• Dpt. of Chemistry and Biochemistry

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Recent Publications

• Stereorandomized Oncocins with Preserved Ribosome...Ribosomal RNA expansion... Evolving precision: rRNA expansion... The human vault RNA enhances tumorigenesis and...rRNA expansion segment 27Lb modulates the factor recruitment ....Loss of the ribosomal RNA methyltransferase NSUN5 ....mRNA-specific translation regulation by a ribosome ....Atomic mutagenesis of stop codon nucleotides ...

Projects

• Atomic mutagenesis of the ribosome
• The regulatory non-coding RNA interactome of translating ribosomesThe elusive molecular biology of the vault RNA

RNA Gallery

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Atomic mutagenesis of the ribosome

 

Project-relevant publications (own)

• Willi J., Küpfer P., Evéquoz D., Fernandez G., Katz A., Leumann Ch. and Polacek N. (2018). Oxidative stress damages rRNA inside the ribosome and differentially affects the catalytic center. Nucleic Acids Research, doi:10.1093/nar/gkx1308
• Koch, M., Willi, J., Pradère, U., Hall, J. and Polacek, N. (2017). Critical 23S rRNA interactions for
  macrolide-dependent ribosome stalling on the ErmCL nascent peptide chain. Nucleic Acids Res.: doi:10.1093/nar/gkx195

- Press release from the University of Bern in German

- Press release from the University of Bern in English

• Polacek, N., Gaynor, M., Yassin, A. and Mankin, AS. (2001). Ribosomal peptidyl transferase can withstand mutations at the putative catalytic nucleotide.
  Nature 441:498-501.
• Polacek, N., Gomez, MJ., Ito, K., Xiong, L., Nakamura, Y., and Mankin, AS. (2003). The critical role of the universally conserved A2602 of 23S ribosomal RNA in the release of the nascent peptide during translation termination.
  Mol Cell 11:103-112.
• Erlacher, MD., Lang, K., Shankaran, N., Wotzel, B., Huettenhofer, A., Micura, R., Mankin, AS. and Polacek, N. (2005). Chemical engineering of the peptidyl transferase center reveals an important role of the 2-hydroxyl group of A2451. Nucleic Acids Res 33:1618-1627.
• Erlacher, MD., Lang, K., Wotzel, B., Rieder, R., Micura, R., and Polacek, N. (2006). Efficient ribosomal peptidyl transfer critically relies on the presence of the ribose 2'-OH at A2451 of 23S rRNA.
  J Am Chem Soc 128:4453-4459.
• Amort, M., Wotzel, B., Bakowska-Zywicka, K., Erlacher, MD., Micura, R., and Polacek, N. (2007). An intact ribose moiety at A2602 of 23S rRNA is key to trigger peptidyl-tRNA hydrolysis during translation termination.
  Nucleic Acids Res. 35:5130-5140.
• Lang, K., Erlacher, MD., Wilson, DN., Micura, R., and Polacek, N. (2008). The Role of 23S Ribosomal RNA Residue A2451 in Peptide Bond Synthesis Revealed by Atomic Mutagenesis
  Chem Biol 15:485-492.
• Clementi,N., Chirkova, A., Puffer, B., Micura, R., and Polacek, N. (2010). Atomic mutagenesis reveals A2660 of 23S ribosomal RNA as key to EF-G GTPase activation.
  Nature Chem. Biol. 6:344-351.
• Chirkova, A., Erlacher, M. D., Clementi, N., Zywicki, M., Aigner, M., and Polacek, N. (2010). The role of the universally conserved A2450-C2063 base pair in the ribosomal peptidyl transferase center.
  Nucleic Acids Res. 38:4844-4855.
• Erlacher, M., Chirkova, A., Voegele, P. and Polacek, N. (2011). Generation of chemically engineered ribosomes for atomic mutagenesis studies on protein biosynthesis.
  Nature Prot., 6:580-592.
• Koch, M., Flür, S., Kreutz, C., Ennifar, E., Micura, R. and Polacek, N. (2015). Role of a ribosomal RNA phosphate oxygen during the EF-G–triggered GTP hydrolysis. PNAS; May 4, doi:10.1073/pnas.1505231112
• Koch, M., Clementi, N., Rusca, N., Vögele, P., Erlacher, M., and  Polacek, N. (2015). The integrity of the G2421-C2395 base pair in the ribosomal E-site is crucial for protein synthesis. RNA Biol. 12:70-81.

 

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