NDLI: Dynamic Approach to DNA Breathing

Content Provider	Springer Nature Link
Author	Metzler, Ralf Ambjörnsson, Tobias
Copyright Year	2005
Abstract	Even under physiological conditions, the DNA double-helix spontaneously denatures locally, opening up fluctuating, flexible, single-stranded zones called DNA-bubbles. We present a dynamical description of this DNA-bubble breathing in terms of a Fokker-Planck equation for the bubble size, based on the Poland-Scheraga free energy for DNA denaturation. From this description, we can obtain basic quantities such as the lifetime, an important measure for the description of the interaction of a breathing DNA molecule and selectively single-stranded DNA binding proteins. Our approach is consistent with recent single molecule measurements of bubble fluctuation. We also introduce a master equation approach to model DNA breathing, and discuss its differences from the continuous Fokker-Planck description.
Starting Page	339
Ending Page	350
Page Count	12
File Format	PDF
ISSN	00920606
Journal	Journal of Biological Physics
Volume Number	31
Issue Number	3-4
e-ISSN	15730689
Language	English
Publisher	Kluwer Academic Publishers
Publisher Date	2005-01-01
Publisher Place	Dordrecht
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	DNA denaturation DNA-bubbles single molecule dynamics Poland-Scheraga free energy Neurosciences Bioinformatics Polymer Sciences Statistical Physics Condensed Matter Biophysics/Biomedical Physics
Content Type	Text
Resource Type	Article
Subject	Cell Biology Atomic and Molecular Physics, and Optics Molecular Biology Biophysics

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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