Effects of nucleosome stability on remodeler-catalyzed repositioning

Physical Review. E
Aaron M MorganChristopher J Fischer

Abstract

Chromatin remodelers are molecular motors that play essential roles in the regulation of nucleosome positioning and chromatin accessibility. These machines couple the energy obtained from the binding and hydrolysis of ATP to the mechanical work of manipulating chromatin structure through processes that are not completely understood. Here we present a quantitative analysis of nucleosome repositioning by the imitation switch (ISWI) chromatin remodeler and demonstrate that nucleosome stability significantly impacts the observed activity. We show how DNA damage induced changes in the affinity of DNA wrapping within the nucleosome can affect ISWI repositioning activity and demonstrate how assay-dependent limitations can bias studies of nucleosome repositioning. Together, these results also suggest that some of the diversity seen in chromatin remodeler activity can be attributed to the variations in the thermodynamics of interactions between the remodeler, the histones, and the DNA, rather than reflect inherent properties of the remodeler itself.

References

Sep 15, 1992·Journal of Photochemistry and Photobiology. B, Biology·J CadetL Voituriez
Apr 15, 1992·Proceedings of the National Academy of Sciences of the United States of America·S H Northrup, H P Erickson
Feb 20, 1996·Proceedings of the National Academy of Sciences of the United States of America·A FlausT J Richmond
Mar 17, 1999·Molecular Cell·D F CoronaP B Becker
Feb 25, 2000·Journal of Molecular Biology·J D Anderson, J Widom
Apr 5, 2000·The Journal of Biological Chemistry·G LeRoyD Reinberg
Aug 23, 2001·Proceedings of the National Academy of Sciences of the United States of America·J V KosmoskiM J Smerdon
Dec 14, 2001·Molecular Cell·G Längst, P B Becker
Jan 26, 2002·Nucleic Acids Research·Cedric R ClapierPeter B Becker
Feb 13, 2002·Quarterly Reviews of Biophysics·J Widom
Jun 25, 2002·Journal of Molecular Biology·Curt A DaveyTimothy J Richmond
Jul 13, 2002·Biopolymers·Y LuN C Stellwagen
Aug 17, 2002·Genes & Development·Anjanabha SahaBradley R Cairns
May 9, 2003·Nature·Timothy J Richmond, Curt A Davey
Mar 12, 2004·The EMBO Journal·Margaret KastenBradley R Cairns
Mar 25, 2004·Methods : a Companion to Methods in Enzymology·A ThåströmJ Widom
Mar 26, 2004·Nature Reviews. Molecular Cell Biology·Laurie A BoyerCraig L Peterson
May 8, 2004·The EMBO Journal·Mohamedi N KagalwalaBlaine Bartholomew
Jul 20, 2004·Nature Structural & Molecular Biology·Gu Li, Jonathan Widom
Dec 8, 2004·Nature Structural & Molecular Biology·Gu LiJonathan Widom
Jul 19, 2005·Nature Structural & Molecular Biology·Ralf StrohnerGernot Längst
Feb 21, 2007·Methods : a Companion to Methods in Enzymology·Janet G Yang, Geeta J Narlikar
May 11, 2007·The Journal of Biological Chemistry·Weiwei DangBlaine Bartholomew
Sep 26, 2007·Proceedings of the National Academy of Sciences of the United States of America·Karsten RippeGernot Längst
Oct 3, 2007·Molecular and Cellular Biology·Weiwei Dang, Blaine Bartholomew
Oct 24, 2007·Journal of Molecular Biology·Helder FerreiraTom Owen-Hughes
Apr 10, 2009·Annual Review of Biochemistry·Cedric R Clapier, Bradley R Cairns
May 20, 2009·Journal of Molecular Biology·Peretz D Partensky, Geeta J Narlikar
Jun 11, 2009·The Journal of Chemical Physics·Sanneke BrinkersBernd Rieger
Nov 27, 2009·The Journal of Biological Chemistry·Joseph A GoldmanRobert E Kingston
Dec 25, 2009·Nature·Lisa R RackiGeeta J Narlikar
Dec 25, 2009·Nature·Timothy R BlosserXiaowei Zhuang
Jan 12, 2010·Current Opinion in Structural Biology·Gregory D Bowman
Feb 10, 2010·Proceedings of the National Academy of Sciences of the United States of America·Yahli LorchRoger D Kornberg

❮ Previous
Next ❯

Citations

Dec 31, 2020·International Journal of Molecular Sciences·Aaron MorganChristopher Fischer

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.