The static and dynamical properties of L-lysine adsorbed onto a hydroxylated quartz surface were modeled by using semiempirical quantum mechanics and force field techniques. Both semiempirical and force field calculations indicate that a strong interaction occurs between the -protonated amino group of L-lysine with the surface. Furthermore, the amino acid molecule has a preferred end-on orientation, with the -protonated amino group pointing toward the surface. The statistical analysis of the system trajectories reveals that the relatively ordered water-shell structure of the amino acid molecule in the "bulk" solution is broken when the molecule approaches the surface because of the reciprocal perturbation of the molecule and surface solvation shells.

Molecular modeling techniques have been used to investigate the interaction of L-lysine in aqueous medium with silanol and methyl sites onto quartz substrates. The substrate effect has been studied for partially hydrophilic surfaces formed by silanol and methyl groups with a ratio of 1:5 and hydrophobic fully methylated surfaces. Molecular dynamics and static calculations indicate that L-lysine does not show any significant interaction with fully methylated surfaces, while its interaction with hydroxylated/methylated surfaces is dominated by electrostatic and H-bond terms. Accordingly, on fully methylated surfaces there is no preferential orientation of L-lysine with respect to the surface, while for hydroxylated/methylated surfaces the L-lysinesurface interaction mainly depends on the molecular orientation, with a preferred geometry involving the ammonium group pointing toward the silanol site. The structure of water shells around L-lysine molecules was shown to be strongly affected by the relative hydrophilic/hydrophobic character of the surfaces. In particular, the order is almost completely lost for partially hydrophilic surfaces, while well-defined hydration shells around L-lysine are obtained for hydrophobic surfaces.

The adsorption of an EAK 16-II oligopeptide sequence in aqueous medium onto functionalized quartz surfaces has been studied by using force field calculations and molecular dynamics methods. Two different surfaces have been simulated respectively involving fully methylated and fully silanolic quartz surfaces. Geometry optimization and molecular dynamics simulations showed that the adsorption process is mainly governed by the electrostatic interactions between SiO- surface groups and the charged residues of the oligopeptide sequence. In particular, it was found that strong electrostatic interactions (a) prompt the parallel orientation of the oligopeptide with respect to the hydrophilic charged surface, resulting in an effective physisorption process and (b) stabilize the beta-sheet configuration of the physisorbed molecules. In particular, the end-on oligopeptide orientations are demonstrated to progressively lie back onto the hydrophilic surface, but this does not happen onto the hydrophobic surface. In any case, no physisorption process was observed for the fully methylated surface, where the molecule is seen to move away from the surface during the simulation time.

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