Literature DB >> 11406379

Beyond kinetic traps in RNA folding.

D K Treiber1, J R Williamson.   

Abstract

Large RNAs often have rugged folding energy landscapes that result in severe misfolding and slow folding kinetics. Several interdependent parameters that contribute to misfolding are now well understood and examples of large RNAs and ribonucleoproteins that avoid kinetic traps have been reported. These advances have facilitated the exploration of fundamental RNA folding processes that were previously inaccessible.

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Year:  2001        PMID: 11406379     DOI: 10.1016/s0959-440x(00)00206-2

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  84 in total

1.  Exploring the folding landscape of a structured RNA.

Authors:  Rick Russell; Xiaowei Zhuang; Hazen P Babcock; Ian S Millett; Sebastian Doniach; Steven Chu; Daniel Herschlag
Journal:  Proc Natl Acad Sci U S A       Date:  2001-12-26       Impact factor: 11.205

2.  Rapid compaction during RNA folding.

Authors:  Rick Russell; Ian S Millett; Mark W Tate; Lisa W Kwok; Bradley Nakatani; Sol M Gruner; Simon G J Mochrie; Vijay Pande; Sebastian Doniach; Daniel Herschlag; Lois Pollack
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-02       Impact factor: 11.205

3.  Altered structural fluctuations in duplex RNA versus DNA: a conformational switch involving base pair opening.

Authors:  Yongping Pan; Alexander D MacKerell
Journal:  Nucleic Acids Res       Date:  2003-12-15       Impact factor: 16.971

4.  The rate-limiting step in the folding of a large ribozyme without kinetic traps.

Authors:  X-W Fang; P Thiyagarajan; T R Sosnick; T Pan
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-25       Impact factor: 11.205

5.  Structural and biochemical analyses of DNA and RNA binding by a bifunctional homing endonuclease and group I intron splicing factor.

Authors:  Jill M Bolduc; P Clint Spiegel; Piyali Chatterjee; Kristina L Brady; Maureen E Downing; Mark G Caprara; Richard B Waring; Barry L Stoddard
Journal:  Genes Dev       Date:  2003-11-21       Impact factor: 11.361

6.  Assembly of core helices and rapid tertiary folding of a small bacterial group I ribozyme.

Authors:  Prashanth Rangan; Benoît Masquida; Eric Westhof; Sarah A Woodson
Journal:  Proc Natl Acad Sci U S A       Date:  2003-02-06       Impact factor: 11.205

7.  Monitoring intermediate folding states of the td group I intron in vivo.

Authors:  Christina Waldsich; Benoît Masquida; Eric Westhof; Renée Schroeder
Journal:  EMBO J       Date:  2002-10-01       Impact factor: 11.598

8.  RNA chaperone StpA loosens interactions of the tertiary structure in the td group I intron in vivo.

Authors:  Christina Waldsich; Rupert Grossberger; Renée Schroeder
Journal:  Genes Dev       Date:  2002-09-01       Impact factor: 11.361

9.  Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme.

Authors:  Bibiana Onoa; Sophie Dumont; Jan Liphardt; Steven B Smith; Ignacio Tinoco; Carlos Bustamante
Journal:  Science       Date:  2003-03-21       Impact factor: 47.728

10.  tRNA-mediated transcription antitermination in vitro: codon-anticodon pairing independent of the ribosome.

Authors:  Frank J Grundy; Wade C Winkler; Tina M Henkin
Journal:  Proc Natl Acad Sci U S A       Date:  2002-08-06       Impact factor: 11.205

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