Entropy loss in long-distance DNA looping

Abstract

The entropy loss due to the formation of one or multiple loops in circular and linear DNA chains is calculated from a scaling approach in the limit of long chain segments. The analytical results allow to obtain a fast estimate for the entropy loss for a given configuration. Numerical values obtained for some examples suggest that the entropy loss encountered in loop closure in typical genetic switches may become a relevant factor which has to be overcome by the released bond energy between the looping contact sites.

7 pages, 3 figures

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• Protein-Mediated DNA Loops: Effects of Protein Bridge Size and Kinks
• Looping and Clustering model for the organization of protein-DNA complexes on the bacterial genome
• Facilitation of DNA loop formation by protein-DNA non-specific interactions
• The Effect of Obstacles in Multi-Site Protein Target Search with DNA Looping
• Aggregation of amphiphilic polymers in the presence of adhesive small colloidal particles
• A thermodynamic model for agglomeration of DNA-looping proteins
• Mathematical model of alternative mechanism of telomere length maintenance