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Two Adhesive Sites Can Enhance the Knotting Probability of DNA

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  • Saeed Najafi
  • Raffaello Potestio

Abstract

Self-entanglement, or knotting, is entropically favored in long polymers. Relatively short polymers such as proteins can knot as well, but in this case the entanglement is mainly driven by fine-tuned, sequence-specific interactions. The relation between the sequence of a long polymer and its topological state is here investigated by means of a coarse-grained model of DNA. We demonstrate that the introduction of two adhesive regions along the sequence of a self-avoiding chain substantially increases the probability of forming a knot.

Suggested Citation

  • Saeed Najafi & Raffaello Potestio, 2015. "Two Adhesive Sites Can Enhance the Knotting Probability of DNA," PLOS ONE, Public Library of Science, vol. 10(7), pages 1-13, July.
  • Handle: RePEc:plo:pone00:0132132
    DOI: 10.1371/journal.pone.0132132
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