Gene Ontology annotation through association of InterPro records with GO terms
Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity
Automatic Gene Ontology annotation based on Rhea mapping
Electronic Gene Ontology annotations created by ARBA machine learning models
TreeGrafter-generated GO annotations
Combined Automated Annotation using Multiple IEA Methods
UniProtKB entry Q88RC0 for Pseudomonas putida KT2440 davD
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The reviewed record identifies DavD as glutarate-semialdehyde dehydrogenase.
"RecName: Full=Glutarate-semialdehyde dehydrogenase"
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The assigned reaction uses 5-oxopentanoate and NADP+ to form glutarate.
"Reaction=5-oxopentanoate + NADP(+) + H2O = glutarate + NADPH + 2 H(+)"
Massively Parallel Fitness Profiling Reveals Multiple Novel Enzymes in Pseudomonas putida Lysine Metabolism.
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Fitness profiling connects davD to growth on both 5AVA and L-lysine.
"Only 3 genes shared fitness defects between 5AVA and l-lysine (davT, davD, and lghO), and all three have been previously implicated in 5AVA metabolism"
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DavD abundance responds most strongly to 5AVA.
"As previously observed, DavT and DavD were most strongly upregulated on 5AVA"
OpenScientist deep research report for PSEPK davD
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OpenScientist recovered Q88RC0/PP_0213 as glutarate semialdehyde dehydrogenase but inferred NAD+/EC 1.2.1.20 rather than the UniProt NADP+ Rhea reaction.
"**Supported:** DavD is a cytoplasmic NAD⁺-dependent glutarate-semialdehyde dehydrogenase catalyzing glutarate semialdehyde → glutarate (EC 1.2.1.20) as the terminal step of the 5-aminovalerate branch of L-lysine catabolism."
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The report notes that PP_0213 cofactor preference has not been directly measured.
"NAD⁺ dependence is expected for the catabolic direction and consistent with family membership, but the strict NAD⁺-vs-NADP⁺ preference of PP_0213 has not been directly measured in the reviewed papers."