Literature DB >> 24126763

Nucleosome sliding by Chd1 does not require rigid coupling between DNA-binding and ATPase domains.

Ilana M Nodelman1, Gregory D Bowman.   

Abstract

Chromatin remodellers are ATP-dependent motor proteins that physically reposition and reorganize nucleosomes. Chd1 and Iswi-type remodellers possess a DNA-binding domain (DBD) needed for efficient nucleosome mobilization; however, it has not been clear how this domain physically contributes to remodelling. Here we show that the Chd1 DBD promotes nucleosome sliding simply by tethering the remodeller to nucleosome substrates. Nucleosome sliding activity was largely resistant to increasing length and flexibility of the linker connecting the DBD and ATPase motor, arguing that the ATPase motor does not shift DNA onto the nucleosome by pulling on the DBD.

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Year:  2013        PMID: 24126763      PMCID: PMC3981083          DOI: 10.1038/embor.2013.158

Source DB:  PubMed          Journal:  EMBO Rep        ISSN: 1469-221X            Impact factor:   8.807


  25 in total

1.  NADH-coupled microplate photometric assay for kinetic studies of ATP-hydrolyzing enzymes with low and high specific activities.

Authors:  Konstantin Kiianitsa; Jachen A Solinger; Wolf-Dietrich Heyer
Journal:  Anal Biochem       Date:  2003-10-15       Impact factor: 3.365

2.  Probing the conformation of the ISWI ATPase domain with genetically encoded photoreactive crosslinkers and mass spectrometry.

Authors:  Ignasi Forné; Johanna Ludwigsen; Axel Imhof; Peter B Becker; Felix Mueller-Planitz
Journal:  Mol Cell Proteomics       Date:  2011-12-13       Impact factor: 5.911

3.  Extranucleosomal DNA binding directs nucleosome sliding by Chd1.

Authors:  Jeffrey N McKnight; Katherine R Jenkins; Ilana M Nodelman; Thelma Escobar; Gregory D Bowman
Journal:  Mol Cell Biol       Date:  2011-10-03       Impact factor: 4.272

4.  The ATPase domain of ISWI is an autonomous nucleosome remodeling machine.

Authors:  Felix Mueller-Planitz; Henrike Klinker; Johanna Ludwigsen; Peter B Becker
Journal:  Nat Struct Mol Biol       Date:  2012-12-02       Impact factor: 15.369

5.  Identification of residues in chromodomain helicase DNA-binding protein 1 (Chd1) required for coupling ATP hydrolysis to nucleosome sliding.

Authors:  Ashok Patel; Jeffrey N McKnight; Pavol Genzor; Gregory D Bowman
Journal:  J Biol Chem       Date:  2011-10-28       Impact factor: 5.157

Review 6.  Snf2-family proteins: chromatin remodellers for any occasion.

Authors:  Daniel P Ryan; Tom Owen-Hughes
Journal:  Curr Opin Chem Biol       Date:  2011-08-20       Impact factor: 8.822

7.  ISWI remodelers slide nucleosomes with coordinated multi-base-pair entry steps and single-base-pair exit steps.

Authors:  Sebastian Deindl; William L Hwang; Swetansu K Hota; Timothy R Blosser; Punit Prasad; Blaine Bartholomew; Xiaowei Zhuang
Journal:  Cell       Date:  2013-01-31       Impact factor: 41.582

8.  Regulation of ISWI involves inhibitory modules antagonized by nucleosomal epitopes.

Authors:  Cedric R Clapier; Bradley R Cairns
Journal:  Nature       Date:  2012-11-11       Impact factor: 49.962

9.  Decoupling nucleosome recognition from DNA binding dramatically alters the properties of the Chd1 chromatin remodeler.

Authors:  Ashok Patel; Srinivas Chakravarthy; Seamus Morrone; Ilana M Nodelman; Jeffrey N McKnight; Gregory D Bowman
Journal:  Nucleic Acids Res       Date:  2012-12-28       Impact factor: 16.971

10.  Nucleosome mobilization by ISW2 requires the concerted action of the ATPase and SLIDE domains.

Authors:  Swetansu K Hota; Saurabh K Bhardwaj; Sebastian Deindl; Yuan-chi Lin; Xiaowei Zhuang; Blaine Bartholomew
Journal:  Nat Struct Mol Biol       Date:  2013-01-20       Impact factor: 15.369

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  15 in total

1.  Structure of chromatin remodeler Swi2/Snf2 in the resting state.

Authors:  Xian Xia; Xiaoyu Liu; Tong Li; Xianyang Fang; Zhucheng Chen
Journal:  Nat Struct Mol Biol       Date:  2016-07-11       Impact factor: 15.369

2.  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

3.  Remodelling without a power stroke.

Authors:  Arnob Dutta; Jerry L Workman
Journal:  EMBO Rep       Date:  2013-10-25       Impact factor: 8.807

4.  The Sequence of Nucleosomal DNA Modulates Sliding by the Chd1 Chromatin Remodeler.

Authors:  Jessica Winger; Gregory D Bowman
Journal:  J Mol Biol       Date:  2017-02-08       Impact factor: 5.469

5.  The Chd1 Chromatin Remodeler Shifts Nucleosomal DNA Bidirectionally as a Monomer.

Authors:  Yupeng Qiu; Robert F Levendosky; Srinivas Chakravarthy; Ashok Patel; Gregory D Bowman; Sua Myong
Journal:  Mol Cell       Date:  2017-09-21       Impact factor: 17.970

6.  A nucleotide-driven switch regulates flanking DNA length sensing by a dimeric chromatin remodeler.

Authors:  John D Leonard; Geeta J Narlikar
Journal:  Mol Cell       Date:  2015-02-12       Impact factor: 17.970

7.  The Chd1 chromatin remodeler can sense both entry and exit sides of the nucleosome.

Authors:  Ilana M Nodelman; Kyle C Horvath; Robert F Levendosky; Jessica Winger; Ren Ren; Ashok Patel; Ming Li; Michelle D Wang; Elijah Roberts; Gregory D Bowman
Journal:  Nucleic Acids Res       Date:  2016-05-12       Impact factor: 16.971

8.  Interdomain Communication of the Chd1 Chromatin Remodeler across the DNA Gyres of the Nucleosome.

Authors:  Ilana M Nodelman; Franziska Bleichert; Ashok Patel; Ren Ren; Kyle C Horvath; James M Berger; Gregory D Bowman
Journal:  Mol Cell       Date:  2017-01-19       Impact factor: 17.970

9.  Molecular Mechanism of Mot1, a TATA-binding Protein (TBP)-DNA Dissociating Enzyme.

Authors:  Ramya Viswanathan; Jason D True; David T Auble
Journal:  J Biol Chem       Date:  2016-06-02       Impact factor: 5.157

Review 10.  Mechanisms of ATP-Dependent Chromatin Remodeling Motors.

Authors:  Coral Y Zhou; Stephanie L Johnson; Nathan I Gamarra; Geeta J Narlikar
Journal:  Annu Rev Biophys       Date:  2016-07-05       Impact factor: 19.763

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