Literature DB >> 18679428

Visualizing one-dimensional diffusion of proteins along DNA.

Jason Gorman1, Eric C Greene.   

Abstract

The ability of proteins to locate specific target sequences or structures among a vast excess of nonspecific DNA is a fundamental property that affects virtually all aspects of biology. Despite this importance, experimental methods have lagged behind the establishment of theoretical principles describing potential target location mechanisms. However, recent advances in single-molecule detection now allow direct visual observation of proteins diffusing along DNA. Here we present an overview of these new observations and discuss the advantages, limitations and future prospects for imaging the motion of proteins along DNA.

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Year:  2008        PMID: 18679428     DOI: 10.1038/nsmb.1441

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  117 in total

1.  Single-molecule imaging of DNA curtains reveals mechanisms of KOPS sequence targeting by the DNA translocase FtsK.

Authors:  Ja Yil Lee; Ilya J Finkelstein; Estelle Crozat; David J Sherratt; Eric C Greene
Journal:  Proc Natl Acad Sci U S A       Date:  2012-04-09       Impact factor: 11.205

2.  Single-image diffusion coefficient measurements of proteins in free solution.

Authors:  Shannon Kian Zareh; Michael C DeSantis; Jonathan M Kessler; Je-Luen Li; Y M Wang
Journal:  Biophys J       Date:  2012-04-03       Impact factor: 4.033

3.  Structures during binding of cAMP receptor to promoter DNA: promoter search slowed by non-specific sites.

Authors:  Dietmar Porschke
Journal:  Eur Biophys J       Date:  2012-02-24       Impact factor: 1.733

4.  Asymmetrical roles of zinc fingers in dynamic DNA-scanning process by the inducible transcription factor Egr-1.

Authors:  Levani Zandarashvili; Dana Vuzman; Alexandre Esadze; Yuki Takayama; Debashish Sahu; Yaakov Levy; Junji Iwahara
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-06       Impact factor: 11.205

Review 5.  DNA damage by reactive species: Mechanisms, mutation and repair.

Authors:  N R Jena
Journal:  J Biosci       Date:  2012-07       Impact factor: 1.826

6.  Tethered-hopping model for protein-DNA binding and unbinding based on Sox2-Oct1-Hoxb1 ternary complex simulations.

Authors:  Peng Lian; Limin Angela Liu; Yongxiang Shi; Yuxiang Bu; Dongqing Wei
Journal:  Biophys J       Date:  2010-04-07       Impact factor: 4.033

7.  Dynamic strategies for target-site search by DNA-binding proteins.

Authors:  Mario A Díaz de la Rosa; Elena F Koslover; Peter J Mulligan; Andrew J Spakowitz
Journal:  Biophys J       Date:  2010-06-16       Impact factor: 4.033

8.  Fluidic supramolecular nano- and microfibres as molecular rails for regulated movement of nanosubstances.

Authors:  Shun-ichi Tamaru; Masato Ikeda; Yusuke Shimidzu; Shinji Matsumoto; Shoji Takeuchi; Itaru Hamachi
Journal:  Nat Commun       Date:  2010-05-17       Impact factor: 14.919

9.  Nuclear proteins: finding and binding target sites in chromatin.

Authors:  Martin E van Royen; Angelika Zotter; Shehu M Ibrahim; Bart Geverts; Adriaan B Houtsmuller
Journal:  Chromosome Res       Date:  2011-01       Impact factor: 5.239

10.  Toward single-molecule optical mapping of the epigenome.

Authors:  Michal Levy-Sakin; Assaf Grunwald; Soohong Kim; Natalie R Gassman; Anna Gottfried; Josh Antelman; Younggyu Kim; Sam O Ho; Robin Samuel; Xavier Michalet; Ron R Lin; Thomas Dertinger; Andrew S Kim; Sangyoon Chung; Ryan A Colyer; Elmar Weinhold; Shimon Weiss; Yuval Ebenstein
Journal:  ACS Nano       Date:  2013-12-20       Impact factor: 15.881

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