Literature DB >> 16986892

The anharmonic vibrational potential and relaxation pathways of the amide I and II modes of N-methylacetamide.

Lauren P DeFlores1, Ziad Ganim, Sarah F Ackley, Hoi Sung Chung, Andrei Tokmakoff.   

Abstract

We investigate the influence of isotopic substitution and solvation of N-methylacetamide (NMA) on anharmonic vibrational coupling and vibrational relaxation of the amide I and amide II modes. Differences in the anharmonic potential of isotopic derivatives of NMA in D2O and DMSO-d6 are quantified by extraction of the anharmonic parameters and the transition dipole moment angles from cross-peaks in the two-dimensional infrared (2D-IR) spectra. To interpret the effects of isotopic substitution and solvent interaction on the anharmonic potential, density functional theory and potential energy distribution calculations are performed. It is shown that the origin of anharmonic variation arises from differing local mode contributions to the normal modes of the NMA isotopologues, particularly in amide II. The time domain manifestation of the coupling is the coherent exchange of excitation between amide modes seen as the quantum beats in femtosecond pump-probes. The biphasic behavior of population relaxation of the pump-probe and 2D-IR experiments can be understood by the rapid exchange of strongly coupled modes within the peptide backbone, followed by picosecond dissipation into weakly coupled modes of the bath.

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Year:  2006        PMID: 16986892     DOI: 10.1021/jp0603334

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  16 in total

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Authors:  Carlos R Baiz; Bartosz Błasiak; Jens Bredenbeck; Minhaeng Cho; Jun-Ho Choi; Steven A Corcelli; Arend G Dijkstra; Chi-Jui Feng; Sean Garrett-Roe; Nien-Hui Ge; Magnus W D Hanson-Heine; Jonathan D Hirst; Thomas L C Jansen; Kijeong Kwac; Kevin J Kubarych; Casey H Londergan; Hiroaki Maekawa; Mike Reppert; Shinji Saito; Santanu Roy; James L Skinner; Gerhard Stock; John E Straub; Megan C Thielges; Keisuke Tominaga; Andrei Tokmakoff; Hajime Torii; Lu Wang; Lauren J Webb; Martin T Zanni
Journal:  Chem Rev       Date:  2020-06-29       Impact factor: 60.622

2.  Two-dimensional infrared population transfer spectroscopy for enhancing structural markers of proteins.

Authors:  Thomas la Cour Jansen; Jasper Knoester
Journal:  Biophys J       Date:  2007-11-02       Impact factor: 4.033

3.  2D IR cross peaks reveal hydrogen-deuterium exchange with single residue specificity.

Authors:  Emily B Dunkelberger; Ann Marie Woys; Martin T Zanni
Journal:  J Phys Chem B       Date:  2013-05-23       Impact factor: 2.991

4.  Effects of the position and manner of hydration on the stability of solvated N-methylacetamides and the strength of binding between N-methylacetamide and water clusters: a computational study.

Authors:  Xiuchan Xiao; Ying Tan; Lijuan Zhu; Yanzhi Guo; Zhining Wen; Menglong Li; Xuemei Pu; Anmin Tian
Journal:  J Mol Model       Date:  2011-07-15       Impact factor: 1.810

5.  Two-Dimensional Vibrational Lineshapes of Amide III, II, I and A Bands in a Helical Peptide.

Authors:  Tomoyuki Hayashi; Shaul Mukamel
Journal:  J Mol Liq       Date:  2008-06-30       Impact factor: 6.165

6.  Tuning Molecular Vibrational Energy Flow within an Aromatic Scaffold via Anharmonic Coupling.

Authors:  Andrew J Schmitz; Hari Datt Pandey; Farzaneh Chalyavi; Tianjiao Shi; Edward E Fenlon; Scott H Brewer; David M Leitner; Matthew J Tucker
Journal:  J Phys Chem A       Date:  2019-12-03       Impact factor: 2.781

7.  Solvent-Independent Anharmonicity for Carbonyl Oscillators.

Authors:  Samuel H Schneider; Huong T Kratochvil; Martin T Zanni; Steven G Boxer
Journal:  J Phys Chem B       Date:  2017-03-08       Impact factor: 2.991

8.  The dynamics of peptide-water interactions in dialanine: An ultrafast amide I 2D IR and computational spectroscopy study.

Authors:  Chi-Jui Feng; Andrei Tokmakoff
Journal:  J Chem Phys       Date:  2017-08-28       Impact factor: 3.488

9.  Applications of 2D IR spectroscopy to peptides, proteins, and hydrogen-bond dynamics.

Authors:  Yung Sam Kim; Robin M Hochstrasser
Journal:  J Phys Chem B       Date:  2009-06-18       Impact factor: 2.991

10.  Vibrational Stark Effects of Carbonyl Probes Applied to Reinterpret IR and Raman Data for Enzyme Inhibitors in Terms of Electric Fields at the Active Site.

Authors:  Samuel H Schneider; Steven G Boxer
Journal:  J Phys Chem B       Date:  2016-08-31       Impact factor: 2.991

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