Biological membranes and model lipid systems containing high amounts of unsaturated lipids and sterols are subject to chemical and/or photo-induced lipid oxidation, which leads to the creation of exotic oxidized lipid products (OxPLs). OxPLs are known to have significant physiological impact in cellular systems and also affect physical properties of both biological and model lipid bilayers. In this paper we (i) provide a perspective on the existing literature on simulations of lipid bilayer systems containing oxidized lipid species as well as the main related experimental results, (ii) describe our new data of all-atom and coarse-grained simulations of hydroperoxidized lipid monolayer and bilayer systems and (iii) provide a comparison of the MARTINI and ELBA coarse grained force fields for lipid bilayer systems. We show that the better electrostatic treatment of interactions in ELBA is able to resolve previous conflicts between experiments and simulations. This article is part of a Special Issue entitled: Biosimulations edited by Ilpo Vattulainen and Tomasz Róg.
In this work we investigate the Fe3O4 (001) surface/water interface by combining several theoretical approaches, ranging from a hybrid functional method (HSE06) to density-functional tight-binding (DFTB) to molecular mechanics (MM). First, we assess the accuracy of the DFTB method to reproduce correctly HSE06 results on structural details and energetics and available experimental data for the adsorption of isolated water, dimers, trimers, etc. up to a water monolayer. Secondly, we build two possible configurations of a second and a third overlayer and perform molecular dynamics simulations with DFTB, monitoring the water orientation, the H-bond network, and ordered water structures formation. To make our models more realistic, we then build a 12-nm thick water multilayer on top of the Fe3O4 (001) surface slab model, which we investigate through MM molecular dynamics. The water layers structuring, revealed by the analysis of the atomic positions from a long MM-MD run for this large MM model, extends up to about 6-7 Å and nicely compares with that observed for a water trilayer model. However, MM and DFTB MD simulations show some discrepancy due to the poor description of the Fe---OH2 distance in MM that calls for further work in the parametrization of the model. * Corresponding author: cristiana.divalentin@unimib.it
SUPPLEMENTARY MATERIALSee supplementary material for further computational details, tables with comparative analysis, figures of the structures for three and six water molecules adsorbed on the top Fe3O4(001) surface, tables with additional structural information, electron density profile of bulk water on the Fe3O4 (001) surface (against liquid) and comparative linear number density profiles of all the systems under investigation.
Strategies based on the active targeting of tumor cells are emerging as smart and efficient nanomedical procedures. Folic acid (FA) is a vitamin and a well-established tumor targeting agent because...
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