منابع مشابه
Coarse-grained modeling of DNA curvature.
The interaction of DNA with proteins occurs over a wide range of length scales, and depends critically on its local structure. In particular, recent experimental work suggests that the intrinsic curvature of DNA plays a significant role on its protein-binding properties. In this work, we present a coarse grained model of DNA that is capable of describing base-pairing, hybridization, major and m...
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There is now a certain consensus that transcription factors (TFs) reach their target sites, where they regulate gene transcription, via a mechanism dubbed facilitated diffusion (FD). In FD, the TF cycles between events of 3D diffusion in solution (jumps), 1D diffusion along DNA (sliding), and small jumps (hopping), achieving association rates higher than for 3D diffusion alone. We investigate t...
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The growing interest in the DNA-based mesoscale systems of biological and nonbiological nature has encouraged the computational molecular science community to develop coarse-grained (CG) representationsof the DNA that will be simple enough to permit exhaustive simulations in a reasonable amount of time, yet complex enough to capture the essential physics at play. In the recent years, there have...
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ژورنال
عنوان ژورنال: Frontiers in Molecular Biosciences
سال: 2021
ISSN: 2296-889X
DOI: 10.3389/fmolb.2021.645527