Methyl reaction simulation studies

Although the overall yield was modest, an interesting point was elucidated concerning this type of reaction. The polyene 95, although deviating substantially from the pattern of squalene-like disposition of methyl substituents previously studied and in no way simulating a natural intermediate, still cyclizes in significant amounts to a tetracyclic system. 

Levy (Chapter 6) has also explored the use of supercomputers to study detailed properties of biological macromolecule that are only Indirectly accessible to experiment, with particular emphasis on solvent effects and on the Interplay between computer simulations and experimental techniques such as NMR, X-ray structures, and vltratlonal spectra. The chapter by Jorgensen (Chapter 12) summarizes recent work on the kinetics of simple reactions In solutions. This kind of calculation provides examples of how simulations can address questions that are hard to address experimentally. For example Jorgensen s simulations predicted the existence of an Intermediate for the reaction of chloride Ion with methyl chloride In DMF which had not been anticipated experimentally, and they Indicate that the weaker solvation of the transition state as compared to reactants for this reaction In aqueous solution Is not due to a decrease In the number of hydrogen bonds, but rather due to a weakening of the hydrogen bonds. 

Ab initio molecular orbital calculations are being used to study the reactions of anionic nucleophiles with carbonyl compounds in the gas phase. A rich variety of energy surfaces is found as shown here for reactions of hydroxide ion with methyl formate and formaldehyde, chloride ion with formyl and acetyl chloride, and fluoride ion with formyl fluoride. Extension of these investigations to determine the influence of solvation on the energy profiles is also underway the statistical mechanics approach is outlined and illustrated by results from Monte Carlo simulations for the addition of hydroxide ion to formaldehyde in water. 

To elucidate the mechanism of homogeneous hydrogenation catalyzed by Fe(CO)s, kinetic studies were carried out with mixtures of unsaturated fatty esters containing a radioactive label. A C-labeled methyl octadecadienoate-Fe(CO)3 complex was prepared to serve as a catalytic intermediate. Hydrogenation of methyl oleate (m-9-octa-decenoate) and palmitoleate (cis-9-hexadecenoate) and of their mixtures with methyl linoleate was also studied to determine the selectivity of this system, the function of the diene-Fe(CO)3 complex, and the mechanism of homogeneous isomerization. Mixtures of reaction intermediates with a label helped achieve unique simulation of the kinetic data with an analog computer. 

Two example studies used Car-Parrinello methods to study gas-phase reactions directly. These fall under category ii described above. Yamataka et al. (1999) simulated the reaction of the formaldehyde radical anion and methyl chloride. Frank et al. (1998) simulated the reaction of OH radicals with ketones. 

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