Literature DB >> 20682090

Insight into helicase mechanism and function revealed through single-molecule approaches.

Jaya G Yodh1, Michael Schlierf, Taekjip Ha.   

Abstract

Helicases are a class of nucleic acid (NA) motors that catalyze NTP-dependent unwinding of NA duplexes into single strands, a reaction essential to all areas of NA metabolism. In the last decade, single-molecule (sm) technology has proven to be highly useful in revealing mechanistic insight into helicase activity that is not always detectable via ensemble assays. A combination of methods based on fluorescence, optical and magnetic tweezers, and flow-induced DNA stretching has enabled the study of helicase conformational dynamics, force generation, step size, pausing, reversal and repetitive behaviors during translocation and unwinding by helicases working alone and as part of multiprotein complexes. The contributions of these sm investigations to our understanding of helicase mechanism and function will be discussed.

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Year:  2010        PMID: 20682090      PMCID: PMC3738580          DOI: 10.1017/S0033583510000107

Source DB:  PubMed          Journal:  Q Rev Biophys        ISSN: 0033-5835            Impact factor:   5.318


  92 in total

1.  Molecular mechanisms of the functional coupling of the helicase (gp41) and polymerase (gp43) of bacteriophage T4 within the DNA replication fork.

Authors:  E Delagoutte; P H von Hippel
Journal:  Biochemistry       Date:  2001-04-10       Impact factor: 3.162

2.  Investigation of stoichiometry of T4 bacteriophage helicase loader protein (gp59).

Authors:  Sri Ranjini Arumugam; Tae-Hee Lee; Stephen J Benkovic
Journal:  J Biol Chem       Date:  2009-08-20       Impact factor: 5.157

Review 3.  The mechanism of ATP-dependent RNA unwinding by DEAD box proteins.

Authors:  Manuel Hilbert; Anne R Karow; Dagmar Klostermeier
Journal:  Biol Chem       Date:  2009-12       Impact factor: 3.915

4.  The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis.

Authors:  Regula Aregger; Dagmar Klostermeier
Journal:  Biochemistry       Date:  2009-11-17       Impact factor: 3.162

5.  An oligomeric form of E. coli UvrD is required for optimal helicase activity.

Authors:  J A Ali; N K Maluf; T M Lohman
Journal:  J Mol Biol       Date:  1999-11-05       Impact factor: 5.469

6.  Tracking a molecular motor with a nanoscale optical encoder.

Authors:  Charles E Wickersham; Kevin J Cash; Shawn H Pfeil; Irina Bruck; Daniel L Kaplan; Kevin W Plaxco; Everett A Lipman
Journal:  Nano Lett       Date:  2010-03-10       Impact factor: 11.189

7.  Coordinating DNA replication by means of priming loop and differential synthesis rate.

Authors:  Manjula Pandey; Salman Syed; Ilker Donmez; Gayatri Patel; Taekjip Ha; Smita S Patel
Journal:  Nature       Date:  2009-11-18       Impact factor: 49.962

8.  SnapShot: nucleic acid helicases and translocases.

Authors:  James M Berger
Journal:  Cell       Date:  2008-09-05       Impact factor: 41.582

9.  Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome.

Authors:  Maria Manosas; Michelle M Spiering; Zhihao Zhuang; Stephen J Benkovic; Vincent Croquette
Journal:  Nat Chem Biol       Date:  2009-10-18       Impact factor: 15.040

10.  Single-molecule analysis reveals differential effect of ssDNA-binding proteins on DNA translocation by XPD helicase.

Authors:  Masayoshi Honda; Jeehae Park; Robert A Pugh; Taekjip Ha; Maria Spies
Journal:  Mol Cell       Date:  2009-09-11       Impact factor: 17.970

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  28 in total

Review 1.  Single-molecule views of protein movement on single-stranded DNA.

Authors:  Taekjip Ha; Alexander G Kozlov; Timothy M Lohman
Journal:  Annu Rev Biophys       Date:  2012-02-23       Impact factor: 12.981

Review 2.  Studying DNA-protein interactions with single-molecule Förster resonance energy transfer.

Authors:  Shazia Farooq; Carel Fijen; Johannes Hohlbein
Journal:  Protoplasma       Date:  2013-12-28       Impact factor: 3.356

Review 3.  Rescuing Replication from Barriers: Mechanistic Insights from Single-Molecule Studies.

Authors:  Bo Sun
Journal:  Mol Cell Biol       Date:  2019-04-30       Impact factor: 4.272

Review 4.  Transcription elongation.

Authors:  Arkady Mustaev; Jeffrey Roberts; Max Gottesman
Journal:  Transcription       Date:  2017-02-08

5.  Mechanical operation and intersubunit coordination of ring-shaped molecular motors: insights from single-molecule studies.

Authors:  Shixin Liu; Gheorghe Chistol; Carlos Bustamante
Journal:  Biophys J       Date:  2014-05-06       Impact factor: 4.033

6.  Combined versatile high-resolution optical tweezers and single-molecule fluorescence microscopy.

Authors:  George Sirinakis; Yuxuan Ren; Ying Gao; Zhiqun Xi; Yongli Zhang
Journal:  Rev Sci Instrum       Date:  2012-09       Impact factor: 1.523

7.  Direct Fluorescent Imaging of Translocation and Unwinding by Individual DNA Helicases.

Authors:  T L Pavankumar; J C Exell; S C Kowalczykowski
Journal:  Methods Enzymol       Date:  2016-10-18       Impact factor: 1.600

Review 8.  Single-molecule nanometry for biological physics.

Authors:  Hajin Kim; Taekjip Ha
Journal:  Rep Prog Phys       Date:  2012-12-18

9.  Single molecule measurements of DNA helicase activity with magnetic tweezers and t-test based step-finding analysis.

Authors:  Yeonee Seol; Marie-Paule Strub; Keir C Neuman
Journal:  Methods       Date:  2016-04-27       Impact factor: 3.608

Review 10.  Helicase-mediated changes in RNA structure at the single-molecule level.

Authors:  Sebastian L B König; Pramodha S Liyanage; Roland K O Sigel; David Rueda
Journal:  RNA Biol       Date:  2013-01-01       Impact factor: 4.652

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