Self-consistent fields molecular system simulations

In this review, we have presented a molecular picture of the lipid bilayer system in relation to its permeation properties, as it appears from simulations and from self-consistent field calculations. Of course, it was not possible to go into all the details. In fact, the practicalities are always much more complicated, and the fine details are only of interest to the experts. 

Continued Quantum and Molecular Mechanical Simulations, In this technique, a molecular dynamics simulation includes the treatment of some part of the system wilh a quantum mechanical technique. This approach. yMf.MM. is similar to programs that Use quantum mechanical methods to treat the n-systems of the structures in question separately from the sigma framework. The results are combined ai ihe end to render a slructure which is optimized and energy-refined in satisfy both self-consistent field (SCF) and force field energy convergence. 

Semiempirical techniques are the next level of approximation for computational simulation of molecules. Compared to molecular mechanics, this approach is slow. The formulations of the self-consistent field equations for the molecular orbitals are not rigorous, particularly the various approaches for neglect of integrals for calculation of the elements of the Fock matrix. The emphasis has been on versatility. For the larger molecular systems involved in solvation, the semiempirical implementation of molecular orbital techniques has been used with great success [56,57]. Recent reviews of the semiempirical methods are given by Stewart [58] and by Rivail [59],... 

The molecular thermodynamic theory for micelle formation has heen worked out with increasing sophistication following the pioneering work of Israelachvili, Mitchell, and Ninham.26 The most comprehensive reports on micelle formation are those of Nagarajan and Ruckenstein and of Shiloah and Blankschtein. Many other theoretical approaches have been used in recent years to account for the formation of micelles and their properties thermod3mamics of small systems, the self-consistent field lattice model, the scaled particle theory, and Monte-Carlo and molecular dynamics MD simulations. MC and DC simulations are presently much in favor due to the increased availability of fast computers. A prediction common to all these theories is that micelles represent a thermodynamically stable state and that micellar solutions are single-phase systems. Several recent results of MD and (MC) simulations are in agreement with experimental results. ... 

Solvation behavior can be effectively predicted using electronic structure methods coupled with solvation methods, for example, the combination of continuum solvation methods such as COSMO with DFT as implemented in DMoF of Accelrys Materials Studio. An attractive alternative is statistical-mechanical 3D-RISM-KH molecular theory of solvation that predicts, from the first principles, the solvation structure and thermodynamics of solvated macromolecules with full molecular detail at the level of molecular simulation. In particular, this is illustrated here on the adsorption of bitumen fragments on zeolite nanoparticles. Furthermore, we have shown that the self-consistent field combinations of the KS-DFT and the OFE method with 3D-RISM-KH can predict electronic and solvation structure, and properties of various macromolecules in solution in a wide range of solvent composition and thermodynamic conditions. This includes the electronic structure, geometry optimization, reaction modeling with transition states, spectroscopic properties, adsorption strength and arrangement, supramolecular self-assembly,"and other effects for macromolecular systems in pure solvents, solvent mixtures, electrolyte solutions, " ionic liquids, and simple and complex solvents confined in nanoporous materials. Currently, the self-consistent field KS-DFT/3D-RISM-KH multiscale method is available only in the ADF software. 

The study of solvatochromic shifts is of great importance and has received enormous theoretical attention in recent years. Progress has been achieved in the use of the self-consistent reaction field and cavity models. These advances have also shown several limitations. It is thus of great interest to have alternative procedures to calculate solvent effects. In this respect the use of Monte Carlo/Molecular Dynamics simulations has been growing. In this paper we suggest a procedure to allow a full quantum mechanical calculation of the solute-solvent system. The basic idea is to treat the solute, the solvent and its interaction by quantum mechanics. First a Monte Carlo simulation is performed to characterize the liquid structure. These structures are then used in the quantum mechanical calculation. As a liquid has not one but a great number of structures equally possible within a... 

---