Stacking Interactions and DNA Intercalation
Artikel i vetenskaplig tidskrift, 2009

The relationship between stacking interactions and the intercalation of proflavine and ellipticine within DNA is investigated using a nonempirical van der Waals density functional for the correlation energy. Our results, employing a binary stack model, highlight fundamental, qualitative differences between base-pair-base-pair interactions and that of the stacked intercalator-base-pair system. The most notable result is the paucity of torque, which so distinctively defines the twist of DNA. Surprisingly, this model, when combined with a constraint on the twist of the surrounding base-pair steps to match the observed unwinding of the sugar-phosphate backbone, was sufficient for explaining the experimentally observed proflavine intercalator configuration. Our extensive mapping of the potential energy surface of base-pair-intercalator interactions call provide valuable information for future nonempirical studies of DNA intercalation dynamics.

Författare

S Li

VR Cooper

Timo Thonhauser

Bengt Lundqvist

Chalmers, Teknisk fysik, Material- och ytteori

D. C. Langreth

Journal of Physical Chemistry B

1520-6106 (ISSN) 1520-5207 (eISSN)

Vol. 113 32 11166-

Ämneskategorier

Den kondenserade materiens fysik

DOI

10.1021/jp905765c