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Issue 43, 2016
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Interaction of osmium(II) redox probes with DNA: insights from theory

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Abstract

In the course of developing ultrasensitive and quantitative electrochemical point-of-care analytical tools for genetic detection of infectious diseases, osmium(II) metallointercalators were revealed to be suitable and efficient redox probes to monitor the in vitro DNA amplification [Defever etal, Anal. Chem., 2011, 83, 1815–1821]. In this work, we thus propose a complete computational protocol in order to evaluate the affinity between Os(II) complexes with double-stranded DNA. This protocol is based on molecular dynamics, with the parametrization of the GAFF force field for the Os(II) complexes presenting an octahedral environment with polypyridine ligands, and QM/QM′ calculations to evaluate the binding energy. For three Os(II) probes and different binding sites, molecular dynamics simulations and interaction energies calculated at the QM/QM′ level are successively discussed and compared to experimental data in order to identify the most stable binding sites. The computational protocol we propose should then be used to design more efficient Os(II) metallointercalators.

Graphical abstract: Interaction of osmium(ii) redox probes with DNA: insights from theory

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Publication details

The article was received on 22 Jul 2016, accepted on 03 Oct 2016 and first published on 04 Oct 2016


Article type: Paper
DOI: 10.1039/C6CP05105G
Citation: Phys. Chem. Chem. Phys., 2016,18, 30029-30039
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    Interaction of osmium(II) redox probes with DNA: insights from theory

    A. Sharma, S. Delile, M. Jabri, C. Adamo, C. Fave, D. Marchal and A. Perrier, Phys. Chem. Chem. Phys., 2016, 18, 30029
    DOI: 10.1039/C6CP05105G

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