Molecular Modeling macromolecular interactions

In this paper, we make use of molecular modelling techniques, particularly the AMI semiempirical molecular orbital method, to study the intermolecular interactions that are important for determining the manner in which crystal formation takes place. We are particularly inter ested in compounds that can potentially exhibit nonlinear optical properties. The calculational techniques are directed towards providing insight into the manner in which the desired nonlinear optical properties can be op timized in the macromolecular crystal state.(1)... 

One important class of integral equation theories is based on the reference interaction site model (RISM) proposed by Chandler [77]. These RISM theories have been used to smdy the confonnation of small peptides in liquid water [78-80]. However, the approach is not appropriate for large molecular solutes such as proteins and nucleic acids. Because RISM is based on a reduction to site-site, solute-solvent radially symmetrical distribution functions, there is a loss of infonnation about the tliree-dimensional spatial organization of the solvent density around a macromolecular solute of irregular shape. To circumvent this limitation, extensions of RISM-like theories for tliree-dimensional space (3d-RISM) have been proposed [81,82],... 

Modeling of Drug-Receptor Interactions. The identification of molecular interactions between drugs and their receptor or enzyme targets and the three-dimensional spatial requirements of the macromolecular binding pocket are important for the rational design of new, more selective. 

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