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Protocol
Rapid Ribonuclease P Kinetics Measured by Stopped-Flow Fluorescence and Fluorescence Anisotropy
Stopped-flow fluorescence spectroscopy is a highly sensitive method for measuring rapid enzyme kinetics. A wide range of fluorophores can be employed, and fluorescence and fluorescence polarization can be meas...
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Article
Open AccessStructural and mechanistic basis for recognition of alternative tRNA precursor substrates by bacterial ribonuclease P
Binding of precursor tRNAs (ptRNAs) by bacterial ribonuclease P (RNase P) involves an encounter complex (ES) that isomerizes to a catalytic conformation (ES*). However, the structures of intermediates and the ...
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Article
Specificity and nonspecificity in RNA–protein interactions
Mammalian cells encode tens of thousands of RNA species and more than 1,000 proteins that interact with them. Many of these proteins can bind to multiple RNAs,...
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Article
Hidden specificity in an apparently nonspecific RNA-binding protein
A novel high-throughput sequencing kinetics approach is used to measure functional binding of the apparently nonspecific RNA-binding protein C5 to all possible sequence variants in its substrate binding site; ...
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Chapter
Understanding the Role of Metal Ions in RNA Folding and Function: Lessons from RNase P, a Ribonucleoprotein Enzyme
There is a large and rapidly growing literature relating RNA function to metal ion identity and concentration; however, due to the complexity and large number of interactions it remains a significant experimen...
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Article
Analysis of the tertiary structure of bacterial RNase P RNA
The ubiquitous occurrence of ribonuclease P (RNase P) as a ribonucleoprotein and the catalytic properties of bacterial RNase P RNAs indicate that RNA fulfills an ancient and important role in the function of t...
