Derivation of original RESP atomic partial charges for MD simulations of the LDAO surfactant with AMBER: applications to a model of micelle and a fragment of the lipid kinase PI4KA

Virtual screening of novel mTOR inhibitors for the potential treatment of human colorectal cancer

The abnormal activation of the mTOR pathway is closely related to the occurrence and progression of cancer, especially colorectal cancer. In this study, a rational virtual screening strategy has been established and MT-5, a novel mTOR inhibitor with a quinoline scaffold, was obtained from the ChemDiv database. MT-5 showed potent kinase inhibitory activity (IC50: 8.90 μM) and antiproliferative effects against various cancer cell lines, especially HCT-116 cells (IC50: 4.61 μM), and this was 2.2-fold more potent than that of the cisplatin control (IC50: 9.99 μM). Western blot, cell migration, cycle arrest, and apoptosis assays were performed with HCT-116 cells to investigate the potential anticancer mechanism of MT-5. Metabolic stability results in vitro indicated that MT-5 exhibited good stability profiles in artificial gastrointestinal fluids, rat plasma, and liver microsomes. In addition, the key contribution of the residues around the binding pocket of MT-5 in binding to the mTOR protein was also investigated from a computational perspective.

Computational study reveals substituted benzimidazole derivatives' binding selectivity to PI3Kδ and PI3Kγ

Phosphatidylinositol 3-kinase (PI3K) is a key regulatory kinase in the PI3K/AKT/mTOR signaling pathway, which is involved in the regulation of cell proliferation, differentiation, apoptosis, and angiogenesis. Class IA PI3K isoforms γ and δ share a highly homologous ATP binding site and are distinguished by only a few residues around the binding site. Subtype-selective inhibitors have been proven to have great advantages in tumor treatment. Preliminary studies have obtained PI3K inhibitors bearing a benzimidazole structural motif with a certain selectivity for PI3Kδ and PI3Kγ subtypes. On this basis, we investigated the selective inhibitory mechanism of PI3Kδ and PI3Kγ using four developed inhibitors via molecular docking, molecular dynamics, binding free energy calculations, and residue energy decomposition. This study could provide references for the further development of PI3K-isoform-selective inhibitors.

Branched alkyldimethylamine oxide surfactants: An effective strategy for the design of high concentration/low viscosity surfactant formulations

HYPOTHESIS

The rational design of branched-tail surfactants is a suitable strategy to obtain low-viscosity surfactant-rich isotropic aqueous mixtures with negligible effects on biodegradability. This opens a way to the design of concentrated ("water-free") surfactant formulations, highly attractive for their ecological and economic benefits.

EXPERIMENTS

The aggregation behaviour of N,N-dimethyl-2-propylheptan-1-amine oxide (C₁₀DAO-branched) in aqueous mixtures is investigated across the entire composition range by polarized optical microscopy, small angle X-ray and neutron scattering, electron paramagnetic resonance, and pulse-gradient stimulated echo nuclear magnetic resonance. The humidity scanning quartz crystal microbalance with dissipation monitoring technique is validated as a tool for the fast screening of surfactants phase behaviour. Furthermore, the shear viscosities and viscoelastic moduli of the systems are determined by rheological measurements.

FINDINGS

With respect to the linear isomer, C₁₀DAO-branched presents a much lower tendency to form lyotropic liquid crystalline phases. Except for a narrow composition and temperature range in which a lamellar structure is observed, C₁₀DAO-branched aqueous mixtures are isotropic liquids whose microstructure changes, with increasing concentration, from micellar solutions to unstructured dispersions of hydrated surfactant molecules. Low-viscosity was found for all these mixtures, including the most concentrated ones. Thus, the introduction of a single short side-chain in the tail is demonstrated to be an effective approach to increase the active concentration in surfactant formulations.

Influence of Bilayer Size and Number in Multi-Bilayer DOPC Simulations at Full and Low Hydration

Biophysical studies of model cell membranes at full and low hydration are usually carried out using scattering measurements on multi-bilayer systems. Molecular simulations of lipid bilayers aimed at reproducing those experimental conditions are usually conducted using single bilayers with different amounts of water. These simulation conditions may lead to artifacts arising from size effects and self-interactions because of periodic boundary conditions. We have tested the influence of the size and number of bilayers on membrane properties using the Lipid14 force field for lipids in molecular dynamics simulations of 1,2-dioleoyl- sn-glycero-3-phosphocholine bilayers at full hydration (44 water molecules per lipid), low hydration (18 water molecules per lipid), and dehydration (9 water molecules per lipid). A number of additional simulations were conducted with the Slipids force field for comparison. We have found that the average area per lipid (APL), thickness, mass density profiles, and acyl tail order parameters are insensitive to the size and the number of bilayers for all hydration states. The Lipid14 force field can also successfully reproduce the experimentally observed decrease in APL and corresponding increase in bilayer thickness upon dehydration, reflecting the increase in ordering as the system becomes more gel-like. Additionally, decreasing hydration levels were associated with a trend away from normal lateral diffusion and toward more subdiffusive regimes across both force fields. In summary, at least for the Lipid14 force field, the use of a single bilayer with 128 phospholipid molecules provides an adequate representation of multi-bilayer systems at varying levels of hydration.