Simulation of vibrational energy transfer in two-dimensional infrared spectroscopy of amide I and amide II modes in solution

Robbert Bloem*, Arend G. Dijkstra, Thomas La Cour Jansen, Jasper Knoester

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

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Abstract

Population transfer between vibrational eigenstates is important for many phenomena in chemistry. In solution, this transfer is induced by fluctuations in molecular conformation as well as in the surrounding solvent. We develop a joint electrostatic density functional theory map that allows us to connect the mixing of and thereby the relaxation between the amide I and amide II modes of the peptide building block N-methyl acetamide. This map enables us to extract a fluctuating vibrational Hamiltonian from molecular dynamics trajectories. The linear absorption spectrum, population transfer, and two-dimensional infrared spectra are then obtained from this Hamiltonian by numerical integration of the Schrodinger equation. We show that the amide I/amide II cross peaks in two-dimensional infrared spectra in principle allow one to follow the vibrational population transfer between these two modes. Our simulations of N-methyl acetamide in heavy water predict an efficient relaxation between the two modes with a time scale of 790 fs. This accounts for most of the relaxation of the amide I band in peptides, which has been observed to take place on a time scale of 450 fs in N-methyl acetamide. We therefore conclude that in polypeptides, energy transfer to the amide II mode offers the main relaxation channel for the amide I vibration. (C) 2008 American Institute of Physics.

Original languageEnglish
Article number055101
Number of pages9
JournalJournal of Chemical Physics
Volume129
Issue number5
DOIs
Publication statusPublished - 7-Aug-2008

Keywords

  • DUAL-FREQUENCY 2D-IR
  • N-METHYLACETAMIDE
  • MOLECULAR-DYNAMICS
  • SPECTRAL SIGNATURES
  • RAMAN-SPECTROSCOPY
  • AQUEOUS-SOLUTION
  • POLARIZED RAMAN
  • LIQUID WATER
  • PEPTIDES
  • PROTEINS

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