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The effect of topology on the structure and free energy landscape of DNA kissing complexes.

Abstract:

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...

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Publication status:
Published
Peer review status:
Peer reviewed

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Publisher copy:
10.1063/1.4722203

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Institution:
University of Oxford
Role:
Author
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Institution:
University of Oxford
Division:
MPLS
Department:
Chemistry
Sub department:
Physical & Theoretical Chem
Role:
Author
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Institution:
University of Oxford
Division:
MPLS
Department:
Physics
Sub department:
Theoretical Physics
Role:
Author
More by this author
Institution:
University of Oxford
Division:
MPLS
Department:
Physics
Sub department:
Theoretical Physics
Role:
Author
Engineering and Physical Sciences Research Council More from this funder
Publisher:
American Institute of Physics Publisher's website
Journal:
Journal of chemical physics Journal website
Volume:
136
Issue:
21
Pages:
215102
Publication date:
2012-06-01
DOI:
EISSN:
1089-7690
ISSN:
0021-9606
Source identifiers:
320486
Language:
English
Keywords:
Pubs id:
pubs:320486
UUID:
uuid:1ba5018f-0375-4a2d-a24a-7faaef3faa87
Local pid:
pubs:320486
Deposit date:
2013-03-20

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