Literature DB >> 20142505

Mechanism of chromatin remodeling.

Yahli Lorch1, Barbara Maier-Davis, Roger D Kornberg.   

Abstract

Results from biochemical and structural studies of the RSC chromatin-remodeling complex prompt a proposal for the remodeling mechanism: RSC binding to the nucleosome releases the DNA from the histone surface and initiates DNA translocation (through one or a small number of DNA base pairs); ATP binding completes translocation, and ATP hydrolysis resets the system. Binding energy thus plays a central role in the remodeling process. RSC may disrupt histone-DNA contacts by affecting histone octamer conformation and through extensive interaction with the DNA. Bulging of the DNA from the octamer surface is possible, and twisting is unavoidable, but neither is the basis of remodeling.

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Year:  2010        PMID： 20142505      PMCID： PMC2817641          DOI： 10.1073/pnas.1000398107

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


  28 in total

1.  Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites.

Authors:  J D Anderson; J Widom
Journal:  J Mol Biol       Date:  2000-03-03       Impact factor: 5.469

2.  Structural analysis of the RSC chromatin-remodeling complex.

Authors:  Francisco J Asturias; Wen-Hsiang Chung; Roger D Kornberg; Yahli Lorch
Journal:  Proc Natl Acad Sci U S A       Date:  2002-10-04       Impact factor: 11.205

3.  Isolation and assay of the RSC chromatin-remodeling complex from Saccharomyces cerevisiae.

Authors:  Yahli Lorch; Roger D Kornberg
Journal:  Methods Enzymol       Date:  2004       Impact factor: 1.600

4.  Relation of nucleosomes to DNA sequences.

Authors:  A Prunell; R D Kornberg
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1978

5.  Studies on deoxyribonucleoprotein structure. Redistribution of proteins in mixtures of deoxyribonucleoproteins, DNA and RNA.

Authors:  Y V Ilyin; A Y Varshavsky; U N Mickelsaar; G P Georgiev
Journal:  Eur J Biochem       Date:  1971-09-24

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

Authors:  K J Polach; J Widom
Journal:  J Mol Biol       Date:  1995-11-24       Impact factor: 5.469

7.  Variable center to center distance of nucleosomes in chromatin.

Authors:  A Prunell; R D Kornberg
Journal:  J Mol Biol       Date:  1982-01-25       Impact factor: 5.469

8.  RSC, an essential, abundant chromatin-remodeling complex.

Authors:  B R Cairns; Y Lorch; Y Li; M Zhang; L Lacomis; H Erdjument-Bromage; P Tempst; J Du; B Laurent; R D Kornberg
Journal:  Cell       Date:  1996-12-27       Impact factor: 41.582

9.  Structure of a RSC-nucleosome complex and insights into chromatin remodeling.

Authors:  Yuriy Chaban; Chukwudi Ezeokonkwo; Wen-Hsiang Chung; Fan Zhang; Roger D Kornberg; Barbara Maier-Davis; Yahli Lorch; Francisco J Asturias
Journal:  Nat Struct Mol Biol       Date:  2008-11-23       Impact factor: 15.369

10.  ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex.

Authors:  Gaku Mizuguchi; Xuetong Shen; Joe Landry; Wei-Hua Wu; Subhojit Sen; Carl Wu
Journal:  Science       Date:  2003-11-26       Impact factor: 47.728
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  54 in total

Review 1.  Epigenetic landscape of pluripotent stem cells.

Authors:  Ji Woong Han; Young-sup Yoon
Journal:  Antioxid Redox Signal       Date:  2012-01-11       Impact factor: 8.401

2.  Remodelers organize cellular chromatin by counteracting intrinsic histone-DNA sequence preferences in a class-specific manner.

Authors:  Yuri M Moshkin; Gillian E Chalkley; Tsung Wai Kan; B Ashok Reddy; Zeliha Ozgur; Wilfred F J van Ijcken; Dick H W Dekkers; Jeroen A Demmers; Andrew A Travers; C Peter Verrijzer
Journal:  Mol Cell Biol       Date:  2011-11-28       Impact factor: 4.272

3.  Charge state of the globular histone core controls stability of the nucleosome.

Authors:  Andrew T Fenley; David A Adams; Alexey V Onufriev
Journal:  Biophys J       Date:  2010-09-08       Impact factor: 4.033

4.  Allosteric interactions of DNA and nucleotides with S. cerevisiae RSC.

Authors:  Shuja Shafi Malik; Evan Rich; Ramya Viswanathan; Bradley R Cairns; Christopher J Fischer
Journal:  Biochemistry       Date:  2011-08-26       Impact factor: 3.162

5.  Swi/Snf chromatin remodeling/tumor suppressor complex establishes nucleosome occupancy at target promoters.

Authors:  Michael Y Tolstorukov; Courtney G Sansam; Ping Lu; Edward C Koellhoffer; Katherine C Helming; Burak H Alver; Erik J Tillman; Julia A Evans; Boris G Wilson; Peter J Park; Charles W M Roberts
Journal:  Proc Natl Acad Sci U S A       Date:  2013-05-30       Impact factor: 11.205

Review 6.  Nucleosome sliding mechanisms: new twists in a looped history.

Authors:  Felix Mueller-Planitz; Henrike Klinker; Peter B Becker
Journal:  Nat Struct Mol Biol       Date:  2013-09       Impact factor: 15.369

7.  No need for a power stroke in ISWI-mediated nucleosome sliding.

Authors:  Johanna Ludwigsen; Henrike Klinker; Felix Mueller-Planitz
Journal:  EMBO Rep       Date:  2013-10-11       Impact factor: 8.807

8.  Histone Acetylation Inhibits RSC and Stabilizes the +1 Nucleosome.

Authors:  Yahli Lorch; Barbara Maier-Davis; Roger D Kornberg
Journal:  Mol Cell       Date:  2018-10-25       Impact factor: 17.970

Review 9.  Imaging of DNA and Protein-DNA Complexes with Atomic Force Microscopy.

Authors:  Yuri L Lyubchenko; Luda S Shlyakhtenko
Journal:  Crit Rev Eukaryot Gene Expr       Date:  2016       Impact factor: 1.807

10.  The RSC chromatin remodelling ATPase translocates DNA with high force and small step size.

Authors:  George Sirinakis; Cedric R Clapier; Ying Gao; Ramya Viswanathan; Bradley R Cairns; Yongli Zhang
Journal:  EMBO J       Date:  2011-05-06       Impact factor: 11.598
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