Variational reactive scattering calculations: computational optimization strategies

Summary We have developed efficient and accurate techniques for the calculation of quantum mechanical reaction probabilities of atom-diatom exchange reactions in the gas phase, and we have optimized a computer code employing these techniques and applied it sucessfully to several systems. In this paper we consider further strategies for improving the algorithm to allow even more demanding applications. In this context, improvement means that equivalent results can be obtained using fewer computational resources (computer time or storage) or that an equivalent expenditure of resources can yield higher accuracy. The new strategies discussed here lead to improvement in both of these areas. Two areas of special focus in the present paper are (i) the finite difference boundary value method used for calculating distorted wave Green's functions and regular solutions for scattering by the distortion potential and (ii) the choice of the distortion potential itself. Among other results included here is the first application of the outgoing wave or scattered wave variational principle to reactive scattering.     

A molecular-dynamics study of structural and physical properties of nitromethane nanoparticles

The structural and physical properties of nanoparticles of nitromethane are studied by using molecular dynamics methods with a previously developed force field. [Agrawal et al., J. Chem. Phys. 119, 9617 (2003).] This force field accurately predicts solid- and liquid-state properties as well as melting of bulk nitromethane. Molecular dynamics simulations of nanoparticles with 480, 240, 144, 96, 48, and 32 nitromethane molecules have been carried out at various temperatures. The carbon-carbon radial distribution function, dipole-dipole correlation function, core density, internal enthalpy, and atomic diffusion coefficients of the nanoparticles were calculated at each temperature. These properties were used to characterize the physical phases and thus determine the melting transitions of the nanoparticles. The melting temperatures predicted by the various properties are consistent with one another and show that the melting temperature increases with particle size, approaching the bulk limit for the largest particle. A size dependence of melting points has been observed in experimental and theoretical studies of atomic nanoparticles, and this is a further demonstration of the effect for large nanoparticles of complex molecular materials.     

Further correlations between fragment ion intensity and critical energy. Unimolecular covalent bond fragmentation

A correlation of fragment ion intensity with critical energy found in the collisional activation spectra of [C₄Ph]⁺˙ ions produced by electron impact can also be found in the unimolecular mass-analysed ion kinetic energy spectra of these ions. The P(E) functions of the unimolecular and collisionally activated ions should differ not only in width but also in structure and therefore, the hypothesis that P(E) functions do not have an important effect on these correlations is tested successfully.     

Electrolytically generated silver(II) as a coulometric titrant

The use of electrolytically generated silver(II) as a coulometric titrant has been studied. Difficulties arising from the current efficiency for generation of silver (II) at a platinum or gold electrode and from the reduction of silver(II) by water, have been overcome. The precautions necessary for accurate titrations of oxalic acid, cerium(III), arsenic(III) and vanadium(IV) by amperometric or potentiometric methods are detailed. Manganese and chromium could not be determined directly. Substances which reduce nitric acid could be determined if care was taken.     

Protonated (protosolvated) onium ions (onlum dications)

In this short review we have shown the importance of protosolvation of onium ions (containing non-bonded pairs of electrons) in superacid catalyzed reactions. Such activation can result in unusual reactions such as aromatic alkylation with Meerwein’s salts, aliphatic nitration with nitronium ion, alkylation of saturated hydrocarbons, greatly enhanced activity of acyl cations, etc. Possibly such phenomena may be operative in hydroxylation reactions using protonated hydrogen peroxide in strong acid solutions. Even the reactivity of halonium ions could be enhanced by protosolvation. Consequently, electrophilic protosolvation may play a significant role in strogg acid catalyzed reactions.     

The absolute stereochemistry of several cis-dihydrodiols microbially produced from substituted benzenes

The absolute stereochemistry of a series of 3-substituted cis-dihydrodiols obtained by microbial oxidation of toluene, ethylbenzene, chlorobenzene, and biphenyl has been assigned from chemical and spectrophotometric studies. ?-Halogenated toluenes also have been investigated as substrates in these oxidations, and the corresponding cis-dihydrodiols isolated. Implications from the observation that some of the cis-dihydrodiols are racemic are discussed. Oxidation of an olefin, (±)-3-methylcyclohexene, by these microorganisms leads only to cis-diols whose absolute stereochemistry about the hydroxyl-bearing carbons is the same as that found for the cis-dihydrodiols formed from the aromatic substrates.     

A prenylated xanthone with antimicrobial activity from the seeds of Symphonia globulifera

A prenylated xanthone has been isolated from the seeds of Symphonia globulifera together with the known compounds sitosterol and oleanolic acid. The structure of the new compound was elucidated by spectroscopic methods.     

Electron transfer dissociation of peptide anions

Ion/ion reactions of multiply deprotonated peptide anions with xenon radical cations result in electron abstraction to generate charge-reduced peptide anions containing a free-radical site. Peptide backbone cleavage then occurs by hydrogen radical abstraction from a backbone amide N to facilitate cleavage of the adjacent C-C bond, thereby producing a- and x-type product ions. Introduction of free-radical sites to multiply charged peptides allows access to new fragmentation pathways that are otherwise too costly (e. g., lowers activation energies). Further, ion/ion chemistry, namely electron transfer reactions, presents a rapid and efficient means of generating odd-electron multiply charged peptides; these reactions can be used for studying gas-phase chemistries and for peptide sequence analysis.     

Facile synthesis of 2-bromo-3-fluorobenzonitrile: an application and study of the halodeboronation of aryl boronic acids

A scaleable synthesis of 2-bromo-3-fluorobenzonitrile via the NaOMe-catalyzed bromodeboronation of 2-cyano-6-fluorophenylboronic acid was developed. The generality of this transformation was demonstrated through the halodeboronation of a series of aryl boronic acids. Both aryl bromides and aryl chlorides were formed in good to excellent yields when the corresponding aryl boronic acid was treated with 1,3-dihalo-5,5-dimethylhydantoin and 5 mol % NaOMe.