Structural Modeling of DNA Loops in Lactose-Repressor

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dc.creatorGoyal, Sachin
dc.creatorPerkins, Noel C.
dc.date2007-02-23
dc.date.accessioned2026-07-07T07:48:32Z
dc.date.available2026-07-07T07:48:32Z
dc.descriptionIt is well known that the structural deformations (stressed states) of DNA molecule play a crucial role in its biological functions including gene expression. For instance, looping in DNA (often mediated by protein binding) is a crucial step in many gene regulatory mechanisms. We use the mechanical rod model of DNA molecules to simulate its structural interactions with proteins (enzymes) during gene expression. Our rod model can simulate the nonlinear dynamics of loop and supercoil formation in DNA on long length scales. The formulation accounts for the structural stiffness of the DNA strand, its intrinsic curvature, chiral (right-handed helical) construction and its physical interactions with the surrounding medium. The simulations of protein-mediated DNA looping illustrate how the mechanical properties of DNA may affect the chemical kinetics of DNA-protein interactions and thereby regulate gene expression.
dc.description2 pages, 2 figures, Nonlinear Vibrations, Aug 13-17, 2006, Blacksburg, VA
dc.identifierhttps://arxiv.org/abs/physics/0702200
dc.identifierhttp://arxiv.org/abs/physics/0702200
dc.identifier.urihttp://salesiana.dossiersoluciones.com/handle/123456789/124529
dc.subjectBiological Physics
dc.subjectChemical Physics
dc.subjectComputational Physics
dc.titleStructural Modeling of DNA Loops in Lactose-Repressor
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