Solvating,manipulating, damaging,and repairing DNA in a computer

This work highlights four different topics in modeling of DNA: (i) the importance of water and ions together with the structure and function of DNA; the hydration structure around the ions appears to be the determining factor in the ion coordination to DNA, as demonstrated in the results of our MD simulations; (ii) how MD simulations can be used to simulate single molecule manipulation experiments as a complement to reveal the structural dynamics of the studied biomolecules; (iii) how damaged DNA can be studied in computer simulations; and (iv) how repair of damaged DNA can be studied theoretically. © 2006 Wiley Periodicals, Inc. Int J Quantum Chem, 2007     

Transition state geometry in radical abstraction reactions: comparison of interatomic distances in the intersecting parabolas and Morse curves models with quantum-chemical calculations

Interatomic distances in the transition state were estimated for the reactions of radical abstraction: H^· + H₂, H^· + HCl, H^· + CH₄, N^·H₂ + NH₃, HO^· + H₂O, HO₂ ^· + HOOH, and C^·H₃ + SiH₄. The calculation was performed by the quantum-chemical density functional method or coupled clusters method (QCH), as well as by the methods of intersecting parabolas (IPM) and Morse curves (IMM), using experimental data (activation energies and reaction enthalpies). The results of the latter two methods are close to the quantum-chemical calculation and differ only by the increment a: r(IPM or IMM) = a + r(QCH), where a = –4.5·10^–12 m for IPM and a = +1.9·10^–12 m for IMM.     

聚酰胺酸及其接枝衍生物的三阶非线性光学性能研究

设计合成了苯代三聚氰胺与均苯四酸二酐缩聚物, 及不同侧链的p-π共轭缩聚物, 并以量子化学PM3/CIS方法为基础, 利用完全态求和(SOS)公式, 对不同侧链取代的聚酰胺酸的分子进行了几何构型优化, 并计算了其三阶非线性光学系数γ. 研究了不同侧链对聚合物三阶非线性性能的影响. 这些结果对合成具有优良加工性能的三阶非线性光学材料是有一定的指导作用.     

Formation and Physicochemical Features of Hybrid Threadlike Micelles in Aqueous Solution

We investigate the construction of long, stable hybrid threadlike micelles consisting of polyelectrolytes and oppositely charged surfactants in aqueous solution and examine the physicochemical features such as their structure and viscoelastic behavior in aqueous solution. The most important point for their construction is the careful control of interactions, especially electrostatic interactions, caused between the surfactants and polyelectrolytes. Incorporated polyelectrolytes are fully extended in these hybrid threadlike micelles irrespective of the molecular weight of the polymer. The viscoelastic behavior of the hybrid threadlike micellar solution is similar to that of ordinary threadlike micellar systems consisting of low‐molecular‐weight substances. However, the inclusion of polymers in the micelles causes differences in their mechanical properties.     

Properties of cerium-zirconium mixed oxides partially substituted by neodymium: Comparison with Zr-Ce-Pr-O ternary oxides

CeO₂ doped with praseodymium, neodymium and/or zirconium atoms were prepared by coprecipitation and by the sol-gel method. Structural properties were investigated by in situ XRD and Raman spectroscopy while oxygen storage capacity (OSC) was measured by transient CO oxidation. All the compounds, except pure Nd₂O₃, have a fluorite-type structure as well as a Raman band at 560 cm⁻¹ characteristic of the oxygen vacancies involving non-stoichiometric oxides. The lattice parameter under hydrogen, being dependent on the temperature, revealed two reduction mechanisms: one at a low temperature at the surface and another at a high temperature in the bulk. Ce-Nd binary oxides show a strong tendency towards crystallite aggregation, which reduces accessibility to gases and OSC properties. Zirconium improves the thermal resistance to sintering of both Ce-Nd and Ce-Pr oxides. The Zr-Ce-Pr-O followed by Zr-Ce-Nd-O compounds displaying high oxygen mobility at a low temperature, appear to be very promising for practical applications such as OSC materials.     

Aerobic oxidation assisted by ligand-free palladium catalysts

Aerobic oxidation of electron-rich benzylic and phenyl allylic alcohols was achieved with high yields with only 0.1 mol.% of Pd(OAc)2 catalyst in the absence of any ligand. This procedure was expected to be valuable for realistic industrial-scale applications from both economic as well as environmental points of view.     

Theoretical study of PO and PO−

The diatomic systems, PO and PO^– are studied, using numerical Hartree-Fock (NHF) and coupled-cluster calculations. The latter employs a hybrid NHF and Slater orbital basis set. Highly accurate CCSD methods predict bond lengths accurate to <0.004 Å and frequencies to 60 cm^–1. In addition the electron affinity of PO is computed to be 0.89 eV compared to an experimental value of 1.09±0.01. Comparisons are made with SCF and MBPT(2) results for PO⁺ using conventional basis sets.Dedicated to Professor J. Koutecký on the occasion of his 65th birthdayGuggenheim Fellow     

Photochemistry of molecules relevant to the atmosphere: photodissociation of nitric acid in the gas phase.

This Minireview gives an account of the photochemical decay of nitric acid HNO3 in the gas phase, which has been well investigated under bulk and molecular-beam conditions. Due to the importance of this molecule in atmospheric chemistry, attention was paid to the irradiation regions around 300 and 200 nm, where solar photolysis of HNO3 is expected to be particularly efficient. While the low-energy region is characterized by the products OH and NO2, the high-energy region gives rise to a variety of photochemical decay pathways, dominated by channels which lead to the products HONO + O in different electronic states.