Literature DB >> 15494007

The effect of force on thermodynamics and kinetics: unfolding single RNA molecules.

I Tinoco1, D Collin, P T X Li.   

Abstract

We have used laser tweezers to unfold single RNA molecules at room temperature and in physiological-type solvents. The forces necessary to unfold the RNAs are over the range 10-20 pN, forces that can be generated by cellular enzymes. The Gibbs free energy for the unfolding of TAR (transactivation-responsive) RNA from HIV was found to be increased after the addition of argininamide; the TAR hairpin was stabilized. The rate of unfolding was decreased and the rate of folding was increased by argininamide.

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Year:  2004        PMID： 15494007      PMCID： PMC1242187          DOI： 10.1042/BST0320757

Source DB:  PubMed          Journal:  Biochem Soc Trans        ISSN： 0300-5127            Impact factor:   5.407


  15 in total

1.  Reversible unfolding of single RNA molecules by mechanical force.

Authors:  J Liphardt; B Onoa; S B Smith; I Tinoco; C Bustamante
Journal:  Science       Date:  2001-04-27       Impact factor: 47.728

2.  Force Spectroscopy of Molecular Systems-Single Molecule Spectroscopy of Polymers and Biomolecules.

Authors: 
Journal:  Angew Chem Int Ed Engl       Date:  2000-09-15       Impact factor: 15.336

Review 3.  Mechanical design of proteins studied by single-molecule force spectroscopy and protein engineering.

Authors:  M Carrion-Vazquez; A F Oberhauser; T E Fisher; P E Marszalek; H Li; J M Fernandez
Journal:  Prog Biophys Mol Biol       Date:  2000       Impact factor: 3.667

4.  Optical-trap force transducer that operates by direct measurement of light momentum.

Authors:  Steven B Smith; Yujia Cui; Carlos Bustamante
Journal:  Methods Enzymol       Date:  2003       Impact factor: 1.600

Review 5.  Ten years of tension: single-molecule DNA mechanics.

Authors:  Carlos Bustamante; Zev Bryant; Steven B Smith
Journal:  Nature       Date:  2003-01-23       Impact factor: 49.962

6.  Force-clamp spectroscopy monitors the folding trajectory of a single protein.

Authors:  Julio M Fernandez; Hongbin Li
Journal:  Science       Date:  2004-03-12       Impact factor: 47.728

7.  The trans-activator gene of the human T cell lymphotropic virus type III is required for replication.

Authors:  A I Dayton; J G Sodroski; C A Rosen; W C Goh; W A Haseltine
Journal:  Cell       Date:  1986-03-28       Impact factor: 41.582

8.  Role of RNA structure in arginine recognition of TAR RNA.

Authors:  J D Puglisi; L Chen; A D Frankel; J R Williamson
Journal:  Proc Natl Acad Sci U S A       Date:  1993-04-15       Impact factor: 11.205

9.  Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules.

Authors:  S B Smith; Y Cui; C Bustamante
Journal:  Science       Date:  1996-02-09       Impact factor: 47.728

10.  The structure of the human immunodeficiency virus type-1 TAR RNA reveals principles of RNA recognition by Tat protein.

Authors:  F Aboul-ela; J Karn; G Varani
Journal:  J Mol Biol       Date:  1995-10-20       Impact factor: 5.469
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  8 in total

1.  Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins.

Authors:  Michael T Woodside; William M Behnke-Parks; Kevan Larizadeh; Kevin Travers; Daniel Herschlag; Steven M Block
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-10       Impact factor: 11.205

2.  Protein folding and unfolding under force.

Authors:  Bharat Jagannathan; Susan Marqusee
Journal:  Biopolymers       Date:  2013-11       Impact factor: 2.505

Review 3.  Probing the mechanisms of translation with force.

Authors:  Christian M Kaiser; Ignacio Tinoco
Journal:  Chem Rev       Date:  2014-01-09       Impact factor: 60.622

4.  A loop 2 cytidine-stem 1 minor groove interaction as a positive determinant for pseudoknot-stimulated -1 ribosomal frameshifting.

Authors:  Peter V Cornish; Mirko Hennig; David P Giedroc
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-25       Impact factor: 11.205

5.  Non-specific binding of Na+ and Mg2+ to RNA determined by force spectroscopy methods.

Authors:  C V Bizarro; A Alemany; F Ritort
Journal:  Nucleic Acids Res       Date:  2012-04-09       Impact factor: 16.971

6.  Direct measurement of the mechanical work during translocation by the ribosome.

Authors:  Tingting Liu; Ariel Kaplan; Lisa Alexander; Shannon Yan; Jin-Der Wen; Laura Lancaster; Charles E Wickersham; Kurt Fredrick; Kurt Fredrik; Harry Noller; Ignacio Tinoco; Carlos J Bustamante
Journal:  Elife       Date:  2014-08-11       Impact factor: 8.140

7.  Characterization of the mechanical unfolding of RNA pseudoknots.

Authors:  Lisa Green; Chul-Hyun Kim; Carlos Bustamante; Ignacio Tinoco
Journal:  J Mol Biol       Date:  2007-05-26       Impact factor: 5.469

Review 8.  Mechanical Forces and Their Effect on the Ribosome and Protein Translation Machinery.

Authors:  Lisa J Simpson; John S Reader; Ellie Tzima
Journal:  Cells       Date:  2020-03-07       Impact factor: 6.600
  8 in total

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