Low-frequency vibrational modes in G-quadruplexes reveal the mechanical properties of nucleic acids.

Physical Chemistry Chemical Physics : PCCP
Mario González-JiménezKlaas Wynne

Abstract

Low-frequency vibrations play an essential role in biomolecular processes involving DNA such as gene expression, charge transfer, drug intercalation, and DNA-protein recognition. However, understanding the vibrational basis of these mechanisms relies on theoretical models due to the lack of experimental evidence. Here we present the low-frequency vibrational spectra of G-quadruplexes (structures formed by four strands of DNA) and B-DNA characterized using femtosecond optical Kerr-effect spectroscopy. Contrary to expectation, we found that G-quadruplexes show several strongly underdamped delocalized phonon-like modes that have the potential to contribute to the biology of the DNA at the atomic level. In addition, G-quadruplexes present modes at a higher frequency than B-DNA demonstrating that changes in the stiffness of the molecule alter its gigahertz to terahertz vibrational profile.

References

Apr 25, 1991·Nature·A M ZahlerD M Prescott
May 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·A E García, D M Soumpasis
Feb 1, 1985·Biophysical Chemistry·R Rymdén, P Stilbs
Jul 1, 1984·The Biochemical Journal·K C Chou
Oct 9, 1998·The Journal of Biological Chemistry·H SunN Maizels
Dec 18, 2001·Biopolymers·R H Shafer, I Smirnov
Jan 12, 2005·Nucleic Acids Research·Jean-Louis MergnyLaurent Lacroix
Mar 9, 2007·The Journal of Chemical Physics·Thomas A KnottsJuan J de Pablo
Oct 13, 2007·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·F MerzelG J Kearley
Aug 12, 2009·Proceedings of the National Academy of Sciences of the United States of America·David M Chenoweth, Peter B Dervan
Mar 4, 2011·Journal of Computational Chemistry·Stefan GrimmeLars Goerigk
Feb 16, 2013·Science·Sangjin KimX Sunney Xie
Feb 21, 2013·Nature Chemistry·Giulia BiffiShankar Balasubramanian
Sep 26, 2013·Proceedings of the National Academy of Sciences of the United States of America·Carey PhelpsAndrew H Marcus
Feb 4, 2014·Journal of Molecular Biology·Robert D GrayJonathan B Chaires
May 13, 2014·Physics of Life Reviews·Maxim D Frank-Kamenetskii, Shikha Prakash
Jul 21, 2015·Nature Biotechnology·Vicki S ChambersShankar Balasubramanian
Jun 2, 2016·Nature Communications·Mario González-JiménezKlaas Wynne
Sep 27, 2016·Frontiers in Chemistry·Debmalya BhattacharyyaSoumitra Basu
Mar 16, 2017·Biophysical Journal·Katherine A NiessenAndrea G Markelz
Apr 12, 2017·Physical Chemistry Chemical Physics : PCCP·Gordon HithellNeil T Hunt
May 18, 2017·Journal of the American Chemical Society·Judith ReichenbachKlaas Wynne
Jun 15, 2017·The Journal of Physical Chemistry Letters·Gopakumar RamakrishnanKlaas Wynne
May 3, 2018·Nucleic Acids Research·Markus MeierJörg Stetefeld
Jun 16, 2018·Nucleic Acids Research·Alexandra BalaceanuModesto Orozco
Dec 18, 2018·The Journal of Physical Chemistry. B·Jaspreet Singh, Prashant K Purohit
Mar 6, 2019·Nature Communications·Katherine A NiessenAndrea G Markelz

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