Phys. Rev. E 70, 011802 (2004) [7 pages]Pseudoknots in a homopolymerReceived 23 December 2003; revised 27 April 2004; published 20 July 2004 After a discussion of the definition and number of pseudoknots, we reconsider the self-attracting homopolymer paying particular attention to the scaling of the pseudoknot number (Npk) at different temperature regimes in two and three dimensions. We find that, although the total number of pseudoknots is extensive at all temperatures, the number of those forming between the two halves of the chain diverges logarithmically at (both dimensions) and below (two dimensions only) the θ temperature. We later introduce a simple model that emphasizes the role of pseudoknot formation during collapse. The resulting phase diagram involves swollen, branched, and collapsed homopolymer phases with transitions between each pair. © 2004 The American Physical Society URL:
http://link.aps.org/doi/10.1103/PhysRevE.70.011802
DOI:
10.1103/PhysRevE.70.011802
PACS:
36.20.Ey, 87.15.Aa, 05.40.−a
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