davB

UniProt ID: Q88QV1
Organism: Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)
Review Status: DRAFT
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Gene Description

DavB is the flavin-dependent lysine 2-monooxygenase that initiates the bacterial Dav pathway by oxidatively decarboxylating L-lysine to 5-aminopentanamide. DavA then hydrolyzes this intermediate to 5-aminovalerate.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0016491 oxidoreductase activity
IEA
GO_REF:0000120 		MARK AS OVER ANNOTATED
Summary: Correct but uninformative oxidoreductase parent.
Reason: The substrate-specific lysine 2-monooxygenase term captures the core activity.
GO:0050067 L-lysine 2-monooxygenase activity
IEA
GO_REF:0000120 		ACCEPT
Summary: Correct enzyme-specific activity for the DavB reaction.
Reason: Purified KT2440 DavB directly oxidizes L-lysine to 5-aminopentanamide, supporting an experimental evidence upgrade beyond the current IEA row despite the conflicting automated UniProt product name.
Supporting Evidence:
PMID:25012259
DavB is a FAD-dependent monooxygenase that catalyzes oxidative decarboxylation of l-lysine
PMID:31064836
the oxidation of lysine to 5-aminopentanamide by DavB and its subsequent deamination to 5AVA by DavA
GO:0019477 L-lysine catabolic process
IMP
PMID:16237033
Multiple and interconnected pathways for L-lysine catabolism... 		NEW
Summary: Add the genetically established Dav-pathway biological process.
Reason: KT2440 mutant analysis identifies davB in the aminovalerate pathway required for use of L-lysine as sole carbon and nitrogen source.
Supporting Evidence:
PMID:16237033
Mutants with mutations in either pathway failed to use L-lysine as the sole carbon and nitrogen source
PMID:16237033
New genes were identified in both pathways, including the davB and davA genes that encode the enzymes involved in the oxidation of L-lysine to delta-aminovaleramide and the hydrolysis of the latter to delta-aminovalerate, respectively.

Core Functions

Oxidatively decarboxylates L-lysine to 5-aminopentanamide in the first reaction of the Dav catabolic route.

Molecular Function:
lysine 2-monooxygenase activity
Directly Involved In:
L-lysine catabolic process
Supporting Evidence:
  • PMID:25012259
    DavB is a FAD-dependent monooxygenase that catalyzes oxidative decarboxylation of l-lysine
  • PMID:31064836
    the oxidation of lysine to 5-aminopentanamide by DavB and its subsequent deamination to 5AVA by DavA

References

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Suggested Questions for Experts

Q: Which active-site determinants distinguish DavB lysine 2-monooxygenases from tryptophan 2-monooxygenases?

Suggested Experiments

Experiment: Measure purified DavB turnover with L-lysine and L-tryptophan, identify the flavin cofactor, and test davB complementation during growth on L-lysine.

📚 Additional Documentation

Notes

(davB-notes.md)

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