Research

Our research interests involve studying the function, dynamics, and physico-chemical properties of nanoscale assemblies to understand their activities in the cell. The main object of our studies has been the bacterial ribosome Рthe macromolecular complex responsible for protein synthesis. We have been also interested in other non-coding bacterial RNA and their inhibition by anti-sense modified oligonucleotides. We have been investigating the use of peptide nucleic acids as inhibitors of bacterial RNA. Another area of interest are proteases, especially viral ones. We are investigating how macromolecular crowding affects the enzymatic activities of various proteases. We combine theoretical approaches (computational simulations and molecular modeling) with experimental biophysical measurements (absorbance, fluorescence, circular dichroism spectroscopy, isothermal titration calorimetry) and microbiology.

Research areas include:

  • physicochemical properties of macromolecular complexes
  • design of ligands targeting the bacterial ribosome¬†and mRNA
  • thermodynamics of interactions between modified oligonucleotides
  • delivery of peptide nucleic acid (PNA) oligomers to bacterial cells
  • coarse-grained models for proteins and nucleic acids
  • molecular dynamics simulations of proteins and RNA
  • academic software development for molecular modeling and simulations as well as post-processing of trajectories