title: Rotamer interconversion and its influence on the fluorescence decay of tyrosine: a molecular dynamics study.
abstract: To test the hypothesis of charge-transfer quenching between an electrophile in the alanyl sidechain (carbonyl carbon or protonated amino group) and the excited aromatic phenol-subunit, which leads to a bi-exponential fluorescence decay of tyrosine in acidic aqueous solution, we investigated the dynamics of this amino acid and of the peptide Gly-Tyr-Gly in vacuo and in water with classical molecular dynamics (MD) and with stochastic dynamics (SD) computer simulation. The proposed low-frequency of interconversions between sidechain rotamers on a fluorescence time-scale could not be confirmed. Instead, frequent transitions for both, chi 1 and chi 2, dihedrals were observed. Simulating a low pH situation (protonated carboxylate group) did not significantly affect the transition frequency. Rotamer interconversions in the peptide Gly-Tyr-Gly, though significantly less, were also observed although the fluorescence decay of this compound could be described by a uni-modal lifetime distribution centered at 0.8 ns. The results obtained from simulations in vacuo and in solution were critically compared with those of stochastic simulations. We found the stochastic simulation in a better agreement to full MD (water explicitly included), which is highly time consuming, whereas the in vacuo simulations clearly deviated from both. We conclude from our results that, since the rotamers do frequently interconvert within the fluorescence lifetime of tyrosine, their contribution to the non-exponential fluorescence decay should be negligible.
authors: Institut für Physikalische Chemie, Universität Wien, Austria.
authors: A J
authors: AJ
authors: Kungl
mesh_terms: D003198:Computer Simulation; D008968:Molecular Conformation; D009842:Oligopeptides / Q000737:chemistry*; D011487:Protein Conformation; D013050:Spectrometry, Fluorescence / Q000379:methods; D013269:Stochastic Processes; D013997:Time Factors; D014443:Tyrosine / Q000737:chemistry*
chemical_list: D009842:Oligopeptides; D014443:Tyrosine; C078834:glycyl-tyrosyl-glycine