JCP Nameplate
  • Volume/Page
  • Keyword
  • DOI
  • Citation
  • Advanced
   
 
 
 

You Tube Flickr Twitter UniPHY Group iResearch App Facebook

Journal of Chemical Physics / Volume 128 / Issue 13 / ARTICLES / Polymers and Complex Systems

J. Chem. Phys. 128, 134906 (2008); http://dx.doi.org/10.1063/1.2899654 (5 pages)

Effect of interaction shape on the condensed toroid of the semiflexible chain

Y. Ishimoto1 and N. Kikuchi2,3

1Okayama Institute for Quantum Physics, 1-9-1 Kyouyama, Okayama 700-0015, Japan
2Institut für Physik, Johannes Gutenberg-Universität Mainz, Staudinger Weg 7, D-55099 Mainz, Germany
3Institut für Physik, Martin-Luther-Universität Halle-Wittenberg, D-06099 Halle, Germany

View MapView Map

(Received 30 August 2007; accepted 27 February 2008; published online 4 April 2008)

We investigate how different microscopic interactions between semiflexible chain segments can qualitatively alter the physical properties of the condensed toroid. We propose a general form of the Hamiltonian of the toroid and discuss its analytic properties. For different interactions, the theory predicts different scaling behaviors of the mean toroidal and cross sectional radii, rc and rcross, as functions of the contour length L: (rc,rcross) ∼ Lν(Nc), with ν = (⅕,⅖) for the van der Waals-type, ν = (−⅓,⅔) for the Coulomb-type, and ν = (−1,1) for the delta-function-type attractions in the asymptotic limit. For the toroids with finite winding number Nc = 100–400, we find ν ≃ 0 for the Yukawa interaction with screening parameter κ = 0.5–1.0 and ν = 0.1–0.13 for the van der Waals-type interactions. These findings could provide a possible explanation for the experimentally well known observation ν ≃ 0 of the condensed DNA toroids. Conformational transitions are also discussed.

© 2008 American Institute of Physics

Article Outline

  1. INTRODUCTION
  2. THE MODEL
    1. The delta function potential
    2. van der Waals potential and the finite size effect
    3. Yukawa potential and general analysis
  3. CONCLUSIONS

RELATED DATABASES

To view database links for this article, you need to log in.

KEYWORDS and PACS

Keywords

DNA, molecular biophysics, van der Waals forces

PACS

ARTICLE DATA

Digital Object Identifier
http://dx.doi.org/10.1063/1.2899654

PUBLICATION DATA

ISSN

0021-9606 (print)  
1089-7690 (online)

Publisher

$abstract.society.value is a Member of CrossRef American Institute of Physics

For access to fully linked references, you need to log in.
    I. M. Lifshitz, A. Y. Grosberg, and A. R. Khokhlov, Rev. Mod. Phys. 50, 683 (1978).

    M. R. Stukan, V. A. Ivanov, A. Y. Grosberg, W. Paul, and K. Binder, J. Chem. Phys. 118, 3392 (2003)JCPSA6000118000007003392000001.

    Y. Ishimoto and N. Kikuchi, J. Chem. Phys. 125, 074905 (2006)JCPSA6000125000007074905000001.

    B. Schnurr, F. Gittes, and F. C. MacKintosh, Phys. Rev. E 65, 061904 (2002).

    I. C. B. Miller, M. Keentok, G. G. Pereira, and D. R. M. Williams, Phys. Rev. E 71, 031802 (2005).


For access to citing articles, you need to log in.


Figures (3) Tables (1)

Access to article objects (figures, tables, multimedia) requires a subscription; log in to view available files.
(Access to supplementary files, where available, is free for this journal.)

Access to article objects (figures, tables, multimedia) requires a subscription; log in to view available files.
(Access to supplementary files, where available, is free for this journal.)


Close

Google Calendar

ADVERTISEMENT

Your Recent History Recent History Help

Recently Viewed

  1. Effect of interaction shape on the condensed toroid of the semiflexible chain
  2. A conductivity study and calorimetric analysis of dried poly(sodium 4-styrene sulfonate)/poly(diallyldimethylammonium chloride) polyelectrolyte complexes
  3. Diffusion at the liquid-vapor interface
  4. Hydrogen bonding in methanol clusters probed by inner-shell photoabsorption spectroscopy in the carbon and oxygen K-edge regions
  5. Energy transfer of highly vibrationally excited naphthalene. II. Vibrational energy dependence and isotope and mass effects
Go to AIP Home
Copyright © American Institute of Physics
close