Assembly of an antiparallel homo-adenine DNA duplex by small-molecule binding

Journal of the American Chemical Society
Ozgül PersilNicholas V Hud

Abstract

Molecules that reversibly bind DNA and trigger the formation of non-Watson-Crick secondary structures would be useful in the design of dynamic DNA nanostructures and as potential leads for new therapeutic agents. We demonstrate that coralyne, a small crescent-shaped molecule, promotes the formation of a duplex secondary structure from homo-adenine oligonucleotides. AFM studies reveal that the staggered alignment of homo-adenine oligonucleotides upon coralyne binding produces polymers of micrometers in length, but only 2 nm in height. A DNA duplex was also studied that contained eight A.A mismatches between two flanking 7-bp Watson-Crick helices. CD spectra confirm that the multiple A.A mismatches of this duplex bind coralyne in manner similar to that of homo-adenine oligonucleotides. Furthermore, the melting temperature of this hybrid duplex increases by 13 degrees C upon coralyne binding. These observations illustrate that the helical structure of the homo-adenine-coralyne duplex is compatible with the B-form DNA helix.

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Citations

Sep 8, 2011·Chemical Communications : Chem Comm·Yen-Hsiu Lin, Wei-Lung Tseng
Mar 10, 2010·Proceedings of the National Academy of Sciences of the United States of America·Eric D HorowitzNicholas V Hud
Jul 7, 2009·Nucleic Acids Research·Denise S TevisW David Wilson
Feb 12, 2014·Proceedings of the National Academy of Sciences of the United States of America·Jia ShengJack W Szostak
Sep 4, 2010·Journal of Nucleic Acids·Motilal Maiti, Gopinatha Suresh Kumar
Mar 24, 2016·Nature Chemistry·Nicole AvakyanHanadi F Sleiman
Sep 11, 2007·Trends in Biotechnology·Ozgül Persil, Nicholas V Hud
Jun 30, 2007·Biochimica Et Biophysica Acta·Prabal Giri, Gopinatha Suresh Kumar
May 8, 2018·Soft Matter·Sunita SrivastavaOleg Gang
Sep 1, 2017·Chemistry : a European Journal·Sandeepa Kulala VittalaJoshy Joseph
Mar 25, 2016·Chemical Communications : Chem Comm·Brian J CaffertyNicholas V Hud
Aug 30, 2005·FEBS Letters·Feifei XingXiaogang Qu
Mar 21, 2008·Molecular BioSystems·Prabal Giri, Gopinatha Suresh Kumar
Jul 8, 2008·Chembiochem : a European Journal of Chemical Biology·Ozgül Persil CetinkolNicholas V Hud
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