Pavan, Giovanni Maria and Mintzer, Meredith A and Simanek, Eric E and Merkel, Olivia M and Kissel, Thomas and Danani, Andrea (2010) Computational insights into the interactions between DNA and siRNA with rigid and flexible triazine dendrimers. Biomacromolecules, 11 (3). pp. 721-730. ISSN 1525-7797
Full text not available from this repository.Abstract
In this study, simulation challenges intuitive models of “flexible” and “rigid” generation two triazine dendrimers as it pertains to solution conformation and conformation on binding DNA or siRNA sequences. These results derive from structural and energetic analyses of the binding events. Simulations of the rigid structure reinforce the role of the constrained piperazine linker in positioning the peripheral groups at significant distance from each other and the core of the dendrimer. In contrast, the flexible dendrimer, characterized by triethyleneglycol-like linkers, collapses in solution. On binding DNA and siRNA, these conformations are largely retained. The rigid dendrimer undergoes reorganization of peripheral groups to generate a large number of contacts to the nucleic acid. In contrast, the flexible dendrimer, originally conceived to create multivalent interactions with nucleic acids, generates only a few contacts and collapses further. This paper provides unique insight in the role played by molecular flexibility in the binding phenomenon.
| Item Type: | Scientific journal article, Newspaper article or Magazine article |
|---|---|
| Subjects: | Physical sciences Physical sciences > Physics > Computational physics |
| Depositing User: | Andrea Danani |
| Date Deposited: | 27 Feb 2015 06:10 |
| Last Modified: | 08 Jul 2016 08:56 |
| URI: | http://repository.supsi.ch/id/eprint/6210 |
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