galC encodes 4-carboxy-4-hydroxy-2-oxoadipic acid aldolase, the terminal aldolase in the gallate degradation pathway. GalC cleaves CHA to pyruvate and oxaloacetate, linking gallate-derived carbon to central metabolism.
Definition: Catalysis of the cleavage of 4-carboxy-4-hydroxy-2-oxoadipate to pyruvate and oxaloacetate.
Justification: GalC has a characterized natural CHA cleavage reaction in gallate degradation; the current EC-mapped GO term label does not name this physiological substrate.
Parent term: oxo-acid-lyase activity
Supporting Evidence:
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0016833 oxo-acid-lyase activity | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Oxo-acid-lyase activity is correct but generic for the GalC aldolase reaction. Reason: Retain as a broad enzyme-class term while using the EC-derived aldolase term for the core molecular function. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids |
| GO:0019336 phenol-containing compound catabolic process | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: Phenol-containing compound catabolic process is a broad parent relative to the characterized gallate pathway. Reason: The direct pathway term GO:0019396 gallate catabolic process is more precise and experimentally supported. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids file:PSEPK/galC/galC-deep-research-falcon.md GalC is the terminal carbon–carbon cleavage step that converts the ring-cleavage-derived intermediate (CHA) into **pyruvate + oxaloacetate**, thereby completing conversion of an aromatic compound into central metabolism |
| GO:0042537 benzene-containing compound metabolic process | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: Benzene-containing compound metabolic process is too broad for the specific gallate degradation role. Reason: GalC should be annotated to gallate catabolism rather than this broad aromatic compound metabolism term. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids file:PSEPK/galC/galC-deep-research-falcon.md GalC is the terminal carbon–carbon cleavage step that converts the ring-cleavage-derived intermediate (CHA) into **pyruvate + oxaloacetate**, thereby completing conversion of an aromatic compound into central metabolism |
| GO:0047443 4-hydroxy-4-methyl-2-oxoglutarate aldolase activity | IEA GO_REF:0000120 | ACCEPT | Summary: The EC-derived aldolase term is the best available GO molecular-function term for GalC, although a CHA-specific term would be clearer. Reason: GO:0047443 is the current EC-mapped representation and this GOA row includes RHEA:28935 for the characterized CHA cleavage reaction. Its label names only the HMG substrate, so a CHA-specific synonym or narrower term remains desirable. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids file:PSEPK/galC/galC-uniprot.txt EC=4.1.3.17 file:PSEPK/galC/galC-deep-research-falcon.md GalC is identified as the **HMG/CHA aldolase** responsible for converting CHA into the TCA-cycle metabolites **pyruvate and oxaloacetate** |
| GO:0072329 monocarboxylic acid catabolic process | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: Monocarboxylic acid catabolic process is a generic inferred process term and is not the best pathway annotation. Reason: The characterized pathway is gallate catabolism; this broad process should not be retained as the functional conclusion. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids file:PSEPK/galC/galC-deep-research-falcon.md GalC is the terminal carbon–carbon cleavage step that converts the ring-cleavage-derived intermediate (CHA) into **pyruvate + oxaloacetate**, thereby completing conversion of an aromatic compound into central metabolism |
| GO:0047443 4-hydroxy-4-methyl-2-oxoglutarate aldolase activity | EXP PMID:21219457 Unravelling the gallic acid degradation pathway in bacteria:... | ACCEPT | Summary: The EC-derived aldolase term is the best available GO molecular-function term for GalC, although a CHA-specific term would be clearer. Reason: GO:0047443 is the current EC-mapped representation of the experimentally characterized CHA cleavage reaction. Its label names only the HMG substrate, so a CHA-specific synonym or narrower term remains desirable. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids file:PSEPK/galC/galC-uniprot.txt EC=4.1.3.17 |
| GO:0016833 oxo-acid-lyase activity | IDA PMID:21219457 Unravelling the gallic acid degradation pathway in bacteria:... | KEEP AS NON CORE | Summary: Oxo-acid-lyase activity is correct but generic for the GalC aldolase reaction. Reason: Retain as a broad enzyme-class term while using the EC-derived aldolase term for the core molecular function. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids |
| GO:0019396 gallate catabolic process | IDA PMID:21219457 Unravelling the gallic acid degradation pathway in bacteria:... | ACCEPT | Summary: Gallate catabolic process is the correct biological process for GalC. Reason: The KT2440 gal cluster paper identifies GalC as the aldolase catalyzing the final step of gallate degradation. Supporting Evidence: file:PSEPK/galC/galC-uniprot.txt Catalyzes the conversion of 4-carboxy-4-hydroxy-2-oxoadipic PMID:21219457 galC encodes the aldolase catalysing CHA cleavage to pyruvic and oxaloacetic acids |
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Download this section (compressed HTML)Q: Should GO represent GalC with a CHA-specific aldolase molecular-function term distinct from the current EC-name term?
Suggested experts: GO molecular function editors, Gallate catabolism experts
Experiment: Measure GalC kinetics with CHA and 4-hydroxy-4-methyl-2-oxoglutarate to determine whether the GO EC-name term or a CHA-specific term best captures physiological activity.
Type: substrate specificity assay
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