Low-frequency modes of the benzoic acid dimer in chloroform observed by the optical Kerr effect

2011 ◽  
Vol 135 (13) ◽  
pp. 134504 ◽  
Author(s):  
Sayuri Yamaguchi ◽  
Kamila Mazur ◽  
Ismael A. Heisler ◽  
Hideaki Shirota ◽  
Keisuke Tominaga ◽  
...  
Keyword(s):  
Benzoic Acid ◽  
Kerr Effect ◽  
Low Frequency ◽  
Optical Kerr Effect

Observation of low-frequency Raman modes in several halogenated methanes by the optical Kerr effect

1992 ◽  
Vol 191 (5) ◽  
pp. 423-429 ◽  
Author(s):  
R. Back ◽  
G.A. Kenney-Wallace ◽  
W.T. Lotshaw ◽  
D. McMorrow
Keyword(s):  
Kerr Effect ◽  
Low Frequency ◽  
Optical Kerr Effect ◽  
Raman Modes ◽  
Halogenated Methanes

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

2020 ◽  
Author(s):  
M. González-Jiménez ◽  
G. Ramakrishnan ◽  
K. Wynne
Keyword(s):  
Protein Interactions ◽  
Kerr Effect ◽  
Biological Function ◽  
Low Frequency ◽  
Theoretical Models ◽  
Protein Recognition ◽  
Optical Kerr Effect ◽  
Vibrational Modes ◽  
New Perspective

AbstractLow-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 of 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. These results demonstrate that current theoretical models fail to predict basic properties of the vibrational modes of DNA.Statement of significanceA number of recent studies have identified thermally excited low-frequency vibrational modes as a key deciding factor in the biological function of DNA. However, the nature of these vibrational modes has never been established. Here, vibrational spectroscopy with unrivalled signal-to-noise in the gigahertz to terahertz range is used to determine the low-frequency Raman spectra of nucleotides and oligomeric DNAs carefully chosen to form G-quadruplexes, structures formed by four strands of DNA common in the genome. These G-quadruplexes exhibit an unusual group of highly-underdamped delocalized vibrational modes—not reproduced by any of the theoretical models in use—which are expected to be the thermally excited. This provides a new perspective on the role of low-frequency vibrational modes in protein interactions and allostery.

LOW FREQUENCY MODES PROBED BY TIME-DOMAIN OPTICAL KERR EFFECT SPECTROSCOPY

1996 ◽  
Vol 10 (11) ◽  
pp. 1229-1272 ◽  
Author(s):  
S. KINOSHITA ◽  
Y. KAI ◽  
T. ARIYOSHI ◽  
Y. SHIMADA
Keyword(s):  
Frequency Domain ◽  
Time Domain ◽  
Kerr Effect ◽  
Low Frequency ◽  
Great Accuracy ◽  
Wide Frequency Range ◽  
Optical Kerr Effect ◽  
Spectroscopic Techniques ◽  
Frequency Range ◽  
Debye Relaxation

The principle and application of ultrafast optical Kerr effect (OKE) spectroscopy have been reviewed. This spectroscopy is shown to be very useful to investigate low frequency modes in disordered materials and the obtained data are directly comparable with frequency-domain light scattering spectroscopy. Experimental study to show the consistency between the time- and frequency-domain spectroscopy has been performed for liquid nitrobenzene and the excellent agreement is attained over three orders of magnitude in frequency range. It is also shown that the result obtained by the OKE measurement is consistent with that obtained by four wave mixing spectroscopy. Combination of these spectroscopic techniques is particularly suited for the investigation of low frequency modes because a wide frequency range is covered with great accuracy. Several remarks concerning the OKE spectroscopy are presented such as the breakdown of Debye relaxation model and various interference effects which may distort the time-domain data.

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