Multiple binding modes of the camptothecin family to DNA oligomers

The binding constants of camptothecin, topotecan and its lactone ring-opened carboxylate derivative to DNA octamers were measured by UV and NMR spectroscopy. The self-association of topotecan (TPT) was also measured. The carboxylate form of TPT binds in the same way as the lactone, but more weakly. Titration of TPT into d(GCGATCGC)2 shows a preferred location stacked onto the terminal G1 base. However, the intermolecular NOEs cannot be reconciled with a single conformation of the complex, and suggest a model of a limited number of conformations in fast exchange. MD calculations on four pairs of starting structures with TPT stacked onto the G1-C8 base pair in different orientations were therefore performed. The use of selected experimental "docking" restraints yielded ten MD trajectories covering a wide conformational space. From a combination of calculated free energies, NOEs and chemical shifts, some of the structures produced could be eliminated, and it is concluded that the data are consistent with two major families of conformations in fast exchange. One of these is the conformation found in a crystal of a TPT/DNA/topoisomerase I ternary complex [Proc. Natl. Acad. Sci. USA 2002, 99, 15 387-15 392].     

Theoretical study on the structure and property relationship of the cationic conjugated polyelectrolytes

A theoretical study using density functional theory was performed to understand the structure/property relationship of the cationic conjugated polyelectrolytes, poly[9,9-bis-(6′-N,N,N-trimethylammonium) hexyl] fluorene-alt-4,7-(2,1,3-benzothiadiazole)] (PFBT-X, where X = Br). The torsion angle between the fluorene and benzothiadiazole units in the PFBT monomer was found to substantially affect the structural and electronic properties of the cationic PFBT monomer. The changes of geometrical parameter, HOMO and LUMO energy levels, and band gap, as well as the absorption maximum are discussed in terms of the torsion in the PFBT monomer structure. For comparison, its neutral analogue, the monomer of poly(9,9-di-n-octylfluorene-alt-benzothiadiazole) (F8BT) was also studied. The length of conjugation backbone was also examined.     

Komplexbildende Eigenschaften des 3,5-Dimethylpyrazols

Zusammenfassung 3,5-Dimethylpyrazol bildet in Anwesenheit von Rhodanid mit Kupfer(II) einen gefärbten Komplex, der in Chloroform leicht löslich ist. Diese Reaktion wurde zur photometrischen Bestimmung von 10 bis 100g Cu/5 ml verwendet.

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Summary A colored complex, that is readily soluble in chloroform, is formed by copper(II) with 3,5-dimethylpyrazole in the presence of thiocyanate. This reaction was employed for the photometric determination of 10 to 100g Cu/5 ml.

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Résumé Le diméthyl-3,5 pyrazol forme avec le cuivre-II en présence de thiocyanate, un complexe coloré, facilement soluble dans le chloroforme. On a utilisé cette réaction pour le dosage photométrique de 10 à 100g Cu/5 ml.

     

Fluorescence lifetimes and spectral properties of protochlorophyllide in organic solvents in relation to the respective parameters in vivo

In this work, absorption and fluorescence spectra of protochlorophyllide (Pchlide), as well as its fluorescence lifetime, were investigated in organic solvents having different physical properties. The obtained Pchlide spectral features are discussed in relation to the parameters describing solvent properties (refractive index and dielectric constant) and taking into account the specific solvent-Pchlide interaction. The correlation of Pchlide Qy and Soret absorption bands with solvent polarizability function ((n2 - 1)/(n2 + 2)) has been found; however, the dispersion of the observed points was rather high. A small Stokes shift of a magnitude between 50 and 300 cm(-1) was found, which indicates low sensitivity of Pchlide to nonspecific solvation. The fluorescence decay of Pchlide was single exponential in all the investigated solvents, with the lifetime value ranging from 5.2 ns for dioxane to 3.5 ns for methanol. Dependence of the obtained fluorescence lifetimes on the solvent orientation polarizability, a parameter being the function of both refractive index and dielectric constant, was discussed. In water-methanol mixtures, a further decrease of the fluorescence lifetime was observed, giving values of 2.9 ns for 25% methanol. Double-exponential decay of Pchlide fluorescence was found for Pchlide in a solution of 15% methanol with the lifetimes of 4.5 +/- 0.5 ns and 1.2 +/- 0.3 ns and in pure water with the lifetimes of 2.5 +/- 0.5 ns and 0.4 +/- 0.1 ns. The obtained results are discussed in relation to spectroscopic properties of Pchlide in vivo.     

An analysis of mean life and lifetime of unstable elementary particles

A theoretical analysis of the concept of lifetime and mean life of unstable elementary particles is presented. New analytic formulas for lifetime and mean life as a function of decay width and the mass of unstable particle are derived for Breit-Wigner and Matthews-Salam energy distributions. It is demonstrated that, for unstable particles with a larger width or decay energy threshold, the deviation from the generally accepted mean life ^m = ^–1 is significant. The behavior of the decay law P(t) for small times is analyzed, and it is shown that the Breit-Wigner distribution violates the condition P(t = 0) = 0, whereas the Matthews-Salam distribution satisfies it.     

Semidirect algorithms for third-order electron propagator calculations

An efficient procedure for third-order electron propagator calculations of ionization energies and electron affinities is reported. Diagonal self-energy expressions that are suitable for large molecules are empolyed. The outer-valence Green's function method also is implemented. An integral transformation program for direct and semidirect algorithms is modified to store only nonzero integrals according to Abelian point group symmetry. Contributions to self-energy matrix elements that depend on electron repulsion integrals with four virtual orbital indices are computed in a direct way. Intermediate batches of integrals are created by sort procedures while avoiding storage of transformed integrals in the main memory. This method permits calculation of electron binding energies for C with a 231 atomic orbital basis and for Zn(C₅H₅)₂ with a 220 atomic orbital basis on an IBM RISC/6000 Model 550. During these calculations, the CPU is engaged approximately 90% of the time. © 1995 John Wiley & Sons, Inc.     

Two-point Padé approximants for formal Stieltjes series

We prove that certain two-point Padé approximants occupying the diagonal of the Padé table form monotone sequences of lower and upper bounds uniformly converging to a Stieltjes function. The results can be applied to the theory of inhomogeneous media for the calculation of the bounds on the effective transport coefficients of heterogeneous materials.     

Duality transformations in electrodynamics

Electrodynamics admitting a duality transformation group is considered. For such an electrodynamics an extension of the classical Rainich-Misner-Wheeler theory is presented.On leave of absence from the University of Warsaw, Warsaw, Poland.     

Steady states in the twin-well potential oscillator: Computer simulations and approximate analytical studies

The paper is focused on the phenomena of various steady-state oscillations exhibited by the twin-well potential system. Regions of existence of different attractors in the system parameter domain are examined and a picture book of different steady states for fixed damping and forcing is presented: 20 different combinations of single or coexisting, small orbit or large orbit, periodic and chaotic attractors are displayed. Computer simulations are followed by an approximate analytical analysis: A study of various forms of instability of periodic solutions gives close form approximate criteria for occurrence of T-periodic small orbit and large orbit oscillations, and for cross-well chaos.