Multipolar Force Fields for Amide-I Spectroscopy from Conformational Dynamics of the Alanine Trimer

Padmabati Mondal, Pierre André Cazade, Akshaya K. Das, Tristan Bereau, Markus Meuwly

Research output: Contribution to journalArticlepeer-review

Abstract

The dynamics and spectroscopy ofN-methyl-acetamide (NMA) and trialanine in solution are characterized from molecular dynamics simulations using different energy functions, including a conventional point charge (PC)-based force field, one based on a multipolar (MTP) representation of the electrostatics, and a semiempirical DFT method. For the 1D infrared spectra, the frequency splitting between the two amide-I groups is 10 cm-1from the PC, 13 cm-1from the MTP, and 47 cm-1from self-consistent charge density functional tight-binding (SCC-DFTB) simulations, compared with 25 cm-1from experiment. The frequency trajectory required for the frequency fluctuation correlation function (FFCF) is determined from individual normal mode (INM) and full normal mode (FNM) analyses of the amide-I vibrations. The spectroscopy, time-zero magnitude of the FFCFC(t= 0), and the static component Δ02from simulations using MTP and analysis based on FNM are all consistent with experiments for (Ala)3. Contrary to this, for the analysis excluding mode-mode coupling (INM), the FFCF decays to zero too rapidly and for simulations with a PC-based force field, the Δ02is too small by a factor of two compared with experiments. Simulations with SCC-DFTB agree better with experiment for these observables than those from PC-based simulations. The conformational ensemble sampled from simulations using PCs is consistent with the literature (including PII, β, αR, and αL), whereas that covered by the MTP-based simulations is dominated by PIIwith some contributions from β and αR. This agrees with and confirms recently reported Bayesian-refined populations based on 1D infrared experiments. FNM analysis together with a MTP representation provides a meaningful model to correctly describe the dynamics of hydrated trialanine.

Original languageEnglish
Pages (from-to)10928-10938
Number of pages11
JournalJournal of Physical Chemistry B
Volume125
Issue number39
DOIs
Publication statusPublished - 7 Oct 2021
Externally publishedYes

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