Computationally efficient canonical molecular dynamics simulations by using a multiple time‐step integrator algorithm combined with the particle mesh Ewald method and with the fast multipole method

An efficient implementation of the canonical molecular dynamics simulation using the reversible reference system propagator algorithm (r‐RESPA) combined with the particle mesh Ewald method (PMEM) and with the macroscopic expansion of the fast multipole method (MEFMM) was examined. The performance of the calculations was evaluated for systems with 3000, 9999, 30,000, 60,000, and 99,840 particles. For a given accuracy, the optimal conditions for minimizing the CPU time for the implementation of the Ewald method, the PMEM, and the MEFMM were first analyzed. Using the optimal conditions, we evaluated the performance and the reliability of the integrated methods. For all the systems examined, the r‐RESPA with the PMEM was about twice as fast as the r‐RESPA with the MEFMM. The difference arose from the difference in the numerical complexities of the fast Fourier transform in the PMEM and from the transformation of the multipole moments into the coefficients of the local field expansion in the MEFMM. Compared with conventional methods, such as the velocity‐verlet algorithm with the Ewald method, significant speedups were obtained by the integrated methods; the speedup of the calculation was a function of system size, and was a factor of 100 for a system with 3000 particles and increased to a factor of 700 for a system with 99,840 particles. These integrated calculations are, therefore, promising for realizing large‐scale molecular dynamics simulations for complex systems. © 2000 John Wiley & Sons, Inc. J Comput Chem 21: 201–217, 2000     

Ring size selective synthesis of meso-aryl expanded porphyrins

meso-Aryl expanded porphyrins were prepared in a ring size selective manner from methanesulfonic acid-catalyzed reaction of dipyrromethane and tripyrromethane with aryl aldehydes.     

Coupling selectivity in the radical‐controlled oxidative polymerization of 4‐phenoxyphenol catalyzed by (1,4,7‐triisopropyl‐1,4,7‐triazacyclononane)copper(II) complex

Various effects on the coupling selectivity of the oxidative polymerization of 4‐phenoxyphenol catalyzed by (1,4,7‐triisopropyl‐1,4,7‐triazacyclononane)copper(II) halogeno complex [Cu(tacn)X₂] are described. With respect to the amount of the catalyst and the nature of the halide ion (X) of Cu(tacn)X₂, the coupling selectivity hardly changed. The Cu(tacn) catalyst possessed a turnover number greater than 1860. As the temperature of the reaction and the polarity of the reaction solvent were elevated, the C O coupling at the o‐position increased, but the C C coupling was not involved. For the polymerization in toluene at 80 °C, poly(1,4‐phenylene oxide), obtained as a methanol‐insoluble part, showed the highest number‐average molecular weight of 4000 with a melting point (T_m) of 195 °C. Only a slight change in the coupling selectivity was observed in the presence or absence of hindered amines as the base. Surprisingly, however, the C O selectivity decreased from 100 to 24% with less hindered amines, indicating that the selectivity drastically changed from a preference for C O coupling to a preference for C C coupling. © 2000 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 38: 4792–4804, 2000     

Highly efficient total synthesis of the marine natural products (+)-avarone, (+)-avarol, (-)-neoavarone, (-)-neoavarol and (+)-aureol

Biologically important and structurally unique marine natural products avarone (1), avarol (2), neoavarone (3), neoavarol (4) and aureol (5), were efficiently synthesized in a unified manner starting from (+)-5-methyl-Wieland-Miescher ketone 10. The synthesis involved the following crucial steps: i) Sequential BF(3)Et(2)O-induced rearrangement/cyclization reaction of 2 and 4 to produce 5 with complete stereoselectivity in high yield (2 --> 5 and 4 --> 5); ii) strategic salcomine oxidation of the phenolic compounds 6 and 8 to derive the corresponding quinones 1 and 3 (6 --> 1 and 8 --> 3); and iii) Birch reductive alkylation of 10 with bromide 11 to construct the requisite carbon framework 12 (10 + 11 --> 12). An in vitro cytotoxicity assay of compounds 1-5 against human histiocytic lymphoma cells U937 determined the order of cytotoxic potency (3 > 1 > 5 > 2 > 4) and some novel aspects of structure-activity relationships.     

Improved description of the orbital relaxation effect by practical use of the self‐energy

The self‐energy shift in the orbital relaxation (OR) term of the polarization propagator complete through the second‐order is presented. In combination with the optimal damping parameter in the OR term, the modified propagator produces the excitation energy of the coupled‐cluster with singles and doubles (CCSD) accuracy. The self‐energy shift requires the floating‐point operation of , where N refers to the magnitude of the molecular size. Because the second‐order polarization propagator requires the floating‐point operation of , the additional computational effort to construct the self‐energy is negligibly small. Numerical results are shown for several molecules including glycine, 2,3,5,6‐tetrafluorobenzene, and naphthalene, and promising agreements with those of CCSD are confirmed within less than 0.2 eV. The basis set dependence is also tested for the water molecule using aug‐cc‐pV NZ (N = D–7), where this newly developed approach mimics the behavior of the CCSD values. The self‐energy shifting for the second‐order response matrix in combination with the use of a dumping parameter is efficiently implemented for calculations of medium‐sized molecular systems, including glycine and naphthalene. The developed approach provides CCSD‐like accuracy at a more affordable computational expense. © 2014 Wiley Periodicals, Inc.     

Direct synthesis of 1,3-diketones by Rh-catalyzed reductive alpha-acylation of enones

1,3-Diketones were synthesized from alpha,beta-unsaturated ketones by treatment with acid chlorides and Et(2)Zn in the presence of RhCl(PPh(3))3. This is a very simple and extremely chemoselective reaction to give the adduct at the alpha-position of alpha,beta-unsaturated ketones.     

Invisible photochromism of diarylethene derivatives

Diarylethene derivatives with oxidized thiophene rings shift their absorption band to a shorter wavelength in the UV region upon photocyclization; no color change was observed during the photochromic reaction, and the invisible photochromism is advantageous for devices used under room light.