Publications by authors named "Gregory D Bowman"

43Publications

Biophysics of Chromatin Remodeling.

Annu Rev Biophys 2021 Jan 4. Epub 2021 Jan 4.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, USA; email:

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January 2021

Reconstitution and Purification of Nucleosomes with Recombinant Histones and Purified DNA.

Curr Protoc Mol Biol 2020 12;133(1):e130

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland.

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December 2020

The Chd1 chromatin remodeler forms long-lived complexes with nucleosomes in the presence of ADP·BeF and transition state analogs.

J Biol Chem 2019 11 21;294(48):18181-18191. Epub 2019 Oct 21.

T. C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218

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November 2019

Remodeling the genome with DNA twists.

Science 2019 10;366(6461):35-36

Department of Cell and Molecular Biology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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October 2019

Uncovering a New Step in Sliding Nucleosomes.

Authors:
Gregory D Bowman

Trends Biochem Sci 2019 08 3;44(8):643-645. Epub 2019 Jun 3.

TC Jenkins Department of Biophysics, Johns Hopkins University, 3400 N. Charles St., Baltimore, MD 21218, USA. Electronic address:

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August 2019

Asymmetry between the two acidic patches dictates the direction of nucleosome sliding by the ISWI chromatin remodeler.

Elife 2019 05 16;8. Epub 2019 May 16.

TC Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.

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May 2019

Direct observation of coordinated DNA movements on the nucleosome during chromatin remodelling.

Nat Commun 2019 04 12;10(1):1720. Epub 2019 Apr 12.

Department of Cell and Molecular Biology, Science for Life Laboratory, Uppsala University, 75237, Uppsala, Sweden.

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April 2019

The ATPase motor of the Chd1 chromatin remodeler stimulates DNA unwrapping from the nucleosome.

Nucleic Acids Res 2018 06;46(10):4978-4990

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218 USA.

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June 2018

A twist defect mechanism for ATP-dependent translocation of nucleosomal DNA.

Elife 2018 05 29;7. Epub 2018 May 29.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.

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May 2018

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

Mol Cell 2017 Oct 21;68(1):76-88.e6. Epub 2017 Sep 21.

Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA; Department of Bioengineering, University of Illinois, Urbana, IL 61801, USA; Physics Frontier Center (Center for Physics of Living Cells), University of Illinois, Urbana, IL 61801, USA. Electronic address:

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October 2017

A glimpse into chromatin remodeling.

Nat Struct Mol Biol 2017 06;24(6):498-500

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland, USA.

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June 2017

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

J Mol Biol 2017 03 8;429(6):808-822. Epub 2017 Feb 8.

Department of Biology, Johns Hopkins University, Baltimore, MD 21218, USA; T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA. Electronic address:

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March 2017

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

Mol Cell 2017 Feb 19;65(3):447-459.e6. Epub 2017 Jan 19.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, 302 Jenkins Hall, 3400 N. Charles Street, Baltimore, MD 21218, USA. Electronic address:

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February 2017

The Chd1 chromatin remodeler shifts hexasomes unidirectionally.

Elife 2016 12 29;5. Epub 2016 Dec 29.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.

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December 2016

Sequence-specific targeting of chromatin remodelers organizes precisely positioned nucleosomes throughout the genome.

Bioessays 2017 01 16;39(1):1-8. Epub 2016 Nov 16.

Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.

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January 2017

Succinyl-5-aminoimidazole-4-carboxamide-1-ribose 5'-Phosphate (SAICAR) Activates Pyruvate Kinase Isoform M2 (PKM2) in Its Dimeric Form.

Biochemistry 2016 08 11;55(33):4731-6. Epub 2016 Aug 11.

Department of Biology, Johns Hopkins University , Baltimore, Maryland 21218, United States.

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August 2016

Modulation of p300/CBP Acetylation of Nucleosomes by Bromodomain Ligand I-CBP112.

Biochemistry 2016 07 1;55(27):3727-34. Epub 2016 Jul 1.

Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine , Baltimore, Maryland 21205, United States.

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July 2016

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

Nucleic Acids Res 2016 09 12;44(16):7580-91. Epub 2016 May 12.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA Department of Biology, Johns Hopkins University, Baltimore, MD 21218, USA

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September 2016

Sequence-targeted nucleosome sliding in vivo by a hybrid Chd1 chromatin remodeler.

Genome Res 2016 05 18;26(5):693-704. Epub 2016 Mar 18.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, USA.

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May 2016

A Naturally Occurring Repeat Protein with High Internal Sequence Identity Defines a New Class of TPR-like Proteins.

Structure 2015 Nov 1;23(11):2055-65. Epub 2015 Oct 1.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA. Electronic address:

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November 2015

Formation of a Trimeric Xpo1-Ran[GTP]-Ded1 Exportin Complex Modulates ATPase and Helicase Activities of Ded1.

PLoS One 2015 29;10(6):e0131690. Epub 2015 Jun 29.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland, United States of America.

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March 2016

Dynamic regulation of transcription factors by nucleosome remodeling.

Elife 2015 Jun 5;4. Epub 2015 Jun 5.

