sad-II

Summary: The aldehyde-dehydrogenase substrate class is resolved to succinate-semialdehyde oxidation without selecting one nicotinamide cofactor.

Reason: PANTHER, the SSADH FunFam and GabD1-like CDD classification agree on succinate-semialdehyde oxidation. They are computational classifications, not independent target enzyme assays. For Sad-II, PTHR43217:SF1 is explicitly cofactor-general NAD(P), unlike the NADP-named Sad-I subgroup. It is compatible with the NAD-capacity FunFam but does not independently resolve acceptor preference. This is a substrate-specific semantic refinement to GO:0009013; live QuickGO does not currently place GO:0009013 below GO:0004030, so no is_a relationship between that pair is claimed. Neither the P. putida isoenzymes in PMID:3355840 nor Salmonella YneI in PMID:23229889 establishes a locus-specific 4HB, GABA or putrescine pathway.

Proposed replacements: succinate-semialdehyde dehydrogenase [NAD(P)+] activity

Summary: PP_3151 retains a qualified NAD-capacity inference; its measured acceptor preference is unresolved.

Reason: The exact Q88I50 NAD-dependent SSADH FunFam supplies positive functional-family evidence for NAD capacity. For Sad-II, PTHR43217:SF1 is explicitly cofactor-general NAD(P), unlike the NADP-named Sad-I subgroup. It is compatible with the NAD-capacity FunFam but does not independently resolve acceptor preference. Retention of GO:0004777 is therefore a compatible family-level inference, not a measured target-specific cofactor assignment. The live GO definition describes NAD-supported catalysis and does not assert exclusive NAD use or absence of NADP activity. PMID:3355840 separates P. putida NAD-preferring and NADP-dependent isoenzymes but does not map either to this locus; Salmonella YneI promiscuity in PMID:23229889 is contextual, not a target assay. The ARBA-only NADP keyword is not used as independent evidence in either direction. The core and broad-term refinements retain cofactor-general SSADH chemistry rather than using this inference to settle physiological acceptor choice.

Summary: The unspecified oxidoreductase reaction is resolved to succinate-semialdehyde oxidation without selecting one nicotinamide cofactor.

Reason: PANTHER, the SSADH FunFam and GabD1-like CDD classification agree on succinate-semialdehyde oxidation. They are computational classifications, not independent target enzyme assays. For Sad-II, PTHR43217:SF1 is explicitly cofactor-general NAD(P), unlike the NADP-named Sad-I subgroup. It is compatible with the NAD-capacity FunFam but does not independently resolve acceptor preference. GO:0009013 is a verified descendant of GO:0016491 and specifies the supported substrate while leaving NAD/NADP choice open. Neither the P. putida isoenzymes in PMID:3355840 nor Salmonella YneI in PMID:23229889 establishes a locus-specific 4HB, GABA or putrescine pathway.

Proposed replacements: succinate-semialdehyde dehydrogenase [NAD(P)+] activity

Summary: The NAD(P)-linked aldehyde/oxo-donor reaction is resolved to succinate-semialdehyde oxidation without selecting one nicotinamide cofactor.

Reason: PANTHER, the SSADH FunFam and GabD1-like CDD classification agree on succinate-semialdehyde oxidation. They are computational classifications, not independent target enzyme assays. For Sad-II, PTHR43217:SF1 is explicitly cofactor-general NAD(P), unlike the NADP-named Sad-I subgroup. It is compatible with the NAD-capacity FunFam but does not independently resolve acceptor preference. GO:0009013 is a verified descendant of GO:0016620 and specifies the supported substrate while leaving NAD/NADP choice open. Neither the P. putida isoenzymes in PMID:3355840 nor Salmonella YneI in PMID:23229889 establishes a locus-specific 4HB, GABA or putrescine pathway.

Proposed replacements: succinate-semialdehyde dehydrogenase [NAD(P)+] activity