Literature DB >> 21690726

Statistical determination of the step size of molecular motors.

K C Neuman1, O A Saleh, T Lionnet, G Lia, J-F Allemand, D Bensimon, V Croquette.   

Abstract

Molecular motors are enzymatic proteins that couple the consumption of chemical energy to mechanical displacement. In order to elucidate the translocation mechanisms of these enzymes, it is of fundamental importance to measure the physical step size. The step size can, in certain instances, be directly measured with single-molecule techniques; however, in the majority of cases individual steps are masked by noise. The step size can nevertheless be obtained from noisy single-molecule records through statistical methods. This analysis is analogous to determining the charge of the electron from current shot noise. We review methods for obtaining the step size based on analysing, in both the time and frequency domains, the variance in position from noisy single-molecule records of motor displacement. Additionally, we demonstrate how similar methods may be applied to measure the step size in bulk kinetic experiments.

Year:  2005        PMID: 21690726     DOI: 10.1088/0953-8984/17/47/012

Source DB:  PubMed          Journal:  J Phys Condens Matter        ISSN: 0953-8984            Impact factor:   2.333


  12 in total

1.  Mechanistic constraints from the substrate concentration dependence of enzymatic fluctuations.

Authors:  Jeffrey R Moffitt; Yann R Chemla; Carlos Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2010-08-20       Impact factor: 11.205

2.  Improved hidden Markov models for molecular motors, part 1: basic theory.

Authors:  Fiona E Müllner; Sheyum Syed; Paul R Selvin; Fred J Sigworth
Journal:  Biophys J       Date:  2010-12-01       Impact factor: 4.033

3.  Large domain movements upon UvrD dimerization and helicase activation.

Authors:  Binh Nguyen; Yerdos Ordabayev; Joshua E Sokoloski; Elizabeth Weiland; Timothy M Lohman
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-30       Impact factor: 11.205

4.  Regulation of UvrD Helicase Activity by MutL.

Authors:  Yerdos A Ordabayev; Binh Nguyen; Anita Niedziela-Majka; Timothy M Lohman
Journal:  J Mol Biol       Date:  2018-08-30       Impact factor: 5.469

5.  Chiral discrimination and writhe-dependent relaxation mechanism of human topoisomerase IIα.

Authors:  Yeonee Seol; Amanda C Gentry; Neil Osheroff; Keir C Neuman
Journal:  J Biol Chem       Date:  2013-03-18       Impact factor: 5.157

6.  Single-molecule tracking of collagenase on native type I collagen fibrils reveals degradation mechanism.

Authors:  Susanta K Sarkar; Barry Marmer; Gregory Goldberg; Keir C Neuman
Journal:  Curr Biol       Date:  2012-05-10       Impact factor: 10.834

7.  Regulation of E. coli Rep helicase activity by PriC.

Authors:  Binh Nguyen; Min Kyung Shinn; Elizabeth Weiland; Timothy M Lohman
Journal:  J Mol Biol       Date:  2021-06-01       Impact factor: 6.151

8.  DNA mechanics as a tool to probe helicase and translocase activity.

Authors:  Timothée Lionnet; Alexandre Dawid; Sarah Bigot; François-Xavier Barre; Omar A Saleh; François Heslot; Jean-François Allemand; David Bensimon; Vincent Croquette
Journal:  Nucleic Acids Res       Date:  2006-08-25       Impact factor: 16.971

9.  Step detection in single-molecule real time trajectories embedded in correlated noise.

Authors:  Srikesh G Arunajadai; Wei Cheng
Journal:  PLoS One       Date:  2013-03-22       Impact factor: 3.240

10.  Motor step size and ATP coupling efficiency of the dsDNA translocase EcoR124I.

Authors:  Ralf Seidel; Joost G P Bloom; Cees Dekker; Mark D Szczelkun
Journal:  EMBO J       Date:  2008-04-03       Impact factor: 11.598

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