Identification of 5-hydroxycytidine at position 2501 concludes characterization of modified nucleotides in E. coli 23S rRNA
| Autor: | Trine Møller Hansen, Lincoln G. Scott, Anette Rasmussen, Finn Kirpekar, Jesper F. Havelund, Anders M.B. Giessing |
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| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Tandem mass spectrometry
medicine.disease_cause Ribosome Polymorphism Single Nucleotide Mass Spectrometry Cytosine Structural Biology 23S ribosomal RNA medicine Escherichia coli Nucleotide Molecular Biology chemistry.chemical_classification biology Nucleotides RNA Deinococcus radiodurans Ribosomal RNA biology.organism_classification RNA Bacterial RNA Ribosomal 23S Biochemistry chemistry Models Chemical Nucleic Acid Conformation Deinococcus Ribosomes Chromatography Liquid |
| Zdroj: | Havelund, J F, Giessing, A M B, Hansen, T M, Rasmussen, A, Scott, L G & Kirpekar, F 2011, ' Identification of 5-hydroxycytidine at position 2501 concludes characterization of modified nucleotides in E. coli 23S rRNA ', Journal of Molecular Biology, vol. 411, no. 3, pp. 529-536 . https://doi.org/10.1016/j.jmb.2011.06.036 |
| DOI: | 10.1016/j.jmb.2011.06.036 |
| Popis: | Complete characterization of a biomolecule's chemical structure is crucial in the full understanding of the relations between their structure and function. The dominating components in ribosomes are ribosomal RNAs (rRNAs), and the entire rRNA—but a single modified nucleoside at position 2501 in 23S rRNA—has previously been characterized in the bacterium Escherichia coli. Despite a first report nearly 20 years ago, the chemical nature of the modification at position 2501 has remained elusive, and attempts to isolate it have so far been unsuccessful. We unambiguously identify this last unknown modification as 5-hydroxycytidine—a novel modification in RNA. Identification of 5-hydroxycytidine was completed by liquid chromatography under nonoxidizing conditions using a graphitized carbon stationary phase in combination with ion trap tandem mass spectrometry and by comparing the fragmentation behavior of the natural nucleoside with that of a chemically synthesized ditto. Furthermore, we show that 5-hydroxycytidine is also present in the equivalent position of 23S rRNA from the bacterium Deinococcus radiodurans. Given the unstable nature of 5-hydroxycytidine, this modification might be found in other RNAs when applying the proper analytical conditions as described here. |
| Databáze: | OpenAIRE |
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