The effect of topology on the structure and free energy landscape of DNA kissing complexes.
We use a recently developed coarse-grained model for DNA to study kissing complexes formed by hybridization of complementary hairpin loops. The binding of the loops is topologically constrained because their linking number must remain constant. By studying systems with linking numbers -1, 0, or 1 we show that the average number of interstrand base pairs is larger when the topology is more favourable for the right-handed wrapping of strands around each other. The thermodynamic stability of the...Expand abstract
- Publication status:
- Peer review status:
- Peer reviewed
- Copyright holder:
- American Institute of Physics
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- Copyright 2012 American Institute of Physics. This article may be downloaded for personal use only. Any other use requires prior permission of the author and the American Institute of Physics. The following article appeared in J. Chem. Phys. 136, 215102 (2012) and may be found at http://link.aip.org/link/?jcp/136/215102.
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