra Regulon Involved in Carbon Metabolism in <i>Escherichia coli</i>

A Cra-associated site is reported at/near yegTUV, suggesting the locus may connect to broader carbon-metabolism regulation via Cra.

"Cra-associated site reported at/near yegTUV locus"

PMID:40703034

Limitations of current machine learning models in predicting enzymatic functions for uncharacterized proteins.

YegV (b2100) is a member of a sugar kinase superfamily where DeepECTF incorrectly predicted EC 2.7.1.92 (dehydro-2-deoxygluconokinase), an activity that actually belongs to KdgK (b3526)

"For example, b2100 was annotated as a dehydro-2-deoxygluconokinase (EC 2.7.1.92) using DeepECTF and as an uncharacterized sugar kinase YegV (EC 2.7.1.-) in UniProt (Supplementary Table 1b)"
The specific substrate of YegV is unknown; only the first three EC digits (2.7.1) are reliably predicted, while the fourth digit specifying substrate was incorrectly propagated from a paralog

"These 2 predictions differ by the fourth or last position of the EC number that specifies substrate specificity. This protein is a member of a superfamily of sugar kinases with multiple nonisofunctional paralogous subgroups that phosphorylate different substrates"
The dehydro-2-deoxygluconokinase activity is encoded by KdgK/b3526, not YegV, and the misprediction illustrates overpropagation error from nonisofunctional paralogs

"The dehydro-2-deoxygluconokinase (EC 2.7.1.92) activity is encoded by another member of this superfamily KdgK/b3526 (Supplementary Table 1d, bottom). Here, DeepECTF predicted correctly the first 3 digits of the EC number but not the last, making an overpropagation mistake (error 6 in Table 1 and Fig. 1)"