RNA-based enzymes are crucial in many important biological processes including translation and RNA processing. While in some RNA-based enzymes the RNA moiety alone is capable of performing catalysis, many of them contain proteins that are required for their function. Our proposal focuses on nuclear Ribonuclease MRP (RNase MRP), which is an excellent model for understanding the interplay of proteins and RNA in ribonucleoprotein complexes. RNase MRP is a eukaryotic ribonucleoprotein complex involved in the maturation of rRNA and the regulation of the cell cycle in yeast. RNase MRP is closely related to RNase P and is highly conserved in eukaryotes. S. cerevisiae RNase MRP contains ten proteins and a 340 nucleotide long RNA component. The similarity between RNase MRP and RNase P strongly suggests that catalysis in RNase MRP is RNA-based;however, as in the case of RNase P, all of RNase MRP proteins are also required for activity in vivo. It is particularly intriguing that this reliance on proteins in the enzymes of the RNase P/MRP family tends to grow in more evolutionary advanced organisms. Little is known about why the enzymes of the RNase P/MRP family acquired more and more proteins as evolution progressed, or why RNase MRP needs proteins when the catalytic RNA moiety seems to be essentially preserved. This lack of knowledge represents a problem since it hinders further understanding of these important enzymes. This proposal focuses on biochemical and structural studies of S. cerevisiae nucleolar RNase MRP and aims to understand how the interactions between the components of this ribonucleoprotein complex affect its activity and specificity.
The specific aims of the proposal are: 1. To determine how protein subunits of RNase MRP interact with the RNA moiety;2. To determine roles of RNase MRP protein components in the enzyme's activity and specificity. We will characterize the RNA-protein interactions in RNase MRP using RNA footprinting, mutational studies, and structural analysis, and determine roles of the protein moiety in the activity of RNase MRP. These experiments will clarify the functions of the proteins in RNase MRP and related enzymes. Relevance to Public Health RNase MRP is an RNA-based enzyme which is required for the survival of eukaryotic cells. Mutations in the RNA component of RNase MRP in humans cause the development of Cartilage Hair Hypoplasia, a severe multi-systemic disorder resulting in dwarfism and immunodeficiency, and a study of RNase MRP has a potential to shed a light on the cause of the disease.

National Institute of Health (NIH)
National Institute of General Medical Sciences (NIGMS)
Research Project (R01)
Project #
Application #
Study Section
Molecular Genetics A Study Section (MGA)
Program Officer
Bender, Michael T
Project Start
Project End
Budget Start
Budget End
Support Year
Fiscal Year
Total Cost
Indirect Cost
Pennsylvania State University
Schools of Arts and Sciences
University Park
United States
Zip Code
Gopalan, Venkat; Jarrous, Nayef; Krasilnikov, Andrey S (2018) Chance and necessity in the evolution of RNase P. RNA 24:1-5
Perederina, Anna; Berezin, Igor; Krasilnikov, Andrey S (2018) In vitro reconstitution and analysis of eukaryotic RNase P RNPs. Nucleic Acids Res 46:6857-6868
Lemieux, Bruno; Laterreur, Nancy; Perederina, Anna et al. (2016) Active Yeast Telomerase Shares Subunits with Ribonucleoproteins RNase P and RNase MRP. Cell 165:1171-1181
Fagerlund, Robert D; Perederina, Anna; Berezin, Igor et al. (2015) Footprinting analysis of interactions between the largest eukaryotic RNase P/MRP protein Pop1 and RNase P/MRP RNA components. RNA 21:1591-605
Krasilnikov, Andrey S (2014) Applying UV crosslinking to study RNA-protein interactions in multicomponent ribonucleoprotein complexes. Methods Mol Biol 1086:193-207
Esakova, Olga; Perederina, Anna; Berezin, Igor et al. (2013) Conserved regions of ribonucleoprotein ribonuclease MRP are involved in interactions with its substrate. Nucleic Acids Res 41:7084-91
Khanova, Elena; Esakova, Olga; Perederina, Anna et al. (2012) Structural organizations of yeast RNase P and RNase MRP holoenzymes as revealed by UV-crosslinking studies of RNA-protein interactions. RNA 18:720-8
Perederina, Anna; Krasilnikov, Andrey S (2012) Crystallization of RNA-protein complexes: from synthesis and purification of individual components to crystals. Methods Mol Biol 905:123-43
Esakova, Olga; Perederina, Anna; Quan, Chao et al. (2011) Substrate recognition by ribonucleoprotein ribonuclease MRP. RNA 17:356-64
Perederina, Anna; Khanova, Elena; Quan, Chao et al. (2011) Interactions of a Pop5/Rpp1 heterodimer with the catalytic domain of RNase MRP. RNA 17:1922-31

Showing the most recent 10 out of 15 publications