Inferring the in vivo looping properties of DNA

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dc.creatorSaiz, Leonor
dc.creatorRubi, J. Miguel
dc.creatorVilar, Jose M. G.
dc.date2005-12-20
dc.date.accessioned2026-07-07T06:56:28Z
dc.date.available2026-07-07T06:56:28Z
dc.descriptionThe free energy of looping DNA by proteins and protein complexes determines to what extent distal DNA sites can affect each other. We inferred its in vivo value through a combined computational-experimental approach for different lengths of the loop and found that, in addition to the intrinsic periodicity of the DNA double helix, the free energy has an oscillatory component with about half the helical period. Moreover, the oscillations have such an amplitude that the effects of regulatory molecules become strongly dependent on their precise DNA positioning and yet easily tunable by their cooperative interactions. These unexpected results can confer to the physical properties of DNA a more prominent role at shaping the properties of gene regulation than previously thought.
dc.description20 pages, 4 figures
dc.identifierhttps://arxiv.org/abs/q-bio/0512036
dc.identifierhttp://arxiv.org/abs/q-bio/0512036
dc.identifierProc. Natl. Acad. Sci. USA 102, 17642-17645 (2005)
dc.identifierdoi:10.1073/pnas.0505693102
dc.identifier.urihttp://salesiana.dossiersoluciones.com/handle/123456789/106650
dc.subjectBiomolecules
dc.subjectSoft Condensed Matter
dc.subjectBiological Physics
dc.subjectQuantitative Methods
dc.subjectSubcellular Processes
dc.titleInferring the in vivo looping properties of DNA
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