title: A molecular dynamics study of Lys-Trp-Lys: structure and dynamics in solution following photoexcitation.
abstract: We report studies of the structure and dynamics of a tripeptide Lys-Trp-Lys (KWK) in aqueous solution following photoexcitation by molecular dynamics simulations. For ground-state KWK, we observe three stable conformations with free energy differences of less than 5.2 kJ/mol. Each conformer is stabilized by a pi-cation interaction between one of three protonated amino groups and the indole moiety. For the excited state of tryptophan in KWK, the simulated molecular dynamics of the three isomers are similar, all in good agreement with recent femtosecond experiments (J. Phys. Chem. B 2005, 109, 16901). Specifically, we observe: (1) the fluorescence anisotropy is dominated by a single-exponential component and decays in approximately 130 ps, (2) the total dynamic Stokes shift reaches approximately 2700 cm(-1), and (3) the excited state relaxation dynamics occurs on several time scales ranging from femtoseconds to tens of picoseconds. The relaxation dynamics involve rapid initial response of neighboring water, followed by local motions of flexible peptide chains. These processes drive global restructuring of the tripeptide on a rather flat energy surface, inducing slower dynamics evident in both the water and protein contributions to the stabilization energy of the photoexcited chromophore. The water and protein dynamics are strongly correlated. On a still longer time scale, we observe isomerization of two excited state conformers to the other most stable one, an analogue for evolution of trajectories along the funnel on the rugged free energy landscape to the final "native" state. Our studies suggest new experiments to detect this unique dynamics.
authors.affiliation: Biophysics Program, Ohio State University, Columbus, Ohio 43210, USA.
authors.forename: Ali A
authors.initials: AA
authors.lastname: Hassanali
authors.forename: Tanping
authors.initials: T
authors.lastname: Li
authors.forename: Dongping
authors.initials: D
authors.lastname: Zhong
authors.forename: Sherwin J
authors.initials: SJ
authors.lastname: Singer
mesh_terms: D007536:Isomerism; D008958:Models, Molecular; D009842:Oligopeptides / Q000737:chemistry*; D010777:Photochemistry; D011487:Protein Conformation; D012996:Solutions
chemical_list: D009842:Oligopeptides; D012996:Solutions; C029535:lysyl-tryptophyl-alpha-lysine