Journal
JOURNAL OF PHYSICAL CHEMISTRY A
Volume 117, Issue 3, Pages 594-606Publisher
AMER CHEMICAL SOC
DOI: 10.1021/jp310177e
Keywords
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Funding
- European Research Council under the European Union [247051]
- German Science Foundation (Deutsche Forschungsgemeinschaft)
- National Institutes of Health [GM059230, GM091364]
- National Science Foundation [CHE-1058791]
- Direct For Mathematical & Physical Scien [1058791] Funding Source: National Science Foundation
- Division Of Chemistry [1058791] Funding Source: National Science Foundation
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We explore the N-H stretching vibrations of adenosine-thymidine base pairs in chloroform solution with linear and nonlinear infrared spectroscopy. Based on estimates from NMR measurements and ab initio calculations, we conclude that adenosine and thymidine form hydrogen bonded base pairs in Watson-Crick, reverse Watson-Crick, Hoogsteen, and reverse Hoogsteen configurations with similar probability. Steady-state concentration and temperature dependent linear FT-IR studies, including H/D exchange experiments, reveal that these hydrogen-bonded base pairs have complex N-H/N-D stretching spectra with a multitude of spectral components. Nonlinear 2D-IR spectroscopic results, together with IR-pump-IR-probe measurements, as also corroborated by ab initio calculations, reveal that the number of N-H stretching transitions is larger than the total number of N-H stretching modes. This is explained by couplings to other modes, such as an underdamped low-frequency hydrogen-bond mode, and a Fermi resonance with NH2 bending overtone levels of the adenosine amino-group. Our results demonstrate that modeling based on local N-H stretching vibrations only is not sufficient and call for further refinement of the description of the N-H stretching manifolds of nucleic acid base pairs of adenosine and thymidine, incorporating a multitude of couplings with fingerprint and low-frequency modes.
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