Two Adhesive Sites Can Enhance the Knotting Probability of DNA

PLoS One. 2015 Jul 2;10(7):e0132132. doi: 10.1371/journal.pone.0132132. eCollection 2015.

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.

MeSH terms

  • Algorithms
  • Base Sequence
  • Computer Simulation*
  • DNA / chemistry*
  • Models, Molecular*
  • Nucleic Acid Conformation*
  • Probability

Substances

  • DNA

Grants and funding

The authors have no support or funding to report.