NAS21, NAS91 and its derivatives belong to class FabZ inhibitors have been focused to develop better anti-malarial drugs. Library of 17 analogues was designed from NAS21, NAS91 scaffold structure, and NAS75, NAS79 was considered for computational study. Their molecular interactions, binding affinities with FabZ was studied using receptor-centric approaches: glide docking, molecular mechanics us...

We calculate the rate constant for the reaction •H + CH3OH f H2 + CH2OH both in the gas phase and in aqueous solution at 298 K. To accomplish this, we apply two different methods to estimate the electronic energies along the reaction path. First, we use specific reaction parameters (SRP) to mix the exchange and correlation energies in Becke’s adiabatic connection theory (AC-SRP) to optimize the...

Solvation effects play a profound role in the energetics of protein folding. While a continuum dielectric model of solvation may provide a sufficiently accurate estimate of the solvation effects, until now this model was too computationally expensive and unstable for folding simulations. Here we proposed a fast yet accurate and robust implementation of the boundary element solution of the Poiss...

Log Kow values for 14 heterocyclic nitrogen compounds (by traditional shake-flask method) were reported. Reverse phase–high-performance liquid chromatography (RP-HPLC) method and three estimation models—linear solvation energy relationship, molecular connectivity indices (MCIs), and quantum chemical descriptors—were used to study the partition mechanism and to establish the correlations of the ...

Membrane channel proteins control the diffusion of ions across biological membranes. They are closely related to the processes of various organizational mechanisms, such as: cardiac impulse, muscle contraction and hormone secretion. Introducing a membrane region into implicit solvation models extends the ability of the Poisson-Boltzmann (PB) equation to handle membrane proteins. The use of late...

Only ten years after the increased addition of methyl-tert-butylether (MTBE) to U.S. gasolines, nationwide MTBE contamination of thousands of drinking water supply wells has been widely documented, reflecting enormous environmental and economic costs. Due to its abundance in gasoline, high aqueous solubility, and slow degradation rate in aquifers, MTBE has migrated in significant quantities fro...

This article explores the impact of surface area, volume, curvature, and Lennard-Jones (LJ) potential on solvation free energy predictions. Rigidity surfaces are utilized to generate robust analytical expressions for maximum, minimum, mean, and Gaussian curvatures of solvent-solute interfaces, and define a generalized Poisson-Boltzmann (GPB) equation with a smooth dielectric profile. Extensive ...

We develop a self-consistent field theory for salt-doped diblock copolymers, such as polyethylene oxide (PEO)–polystyrene with added lithium salts. We account for the inhomogeneous distribution of Li ions bound to the ion-dissolving block, the preferential solvation energy of anions in the different block domains, the translational entropy of anions, the ion-pair equilibrium between polymer-bou...