Simulation of dissociation of DNA duplexes attached to the surface

• Autorzy: Vladimir Zhdanov , Anders Gunnarsson , Fredrik Höök
• Języki publikacji: EN

Abstrakty

EN

We present Monte Carlo simulations of dissociation of duplexes formed of complementary single-stranded DNAs with one of the strands attached to the surface. To describe the transition from the bound state to the unbound state of two strands located nearby, we use a lattice model taking DNA base-pair interactions and comformational changes into account. The results obtained are employed as a basis for a more coarse-grained model including strand backward association and diffusion resulting in complete dissociation. The distribution of the dissociation time is found to be exponential. This finding indicates that the non-exponential kinetic features observed in the corresponding experiments seem to be related to extrinsic factors, e.g., to the surface heterogeneity.

Słowa kluczowe

EN

DNA dissociation; non-exponential kinetic; lattice models; Monte Carlo simulations

• Czasopismo: Open Physics
• Rocznik: 2010
• Tom: 8
• Numer: 6
• Strony: 883-892

Daty

wydano

2010-12-01

online

2010-09-05

Twórcy

autor

Vladimir Zhdanov,

autor

Anders Gunnarsson

• Division of Biological Physics, Department of Applied Physics, Chalmers University of Technology, S-41296, Göteborg, Sweden

autor

Fredrik Höök

• Division of Biological Physics, Department of Applied Physics, Chalmers University of Technology, S-41296, Göteborg, Sweden

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Identyfikatory

DOI

10.2478/s11534-010-0012-1