Cy3-DNA Stacking Interactions Strongly Depend on the Identity of the Terminal Basepair

We characterized the effect of the first basepair on the conformational dynamics of the fluorescent dye Cy3 attached to the 5′ end of double-stranded DNA using Gaussian-mixture adaptive umbrella sampling simulations. In the simulations, the sampling of all five dihedral angles along the linker was e...

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Bibliografiske detaljer
Main Authors: Spiriti, Justin, Binder, Jennifer K., Levitus, Marcia, van der Vaart, Arjan
Format: Artigo
Sprog:Inglês
Udgivet: The Biophysical Society 2011
Fag:
Nucleic Acid
Online adgang:https://ncbi.nlm.nih.gov/pmc/articles/PMC3037574/
https://ncbi.nlm.nih.gov/pubmed/21320450
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1016/j.bpj.2011.01.014
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