Literature DB >> 17685395

Focus on function: single molecule RNA enzymology.

Mark A Ditzler1, Elvin A Alemán, David Rueda, Nils G Walter.   

Abstract

The ability of RNA to catalyze chemical reactions was first demonstrated 25 years ago with the discovery that group I introns and RNase P function as RNA enzymes (ribozymes). Several additional ribozymes were subsequently identified, most notably the ribosome, followed by intense mechanistic studies. More recently, the introduction of single molecule tools has dissected the kinetic steps of several ribozymes in unprecedented detail and has revealed surprising heterogeneity not evident from ensemble approaches. Still, many fundamental questions of how RNA enzymes work at the molecular level remain unanswered. This review surveys the current status of our understanding of RNA catalysis at the single molecule level and discusses the existing challenges and opportunities in developing suitable assays. (c) 2007 Wiley Periodicals, Inc.

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Year:  2007        PMID: 17685395     DOI: 10.1002/bip.20819

Source DB:  PubMed          Journal:  Biopolymers        ISSN: 0006-3525            Impact factor:   2.505


  24 in total

1.  A rearrangement of the guanosine-binding site establishes an extended network of functional interactions in the Tetrahymena group I ribozyme active site.

Authors:  Marcello Forconi; Raghuvir N Sengupta; Joseph A Piccirilli; Daniel Herschlag
Journal:  Biochemistry       Date:  2010-03-30       Impact factor: 3.162

2.  Thermodynamics and kinetics of RNA tertiary structure formation in the junctionless hairpin ribozyme.

Authors:  Neil A White; Charles G Hoogstraten
Journal:  Biophys Chem       Date:  2017-07-08       Impact factor: 2.352

3.  RNA dynamics: it is about time.

Authors:  Hashim M Al-Hashimi; Nils G Walter
Journal:  Curr Opin Struct Biol       Date:  2008-06-09       Impact factor: 6.809

4.  Tuning a riboswitch response through structural extension of a pseudoknot.

Authors:  Marie F Soulière; Roger B Altman; Veronika Schwarz; Andrea Haller; Scott C Blanchard; Ronald Micura
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-12       Impact factor: 11.205

Review 5.  Do-it-yourself guide: how to use the modern single-molecule toolkit.

Authors:  Nils G Walter; Cheng-Yen Huang; Anthony J Manzo; Mohamed A Sobhy
Journal:  Nat Methods       Date:  2008-06       Impact factor: 28.547

6.  Riboswitch structure and dynamics by smFRET microscopy.

Authors:  Krishna C Suddala; Nils G Walter
Journal:  Methods Enzymol       Date:  2014       Impact factor: 1.600

Review 7.  Single-molecule Förster resonance energy transfer studies of RNA structure, dynamics and function.

Authors:  Mark Helm; Andrei Yu Kobitski; G Ulrich Nienhaus
Journal:  Biophys Rev       Date:  2009-11-10

8.  Dual-channel single-molecule fluorescence resonance energy transfer to establish distance parameters for RNA nanoparticles.

Authors:  Dan Shu; Hui Zhang; Roman Petrenko; Jarek Meller; Peixuan Guo
Journal:  ACS Nano       Date:  2010-10-18       Impact factor: 15.881

9.  Mitigating unwanted photophysical processes for improved single-molecule fluorescence imaging.

Authors:  Richa Dave; Daniel S Terry; James B Munro; Scott C Blanchard
Journal:  Biophys J       Date:  2009-03-18       Impact factor: 4.033

10.  Single-molecule imaging of an in vitro-evolved RNA aptamer reveals homogeneous ligand binding kinetics.

Authors:  Mark P Elenko; Jack W Szostak; Antoine M van Oijen
Journal:  J Am Chem Soc       Date:  2009-07-29       Impact factor: 15.419

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