Department of Physics, Laboratory of Atomic and Solid State Physics, Howard Hughes Medical Institute, Cornell University, Ithaca, United States.

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June 2015

Post-translational modifications of histones that influence nucleosome dynamics.

Chem Rev 2015 Mar 26;115(6):2274-95. Epub 2014 Nov 26.

†T. C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, United States.

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March 2015

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

EMBO Rep 2013 Dec 15;14(12):1098-103. Epub 2013 Oct 15.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA.

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December 2013

ATP-dependent chromatin assembly is functionally distinct from chromatin remodeling.

Elife 2013 Aug 20;2:e00863. Epub 2013 Aug 20.

Section of Molecular Biology , University of California, San Diego , La Jolla , United States.

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August 2013

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

Nucleic Acids Res 2013 Feb 28;41(3):1637-48. Epub 2012 Dec 28.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218, USA.

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February 2013

Enzymatic excision of uracil residues in nucleosomes depends on the local DNA structure and dynamics.

Biochemistry 2012 Jul 23;51(30):6028-38. Epub 2012 Jul 23.

Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, WBSB 314, 725 North Wolfe Street, Baltimore, MD 21205, USA.

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July 2012

The basic linker of macroH2A stabilizes DNA at the entry/exit site of the nucleosome.

Nucleic Acids Res 2012 Sep 29;40(17):8285-95. Epub 2012 Jun 29.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, 3400 N. Charles St., Baltimore, MD 21218, USA.

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September 2012

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

J Biol Chem 2011 Dec 28;286(51):43984-93. Epub 2011 Oct 28.

T.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218-2685, USA.

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December 2011

Crystal structure of the chromodomain helicase DNA-binding protein 1 (Chd1) DNA-binding domain in complex with DNA.

J Biol Chem 2011 Dec 27;286(49):42099-104. Epub 2011 Oct 27.

Thomas C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, USA.

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December 2011

Structural insights into regulation and action of SWI2/SNF2 ATPases.

Curr Opin Struct Biol 2011 Dec 11;21(6):719-27. Epub 2011 Oct 11.

TC Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218-2685, USA.

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December 2011

Extranucleosomal DNA binding directs nucleosome sliding by Chd1.

Mol Cell Biol 2011 Dec 3;31(23):4746-59. Epub 2011 Oct 3.

TC Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218-2685, USA.

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December 2011

Rapid DNA-protein cross-linking and strand scission by an abasic site in a nucleosome core particle.

Proc Natl Acad Sci U S A 2010 Dec 13;107(52):22475-80. Epub 2010 Dec 13.

Department of Chemistry, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218, USA.

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December 2010

The chromodomains of the Chd1 chromatin remodeler regulate DNA access to the ATPase motor.

Mol Cell 2010 Sep;39(5):711-23

TC Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218-2685, USA.

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September 2010

Analysis of the role of PCNA-DNA contacts during clamp loading.

BMC Struct Biol 2010 Jan 30;10. Epub 2010 Jan 30.

Department of Molecular and Cell Biology, Department of Chemistry, California Institute for Quantitative Biosciences (QB3), Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA.

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January 2010

Mechanisms of ATP-dependent nucleosome sliding.

Authors:
Gregory D Bowman

Curr Opin Struct Biol 2010 Feb 8;20(1):73-81. Epub 2010 Jan 8.

T C Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218-2685, USA.

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February 2010

Magnetic tweezers measurement of single molecule torque.

Nano Lett 2009 Apr;9(4):1720-5

Department of Mechanical Engineering, Howard Hughes Medical Institute Graduate Training Program and Institute for NanoBioTechnology, Johns Hopkins University, Baltimore Maryland 21218, USA.

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April 2009

The replication factor C clamp loader requires arginine finger sensors to drive DNA binding and proliferating cell nuclear antigen loading.

J Biol Chem 2006 Nov 15;281(46):35531-43. Epub 2006 Sep 15.

Laboratory of DNA Replication, Howard Hughes Medical Institute and Rockefeller University, New York, New York 10021, USA.

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November 2006

Out-of-plane motions in open sliding clamps: molecular dynamics simulations of eukaryotic and archaeal proliferating cell nuclear antigen.

Proc Natl Acad Sci U S A 2005 Sep 16;102(39):13801-6. Epub 2005 Sep 16.

Department of Molecular and Cell Biology , Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA.

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September 2005

DNA polymerase clamp loaders and DNA recognition.

FEBS Lett 2005 Feb;579(4):863-7

Departments of Molecular and Cell Biology and Chemistry, Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA.

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February 2005

Mapping the interaction of DNA with the Escherichia coli DNA polymerase clamp loader complex.

Nat Struct Mol Biol 2005 Feb 16;12(2):183-90. Epub 2005 Jan 16.

Howard Hughes Medical Institute, Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA.

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February 2005

Structural analysis of a eukaryotic sliding DNA clamp-clamp loader complex.

Nature 2004 Jun;429(6993):724-30

Howard Hughes Medical Institute, Department of Molecular and Cell Biology and Department of Chemistry, University of California, Berkeley, California 94720, USA.

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June 2004