Work

Two-Dimensional Infrared Study of Vibrational Coupling between Azide and Nitrile Reporters in a RNA Nucleoside

Year: 2016

Type: article

Abstract: The vibrations in the azide, N3, asymmetric stretching region and nitrile, CN, symmetric stretching region of 2'-azido-5-cyano-2'-deoxyuridine (N3CNdU) are examined by two-dimensional infrared (2D IR) spectroscopy. At earlier waiting times, the 2D IR spectrum shows the presence of both vibrational transitions along the diagonal and off-diagonal cross peaks indicating vibrational coupling. The coupling strength is determined from the off-diagonal anharmonicity to be 66 cm(-1) for the intramolecular distance of ∼7.9 Å, based on a structural map generated for this model system. In addition, the frequency-frequency correlation decay is detected, monitoring the solvent dynamics around each individual probe position. Overall, these vibrational reporters can be utilized in tandem to simultaneously track global structural information and fast structural fluctuations.

Source: The Journal of Physical Chemistry B

DOI: 10.1021/acs.jpcb.6b07212

Authors: Andrew J. Schmitz, David G. Hogle, Xin Sonia Gai, Edward E. Fenlon, Scott H. Brewer, Matthew J. Tucker

Institutions: University of Nevada, Reno, Franklin & Marshall College

Language: English

Topic: Spectroscopy and Quantum Chemical Studies

Subfield: Atomic and Molecular Physics, and Optics

Field: Physics and Astronomy

Domain: Physical Sciences

Open Access status: green

Funder: National Institute of General Medical Sciences

Award: Use of Vibrational Reporters to Measure Dynamics and Distances in RNA and Proteins