PP_3205 encodes a fumarylacetoacetate-hydrolase-family protein in the KT2440 flavonoid-degradation locus. KEGG assigns it to FdeI orthology group K26185 and predicts two late reactions: decarboxylation of a flavonoid-derived beta-keto acid (R13078) followed by water elimination (R13079). Neither reaction has been demonstrated directly, and KEGG marks both as unclear, so its molecular function is unresolved.
Definition: Catalysis of decarboxylation of 5-hydroxy-5-(4-hydroxyphenyl)-3-oxopentanoate to 4-hydroxy-4-(4-hydroxyphenyl)-butan-2-one and carbon dioxide.
Justification: KEGG R13078 specifies the predicted FdeI substrate and product. The term is proposed for use if the reaction is demonstrated; it is not asserted for PP_3205 now.
Parent term: carboxy-lyase activity
Supporting Evidence:
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0003824 catalytic activity | IEA GO_REF:0000002 | ACCEPT | Summary: Catalytic activity is as specific as the evidence allows: FAH-fold membership establishes an enzyme, but not which reaction class. Reason: FAH-family catalytic-domain membership supports enzymatic activity. A more specific term is not supported: the FAH fold includes hydrolases, decarboxylases, isomerases and hydratases, and both K26185 reactions (R13078 decarboxylation, R13079 water elimination) are KEGG predictions that neither this protein nor Hsero_1011 has been shown to catalyse, so catalytic activity is as specific as the evidence supports. The predicted decarboxylase role is carried in the knowledge gap and proposed term, matching the Hsero_1011, FdeH and FdeJ reviews. Supporting Evidence: file:PSEPK/PP_3205/PP_3205-uniprot.txt InterPro; IPR011234; Fumarylacetoacetase-like_C. file:PSEPK/PP_3205/PP_3205-bioinformatics/RESULTS.md Neither reaction has been demonstrated for either protein. |
| GO:0046275 flavonoid catabolic process | ISS file:PSEPK/PP_3205/PP_3205-bioinformatics/RESULTS.md | REMOVE | Summary: Withdraw the inherited FdeI process proposal; an individual flavonoid-catabolic step has not been established. Reason: The conserved locus and orthology identify a candidate FdeI protein, but the FAH fold and similarity to unassayed Hsero_1011 do not establish either proposed R13078/R13079 transformation. The available whole-operon phenotype, including the probably polar fdeA insertion, does not show which step this individual protein performs. There is no independently assayed donor for this particular role; the corresponding BRADU comparator bll6422 likewise carries no process assertion. Retain the original source payload and row position while withdrawing the active proposal. The retired flag records this curator decision, not disappearance of an upstream GOA row or proof of biological absence. Native participation remains an open question. REMOVE records withdrawal of this earlier curator-authored NEW proposal, not removal of a current GOA assertion. It does not claim that the protein is biologically incapable of participating in flavonoid catabolism. Supporting Evidence: file:PSEPK/PP_3205/PP_3205-bioinformatics/RESULTS.md KEGG target mapping: `ppu:PP_3205 -> ko:K26185` file:PSEPK/PP_3205/PP_3205-bioinformatics/RESULTS.md Pairwise identity over aligned residue pairs: 62.3% file:PSEPK/PP_3205/PP_3205-deep-research-openscientist.md The exact FdeI substrate/product and kinetics are unknown; the KEGG-listed reactions R13078/R13079 are provisional |
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Download this section (compressed HTML)Q: Does PP_3205 catalyze both R13078 and R13079, or is water elimination spontaneous or enzyme-independent?
Experiment: Purify PP_3205 and assay the two predicted substrates separately and sequentially, measuring carbon dioxide release and product formation.
Type: biochemical reconstitution and targeted metabolomics
What is not known β curated, literature-grounded statements of the open unknowns (the inverse of core functions).
Gap: Neither R13078 nor R13079 has been demonstrated for PP_3205 or Hsero_1011.
OPEN BIOLOGY
What is known: FdeI membership and pathway placement nominate a candidate; they do not establish which native flavonoid-catabolic step the target performs. The inherited process proposal is retired pending participation evidence.
Significance: Direct assays are needed before treating either substrate-specific reaction as established.
What would resolve it: Reconstitute PP_3205 sequentially with the R13078 and R13079 substrates and identify products by LC-MS.
Provenance (the field's own admissions):
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