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Biomedical subjects

Kagan Tuncay

Publications and source records attributed to Kagan Tuncay.

2 recordsLinked to original sources

Classical density functional theory of orientational order at interfaces: application to water.

A classical density functional formalism has been developed to predict the position-orientation number density of structured fluids. It is applied to the liquid-vapor interface of pure water, where it consists of a classical term, a gradient correction, and an anisotropic term that yields order through density gradients. The model is calibrated to predict that water molecules have their dipole moments almost parallel to a planar interface, while the molecular plane is parallel to it on the liquid side and perpendicular to it on the vapor side. For a planar interface, the surface tension obtained is twice its experimental value, while the surface potential is in qualitative agreement with that calculated by others. The model is also used to predict the orientation of water molecules near the surface of droplets, as well as the dependence of equilibrium vapor pressure around them on their size.

Journal Article↗

Efficient solution technique for solving the Poisson-Boltzmann equation.

The Poisson-Boltzmann (PB) equation has been extensively used to analyze the energetics and structure of proteins and other significant biomolecules immersed in electrolyte media. A new highly efficient approach for solving PB-type equations that allows for the modeling of many-atoms structures such as encountered in cell biology, virology, and nanotechnology is presented. We accomplish these efficiencies by reformulating the elliptic PB equation as the long-time solution of an advection-diffusion equation. An efficient modified, memory optimized, alternating direction implicit scheme is used to integrate the reformulated PB equation. Our approach is demonstrated on protein composites (a polio virus capsid protomer and a pentamer). The approach has great potential for the analysis of supramillion atoms immersed in a host electrolyte.

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