pgi2 (PP_4701) encodes a second glucose-6-phosphate isomerase, catalyzing reversible interconversion of D-glucose 6-phosphate and D-fructose 6-phosphate. In P. putida KT2440 this reaction is especially relevant to gluconeogenic and anabolic hexose-phosphate regeneration because glucose catabolism primarily uses the Entner-Doudoroff network rather than a complete forward EMP route.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0004347 glucose-6-phosphate isomerase activity | IEA GO_REF:0000120 | ACCEPT | Summary: glucose-6-phosphate isomerase activity is consistent with the curated UniProt name, EC/family evidence, and the gene product role summarized here. Reason: This is a specific, biologically appropriate annotation for this gene product. |
| GO:0005737 cytoplasm | IEA GO_REF:0000120 | ACCEPT | Summary: cytoplasm is consistent with the curated UniProt name, EC/family evidence, and the gene product role summarized here. Reason: This is a specific, biologically appropriate annotation for this gene product. |
| GO:0005829 cytosol | IEA GO_REF:0000118 | ACCEPT | Summary: cytosol is consistent with the curated UniProt name, EC/family evidence, and the gene product role summarized here. Reason: This is a specific, biologically appropriate annotation for this gene product. |
| GO:0006094 gluconeogenesis | IEA GO_REF:0000120 | ACCEPT | Summary: gluconeogenesis is consistent with the curated UniProt name, EC/family evidence, and the gene product role summarized here. Reason: This is a specific, biologically appropriate annotation for this gene product. |
| GO:0006096 glycolytic process | IEA GO_REF:0000120 | ACCEPT | Summary: glycolytic process is a defensible parent term for glucose-6-phosphate isomerase. Refining to GO:0061688 (glycolytic process via Entner-Doudoroff Pathway) is incorrect because the G6P<->F6P isomerization is an EMP/gluconeogenic step and is not part of the Entner-Doudoroff route (F6P is not an ED intermediate); accordingly the ED/gluconeogenesis module places glucose-6-phosphate isomerase under the gluconeogenic bypasses branch rather than the ED branch. GO:0061688 has since been obsoleted (GO release 2026-07-26, replaced_by GO:0006096), which leaves GO:0006096 as the only applicable term. Reason: Keep the existing glycolytic process annotation as-is; do not refine to the ED-specific child term since pgi is not an ED enzyme. |
| GO:0048029 monosaccharide binding | IEA GO_REF:0000118 | KEEP AS NON CORE | Summary: monosaccharide binding is biologically plausible for this enzyme but is ancillary to the more specific catalytic function. Reason: Retain as a supporting/non-core annotation rather than using it as the main functional summary. |
| GO:0051156 glucose 6-phosphate metabolic process | IEA GO_REF:0000118 | ACCEPT | Summary: glucose 6-phosphate metabolic process is consistent with the curated UniProt name, EC/family evidence, and the gene product role summarized here. Reason: This is a specific, biologically appropriate annotation for this gene product. |
| GO:0097367 carbohydrate derivative binding | IEA GO_REF:0000002 | MARK AS OVER ANNOTATED | Summary: carbohydrate derivative binding is a broad parent or generic domain-derived term that adds little beyond the specific catalytic annotation. Reason: The annotation is not necessarily false, but it is less informative than the specific molecular function already present. |
| GO:1901135 carbohydrate derivative metabolic process | IEA GO_REF:0000002 | MARK AS OVER ANNOTATED | Summary: carbohydrate derivative metabolic process is a broad parent or generic domain-derived term that adds little beyond the specific catalytic annotation. Reason: The annotation is not necessarily false, but it is less informative than the specific molecular function already present. |
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