YcfDRM is a thermophilic oxygen-dependent ribosomal protein uL16 oxygenase

Journal article

YcfD from Escherichia coli is a homologue of the human ribosomal oxygenases NO66 and MINA53, which catalyze histidylhydroxylation of the 60S subunit and affect cellular proliferation (Ge et al. 2012). Bioinformatic analysis identified a potential homologue of ycfD in the thermophilic bacterium Rhodothermus marinus (ycfDRM). We describe studies on the characterization of ycfDRM, which is a functional 2OG oxygenase catalyzing (2S,3R - hydroxylation of the ribosomal protein uL16 at R82, and which is active at significantly higher temperatures than previously reported for any other 2OG oxygenase. Recombinant ycfDRM manifests high thermostability (T 84oC) and activity at higher temperatures (Topt 55oC) than ycfDEC (T 50.6oC, Topt 40oC). Mass spectrometric studies on purified R. marinus ribosomal proteins demonstrate a temperature-dependent variation in uL16 hydroxylation Kinetic studies of oxygendependence suggest that dioxygen availability can be a limiting factor for ycfDRM catalysis at high temperatures, consistent with incomplete uL16 hydroxylation observed in R. marinus cells. Overall, the results extend the known range of ribosomal hydroxylation, reveal the potential for ycfD catalysed hydroxylation to be regulated by temperature / dioxygen availability, and that thermophilic 2OG oxygenases are of interest from a biocatalytic perspective.

Authors: Sekirnik, R; Wilkins, SE; Bush, J; Tarhonskaya, H; Münzel, M

• Publication status: Published
• Peer review status: Peer reviewed
• Publisher: Springer Japan
• Journal: Extremophiles
• Volume: 22
• Issue: 3
• Pages: 553–562
• Publication date: 2018-03-09
• Acceptance date: 2018-02-18
• DOI: 10.1007/s00792-018-1016-9
• EISSN: 1433-4909
• ISSN: 1431-0651
• Keywords: hydroxylase, dioxygenase; posttranslational modification; protein synthesis; oxygen / hypoxia sensing; thermophilic enzyme; translation; ribosomes