Sequence-Dependent Mechanics of DNA
نویسندگان
چکیده
منابع مشابه
The mechanics behind DNA sequence-dependent properties of the nucleosome
Chromatin organization and composition impart sophisticated regulatory features critical to eukaryotic genomic function. Although DNA sequence-dependent histone octamer binding is important for nucleosome activity, many aspects of this phenomenon have remained elusive. We studied nucleosome structure and stability with diverse DNA sequences, including Widom 601 derivatives with the highest know...
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The DNA contained in every living cell not only stores the genetic information; it functions in a complex molecular network that can condense, transcribe, replicate and repair genes. The essential role played by the sequence dependent structure and deformability of DNA in these basic processes of life, has received increasing attention over the past years. The present work aims at better unders...
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As the chief informational molecule of life, DNA is subject to extensive physical manipulations. The energy required to deform double-helical DNA depends on sequence, and this mechanical code of DNA influences gene regulation, such as through nucleosome positioning. Here we examine the sequence-dependent flexibility of DNA in bacterial transcription factor-mediated looping, a context for which ...
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The elastic properties of a molecule of duplex DNA are strongly dependent on nucleotide sequence. In the theory developed here the contribution c of the nth base-pair step to the elastic energy is assumed to be given by a function c̃ of six kinematical variables, called tilt, roll, twist, shift, slide, and rise, that describe the relative orientation and displacement of the nth and (n11)th base ...
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Single stranded DNA (ssDNA) equilibrium dynamics are investigated using a fluorophore/quencher-labeled hairpin structure which thermally fluctuates between open and closed states. Temporal correlations of the fluorescence fluctuations are used to determine the energy barrier to conformational change. We find that ssDNA distortion is purely entropic for poly(T) but requires an additional enthalp...
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ژورنال
عنوان ژورنال: Biophysical Journal
سال: 2012
ISSN: 0006-3495
DOI: 10.1016/j.bpj.2011.11.1511