Literature DB >> 28551335

Transition Path Times Measured by Single-Molecule Spectroscopy.

Hoi Sung Chung1.   

Abstract

The transition path is a tiny fraction of a molecular trajectory during which the free-energy barrier is crossed. It is a single-molecule property and contains all mechanistic information of folding processes of biomolecules such as proteins and nucleic acids. However, the transition path has been difficult to probe because it is short and rarely visited when transitions actually occur. Recent technical advances in single-molecule spectroscopy have made it possible to directly probe transition paths, which has opened up new theoretical and experimental approaches to investigating folding mechanisms. This article reviews recent single-molecule fluorescence and force spectroscopic measurements of transition path times and their connection to both theory and simulations. Published by Elsevier Ltd.

Entities:  

Keywords:  FRET; energy landscape; force spectroscopy; nucleic acid folding; protein folding

Mesh:

Substances:

Year:  2017        PMID: 28551335      PMCID: PMC5702281          DOI: 10.1016/j.jmb.2017.05.018

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  93 in total

1.  Reaction coordinates and rates from transition paths.

Authors:  Robert B Best; Gerhard Hummer
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-06       Impact factor: 11.205

2.  The transition state transit time of WW domain folding is controlled by energy landscape roughness.

Authors:  Feng Liu; Marcelo Nakaema; Martin Gruebele
Journal:  J Chem Phys       Date:  2009-11-21       Impact factor: 3.488

Review 3.  Ultra-stable organic fluorophores for single-molecule research.

Authors:  Qinsi Zheng; Manuel F Juette; Steffen Jockusch; Michael R Wasserman; Zhou Zhou; Roger B Altman; Scott C Blanchard
Journal:  Chem Soc Rev       Date:  2014-02-21       Impact factor: 54.564

4.  Hidden dynamics in the unfolding of individual bacteriorhodopsin proteins.

Authors:  Hao Yu; Matthew G W Siewny; Devin T Edwards; Aric W Sanders; Thomas T Perkins
Journal:  Science       Date:  2017-03-03       Impact factor: 47.728

5.  Single-molecule fluorescence experiments determine protein folding transition path times.

Authors:  Hoi Sung Chung; Kevin McHale; John M Louis; William A Eaton
Journal:  Science       Date:  2012-02-24       Impact factor: 47.728

Review 6.  Combining single-molecule manipulation and single-molecule detection.

Authors:  Juan Carlos Cordova; Dibyendu Kumar Das; Harris W Manning; Matthew J Lang
Journal:  Curr Opin Struct Biol       Date:  2014-10-17       Impact factor: 6.809

7.  Direct observation of transition paths during the folding of proteins and nucleic acids.

Authors:  Krishna Neupane; Daniel A N Foster; Derek R Dee; Hao Yu; Feng Wang; Michael T Woodside
Journal:  Science       Date:  2016-04-08       Impact factor: 47.728

8.  Measuring ultrafast protein folding rates from photon-by-photon analysis of single molecule fluorescence trajectories.

Authors:  Hoi Sung Chung; Troy Cellmer; John M Louis; William A Eaton
Journal:  Chem Phys       Date:  2013-08-30       Impact factor: 2.348

9.  Fast single-molecule FRET spectroscopy: theory and experiment.

Authors:  Hoi Sung Chung; Irina V Gopich
Journal:  Phys Chem Chem Phys       Date:  2014-09-21       Impact factor: 3.676

10.  Single-molecule chemo-mechanical unfolding reveals multiple transition state barriers in a small single-domain protein.

Authors:  Emily J Guinn; Bharat Jagannathan; Susan Marqusee
Journal:  Nat Commun       Date:  2015-04-17       Impact factor: 14.919

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  6 in total

1.  Disordered proteins follow diverse transition paths as they fold and bind to a partner.

Authors:  Jae-Yeol Kim; Hoi Sung Chung
Journal:  Science       Date:  2020-06-12       Impact factor: 47.728

2.  Three-Color Single-Molecule FRET and Fluorescence Lifetime Analysis of Fast Protein Folding.

Authors:  Janghyun Yoo; John M Louis; Irina V Gopich; Hoi Sung Chung
Journal:  J Phys Chem B       Date:  2018-10-10       Impact factor: 2.991

3.  Editorial Overview: Single-Molecule Approaches up to Difficult Challenges in Folding and Dynamics.

Authors:  Yongli Zhang; Taekjip Ha; Susan Marqusee
Journal:  J Mol Biol       Date:  2017-12-27       Impact factor: 5.469

4.  Theory and Analysis of Single-Molecule FRET Experiments.

Authors:  Irina V Gopich; Hoi Sung Chung
Journal:  Methods Mol Biol       Date:  2022

5.  Diffusion-limited association of disordered protein by non-native electrostatic interactions.

Authors:  Jae-Yeol Kim; Fanjie Meng; Janghyun Yoo; Hoi Sung Chung
Journal:  Nat Commun       Date:  2018-11-09       Impact factor: 14.919

6.  Conformational Transitions of Amyloid-β: A Langevin and Generalized Langevin Dynamics Simulation Study.

Authors:  Vishal Singh; Parbati Biswas
Journal:  ACS Omega       Date:  2021-05-19
  6 in total

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