Torsional Monte Carlo method

The most commonly used stochastic methods are the torsional Monte Carlo method11101 and the cartesian stochastic (or random kick) method11111. The two methods differ in the coordinate system in which they operate. The torsional Monte Carlo method uses internal coordinates, while the random kick method uses cartesian coordinates. The advantage of using internal coordinates is that the molecular degrees of freedom are reduced. The reason for choosing torsional angles as the vari-... 

Miller, T. F., Ill Clary, D. C., Torsional path integral Monte Carlo method for calculating the absolute quantum free energy of large molecules, J. Chem. Phys. 2003,119, 68-76... 

Conformational isomers represent minima on an energy surface, and all structures and the corresponding strain energies can be obtained by a careful analysis. This can be performed manually (such as in Sections 17.3 and 17.4) or automatically. An automatic procedure may involve a systematic search (grid search methods), a stochastic search (e.g., torsional Monte Carlo or cartesian stochastic, i.e., the random kick method) or molecular dynamics (see Chapter 5 and Section 16.5). Implemented in MOMEC is a random kick stochastic search module, and this has been shown to lead to excellent results, not only for conformational equilibria, but also for distributions of configurational isomers[37]. 

Several remedies have been suggested for improving the PB based pKa prediction methods. Most of them are based on strategies that combine conformational flexibility with the PB calculation. You and Bashford included multiple conformers by systematically scanning the side chain torsion angles [107], Alexov and Gunner used Monte-Carlo protocol to sample positions of hydroxyl and other polar protons [1], This method, referred to as the multi-conformation continuum electrostatic (MCCE), was later extended to include rotamers for residues that have strong electrostatic... 

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