Vibrational Spectroscopy of Homo- and Heterochiral Amino Acid Dimers: Conformational Landscapes.
Haolu WangMatthias HegerMohamad H Al-JabiriYunjie XuPublished in: Molecules (Basel, Switzerland) (2021)
The homo- and heterochiral protonated dimers of asparagine with serine and with valine were investigated using infrared multiple-photon dissociation (IRMPD) spectroscopy. Extensive quantum-chemical calculations were used in a three-tiered strategy to screen the conformational spaces of all four dimer species. The resulting binary structures were further grouped into five different types based on their intermolecular binding topologies and subunit configurations. For each dimer species, there are eight to fourteen final conformational geometries within a 10 kJ mol -1 window of the global minimum structure for each species. The comparison between the experimental IRMPD spectra and the simulated harmonic IR features allowed us to clearly identify the types of structures responsible for the observation. The monomeric subunits of the observed homo- and heterochiral dimers are compared to the corresponding protonated/neutral amino acid monomers observed experimentally in previous IRMDP/rotational spectroscopic studies. Possible chirality and kinetic influences on the experimental IRMPD spectra are discussed.
Keyphrases
- molecular dynamics
- density functional theory
- molecular dynamics simulations
- single molecule
- amino acid
- high resolution
- molecular docking
- atomic force microscopy
- living cells
- genetic diversity
- energy transfer
- protein kinase
- monte carlo
- ionic liquid
- high throughput
- transcription factor
- binding protein
- quantum dots
- dna binding
- raman spectroscopy
- case control