Journal Article

Characterization of a broadly specific cadaverine N-hydroxylase involved in desferrioxamine B biosynthesis in Streptomyces sviceus

Lountos, George T., Needle, Danielle, Giddings, Lesley-Ann, Kim, Kang Woo, Cherry, Scott, Tropea, Joseph E., Waugh, David S., Brockley, Matthew

2021

Overview

N -hydroxylating flavin-dependent monooxygenases (FMOs) are involved in the biosynthesis of hydroxamate siderophores, playing a key role in microbial virulence. Herein, we report the first structural and kinetic characterization of a novel alkyl diamine N -hydroxylase DesB from Streptomyces sviceus ( Ss DesB). This enzyme catalyzes the first committed step in the biosynthesis of desferrioxamine B, a clinical drug used to treat iron overload disorders. X-ray crystal structures of the Ss DesB holoenzyme with FAD and the ternary complex with bound NADP + were solved at 2.86 Å and 2.37 Å resolution, respectively, providing a structural view of the active site environment. Ss DesB crystallized as a tetramer and the structure of the individual protomers closely resembles the structures of homologous N -hydroxylating FMOs from Erwinia amylovora (DfoA), Pseudomonas aeruginosa (PvdA), and Aspergillus fumigatus (SidA). Using NADPH oxidation, oxygen consumption, and product formation assays, kinetic parameters were determined for various substrates with Ss DesB. Ss DesB exhibited typical saturation kinetics with substrate inhibition at high concentrations of NAD(P)H as well as cadaverine. The apparent k cat values for NADPH in steady-state NADPH oxidation and oxygen consumption assays were 0.28 ± 0.01 s -1 and 0.24 ± 0.01 s -1 , respectively. However, in product formation assays used to measure the rate of N -hydroxylation, the apparent k cat for NADPH (0.034 ± 0.008 s -1 ) was almost 10-fold lower under saturating FAD and cadaverine concentrations, reflecting an uncoupled reaction, and the apparent NADPH K M was 33 ± 24 μM. Under saturating FAD and NADPH concentrations, the apparent k cat and K M for cadaverine in Csaky assays were 0.048 ± 0.004 s -1 and 19 ± 9 μM, respectively. Ss DesB also N -hydroxylated putrescine, spermidine, and L-lysine substrates but not alkyl (di)amines that were branched or had fewer than four methylene units in an alkyl chain. These data demonstrate that Ss DesB has wider substrate scope compared to other well-studied ornithine and lysine N -hydroxylases, making it an amenable biocatalyst for the production of desferrioxamine B, derivatives, and other N -substituted products.

• Publisher: Public Library of Science,Public Library of Science (PLoS)
• Subject: Antiinfectives and antibacterials / Antimicrobial agents / Bacterial Proteins - metabolism / BASIC BIOLOGICAL SCIENCES / Biocatalysis / Biochemistry / Biology / Biology and Life Sciences / Biosynthesis / Cadaverine / Cadaverine - metabolism / Cadavers / Cancer / Catalytic Domain / Chelating agents / Chemical properties / Chemical research / Chromatography / Data analysis / Deferoxamine / Deferoxamine - metabolism / Dinitrocresols - metabolism / Editing / Enzymes / Flavin-Adenine Dinucleotide - metabolism / Flavins - metabolism / Functional groups / Genes / Genomics / Holoenzymes - metabolism / Homology / Hydroxylase / Hydroxylases / Hydroxylation / Identification and classification / Ionization / Iron / Kinetics / Liquid chromatography / Mass spectrometry / Mass spectroscopy / Medical research / Metal oxide semiconductors / Microorganisms / Mixed Function Oxygenases - biosynthesis / Mixed Function Oxygenases - chemistry / Mixed Function Oxygenases - metabolism / NADP - metabolism / Ornithine - metabolism / Oxidation-Reduction / Pathogens / Physical Sciences / Physiological aspects / Proteins / Quadrupoles / Research and Analysis Methods / Siderophores / Siderophores (Microbiology) / Siderophores - biosynthesis / Streptomyces / Streptomyces - enzymology / Structure / Therapeutic targets / Virulence