Neutral peptides in the gas phase: conformation and aggregation issues

E Gloaguen, M Mons, K Schwing… - Chemical Reviews, 2020 - ACS Publications
Combined IR and UV laser spectroscopic techniques in molecular beams merged with
theoretical approaches have proven to be an ideal tool to elucidate intrinsic structural …

Gas-phase infrared spectroscopy of neutral peptides: Insights from the far-IR and THz domain

S Bakels, MP Gaigeot, AM Rijs - Chemical reviews, 2020 - ACS Publications
Gas-phase, double resonance IR spectroscopy has proven to be an excellent approach to
obtain structural information on peptides ranging from single amino acids to large peptides …

Functional group identification for FTIR spectra using image-based machine learning models

AA Enders, NM North, CM Fensore… - Analytical …, 2021 - ACS Publications
Fourier transform infrared spectroscopy (FTIR) is a ubiquitous spectroscopic technique.
Spectral interpretation is a time-consuming process, but it yields important information about …

Spectroscopy from machine learning by accurately representing the atomic polar tensor

P Schienbein - Journal of Chemical Theory and Computation, 2023 - ACS Publications
Vibrational spectroscopy is a key technique to elucidate microscopic structure and
dynamics. Without the aid of theoretical approaches, it is, however, often difficult to …

Benchmarking the computational costs and quality of vibrational spectra from ab initio simulations

S Taherivardanjani, R Elfgen… - Advanced Theory …, 2022 - Wiley Online Library
The scaling behavior of ab initio molecular dynamics simulations for the different size bulk
systems of liquid methanol is presented and thereby the characteristics of every system …

Vibrational circular dichroism from DFT molecular dynamics: the AWV method

DR Galimberti - Journal of Chemical Theory and Computation, 2022 - ACS Publications
The paper illustrates the Activity Weighted Velocities (AWV) methodology to compute
Vibrational Circular Dichroism (VCD) anharmonic spectra from Density Functional Theory …

Some opinions on MD-based vibrational spectroscopy of gas phase molecules and their assembly: An overview of what has been achieved and where to go

MP Gaigeot - Spectrochimica Acta Part A: Molecular and …, 2021 - Elsevier
We hereby review molecular dynamics simulations for anharmonic gas phase spectroscopy
and provide some of our opinions of where the field is heading. With these new directions …

Ultrafast transient infrared spectroscopy of photoreceptors with polarizable QM/MM dynamics

V Macaluso, S Hashem, M Nottoli… - The Journal of …, 2021 - ACS Publications
Ultrafast transient infrared (TRIR) spectroscopy is widely used to measure the excitation-
induced structural changes of protein-bound chromophores. Here, we design a novel and …

Determination of kinetic properties in unimolecular dissociation of complex systems from graph theory based analysis of an ensemble of reactive trajectories

AF Perez-Mellor, R Spezia - The Journal of Chemical Physics, 2021 - pubs.aip.org
In this paper, we report how graph theory can be used to analyze an ensemble of
independent molecular trajectories, which can react during the simulation time-length, and …

Formation of Neutral Peptide Aggregates as Studied by Mass‐Selective IR Action Spectroscopy

S Bakels, SBA Porskamp, AM Rijs - Angewandte Chemie, 2019 - Wiley Online Library
The spontaneous aggregation of proteins and peptides is widely studied owing to its relation
to neurodegenerative diseases. To understand the underlying principles of peptide …