Literature DB >> 21784244

SSB functions as a sliding platform that migrates on DNA via reptation.

Ruobo Zhou1, Alexander G Kozlov, Rahul Roy, Jichuan Zhang, Sergey Korolev, Timothy M Lohman, Taekjip Ha.   

Abstract

SSB proteins bind to and control the accessibility of single-stranded DNA (ssDNA), likely facilitated by their ability to diffuse on ssDNA. Using a hybrid single-molecule method combining fluorescence and force, we probed how proteins with large binding site sizes can migrate rapidly on DNA and how protein-protein interactions and tension may modulate the motion. We observed force-induced progressive unraveling of ssDNA from the SSB surface between 1 and 6 pN, followed by SSB dissociation at ∼10 pN, and obtained experimental evidence of a reptation mechanism for protein movement along DNA wherein a protein slides via DNA bulge formation and propagation. SSB diffusion persists even when bound with RecO and at forces under which the fully wrapped state is perturbed, suggesting that even in crowded cellular conditions SSB can act as a sliding platform to recruit and carry its interacting proteins for use in DNA replication, recombination and repair.
Copyright © 2011 Elsevier Inc. All rights reserved.

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Year:  2011        PMID: 21784244      PMCID: PMC3155616          DOI: 10.1016/j.cell.2011.06.036

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  51 in total

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Authors:  Brent D Brower-Toland; Corey L Smith; Richard C Yeh; John T Lis; Craig L Peterson; Michelle D Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2002-02-19       Impact factor: 11.205

2.  A novel structure of DNA repair protein RecO from Deinococcus radiodurans.

Authors:  Nodar Makharashvili; Olga Koroleva; Sibes Bera; Duane P Grandgenett; Sergey Korolev
Journal:  Structure       Date:  2004-10       Impact factor: 5.006

3.  Chromatin dynamics: nucleosomes go mobile through twist defects.

Authors:  I M Kulić; H Schiessel
Journal:  Phys Rev Lett       Date:  2003-10-01       Impact factor: 9.161

4.  Rapid spontaneous accessibility of nucleosomal DNA.

Authors:  Gu Li; Marcia Levitus; Carlos Bustamante; Jonathan Widom
Journal:  Nat Struct Mol Biol       Date:  2004-12-05       Impact factor: 15.369

5.  Theory, analysis, and interpretation of single-molecule force spectroscopy experiments.

Authors:  Olga K Dudko; Gerhard Hummer; Attila Szabo
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-13       Impact factor: 11.205

Review 6.  A practical guide to single-molecule FRET.

Authors:  Rahul Roy; Sungchul Hohng; Taekjip Ha
Journal:  Nat Methods       Date:  2008-06       Impact factor: 28.547

7.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

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Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

8.  Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation.

Authors:  K J Polach; J Widom
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9.  Microsecond dynamics of protein-DNA interactions: direct observation of the wrapping/unwrapping kinetics of single-stranded DNA around the E. coli SSB tetramer.

Authors:  Serguei V Kuznetsov; Alexander G Kozlov; Timothy M Lohman; Anjum Ansari
Journal:  J Mol Biol       Date:  2006-05-26       Impact factor: 5.469

10.  SSB protein diffusion on single-stranded DNA stimulates RecA filament formation.

Authors:  Rahul Roy; Alexander G Kozlov; Timothy M Lohman; Taekjip Ha
Journal:  Nature       Date:  2009-10-11       Impact factor: 49.962

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  85 in total

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

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2.  New technologies for 21st century plant science.

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3.  Mitochondrial Single-stranded DNA-binding Proteins Stimulate the Activity of DNA Polymerase γ by Organization of the Template DNA.

Authors:  Grzegorz L Ciesielski; Oya Bermek; Fernando A Rosado-Ruiz; Stacy L Hovde; Orrin J Neitzke; Jack D Griffith; Laurie S Kaguni
Journal:  J Biol Chem       Date:  2015-10-07       Impact factor: 5.157

4.  Replicative DNA polymerases promote active displacement of SSB proteins during lagging strand synthesis.

Authors:  Fernando Cerrón; Sara de Lorenzo; Kateryna M Lemishko; Grzegorz L Ciesielski; Laurie S Kaguni; Francisco J Cao; Borja Ibarra
Journal:  Nucleic Acids Res       Date:  2019-06-20       Impact factor: 16.971

5.  Multiple C-terminal tails within a single E. coli SSB homotetramer coordinate DNA replication and repair.

Authors:  Edwin Antony; Elizabeth Weiland; Quan Yuan; Carol M Manhart; Binh Nguyen; Alexander G Kozlov; Charles S McHenry; Timothy M Lohman
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6.  Structural mechanisms of PriA-mediated DNA replication restart.

Authors:  Basudeb Bhattacharyya; Nicholas P George; Tiffany M Thurmes; Ruobo Zhou; Niketa Jani; Sarah R Wessel; Steven J Sandler; Taekjip Ha; James L Keck
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-30       Impact factor: 11.205

Review 7.  Studying DNA-protein interactions with single-molecule Förster resonance energy transfer.

Authors:  Shazia Farooq; Carel Fijen; Johannes Hohlbein
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Review 8.  Single-molecule approaches embrace molecular cohorts.

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Journal:  Cell       Date:  2013-08-15       Impact factor: 41.582

Review 9.  Interrogating biology with force: single molecule high-resolution measurements with optical tweezers.

Authors:  Marco Capitanio; Francesco S Pavone
Journal:  Biophys J       Date:  2013-09-17       Impact factor: 4.033

Review 10.  Single-molecule nanometry for biological physics.

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