Models of pesticides inside cavities of molecular dimensions. A role of the guest inclusion in the dechlorination process

The reduction mechanism of the pesticide vinclozoline (3-(3,5-dichlorophenyl)-5-methyl-5-vinyl-1,3-oxazolidine-2,4-dione) was studied in nonaqueous solvents in the confined environment of a cyclodextrin (CD) cavity. The effect of the cavity dimensions on the mechanism of the redox process was evaluated using glucose as a reference and using three cyclodextrin molecules of different cavity sizes, namely, alphaCD, betaCD, and gammaCD. In the absence of CD the main reduction product of vinclozoline in the first reduction step is dichloroaniline. An addition of glucose leads to a quantitative change of mechanism with 10 products in total. Addition of CD, however, leads exclusively to dechlorination of the phenyl ring. The degree of dechlorination depends strongly on the choice of cyclodextrin molecule. The importance of the complex formation equilibria in the change of the mechanism is supported by a series of semiempirical AM1 quantum-mechanical calculations. Very good correlation (correlation coefficient 0.995) was obtained between the complex stabilization energy of the inclusion complex and the degree of pesticide dechlorination. Additionally, we were able to show that the complexes are stabilized by the formation of intermolecular hydrogen bonds between the host and guest species. CD molecules do not simply act as proton donors in a nonaqueous environment, but also protect parts of the molecule included within the cavity and steer the degradation process toward fewer products.     

Performance of a general-purpose electrochemical instrument aided by a stand-alone microcomputer system in trace analysis

The features of a microprocessor-based data acquisition and control unit, dedicated to electrochemical experiments, are described. The menu-selectable software allows smoothing, baseline drawing and subtraction as well as differentiation, even with signal amplitudes of some tenths of nA at signal/noise ratios lower than one, without forcing the data to follow theoretical models. Concentrations of cadmium ion as low as 2 × 10^?7, 5 × 10^?8 and 5 × 10^?9 M can be measured, within 10% accuracy and precision, by using sampled d.c. polarography, staircase voltammetry and fast-sweep differential pulse voltammetry, respectively; this is a consistent improvement on literature data. Depending on the electrochemical technique used, the most significant signal parameters, including derivatives, are measured automatically, listed and used in the decision-making process for chemical characterization.     

The dependence of the variances of the parameters in non-linear regression analysis on the number of data points

In designing an experimentin which non-linear regression analysis is used to evaluate the physicochemical parameters that chracterize the behavior of the system being studied, it would be useful to be able to predict how the number of data points affects th reliabilities of the values obtained. The relation between these depends on hos the points are distributed as well as on the nature of the equation to which thd data are fitted. Weighted non-linear regression analysis has been applied to six common equations involving a total of fourteen parameters, using a number of n of points that was varied from 4 to     

Investigation of the Homologous Series of 4-Acetyl-4′-n-Alkanoyloxyazobenzenes by X-ray Diffraction

This paper reports an investigation by X-ray diffraction of the homologous series of liquid crystalline 4-acetyl-4′-n-alkanoyloxyazobenzenes. By using two independent parameters, namely the temperature and the paraffinic chain length, it was possible to obtain some structural information on two solid phases for comparison with a previously reported model for the S_A phase of the same series. In particular, the molecular layer thickness and, by using previously reported dilatometric data, the aromatic sublayer thickness, the methylene group thickness, the molecular area and the aromatic stem inclination angle were obtained for the different phases.     

Existence of maximizers for Sobolev–Strichartz inequalities

We prove the existence of maximizers of Sobolev–Strichartz estimates for a general class of propagators, involving relevant examples, as for instance the wave, Dirac and the hyperbolic Schrödinger flows.     

Maximum entropy principle and coherent harmonic generation using a single-pass free-electron laser

Single-pass free-electron lasers constitute an example of systems with long-range interactions. The light-particle interplay leading to the power growth and successive relaxation towards a quasi-stationary state is governed by the Vlasov equation. A maximum entropy principle inspired to Lynden-Bell's theory of “violent relaxation" for the Vlasov equation can be invoked to analytically characterize the behaviour of the saturated system. In particular, we here concentrate on the case of coherent harmonic generation obtained from an externally seeded free-electron laser and provide a simple strategy to predict the laser intensity as well as the final electron-beam energy distribution.     

Binary data acquisition from instrumentation with BCD-coded output: a hardware converter and an example of the relative software control

Simple hardware for conversion from BCD into binary code is described. The device is of low cost, performs a 16-bit conversion in a maximum time of 400 nsec, and is able to output the converted number to either an 8-bit or a 16-bit data bus. An example of the software necessary to perform data acquisition from a digital voltmeter by using this converter is also presented.     

Probing fragment complementation by rigid-body docking: in silico reconstitution of calbindin D9k

Fragment complementation is gaining an increasing impact as a nonperturbing method to probe noncovalent interactions within protein supersecondary structures. In this study, the fast Fourier transform rigid-body docking algorithm ZDOCK has been employed for in silico reconstitution of the calcium binding protein calbindin D9k, from its two EF-hands subdomains, namely, EF1 (residues 1-43) and EF2 (residues 44-75). The EF1 fragment has been used both in its wild type and in nine mutant forms, in line with in vitro experiments. Consistent with in vitro data, ZDOCK reconstituted the proper fold of wild-type and mutated calbindin, locating the nativelike structures (i.e., holding a root-mean-square deviation < 1 A with respect to the X-ray structure) among the first 10 top-scored solutions out of 4000. Moreover, the three independent in silico reconstitutions of wild-type calbindin ranked a nativelike structure at the top of the output list, that is, the best scored one. The algorithm has been also successfully challenged in reconstituting the EF2 homodimer from two identical copies of the monomer. Furthermore, quantitative models consisting of linear correlations between thermodynamic data and ZDOCK scores were built, providing a tested tool for very fast in silico predictions of the free energy of association of protein-protein complexes solved at the atomic level and known to not undergo significant conformational changes upon binding.     

Controlled Hopf bifurcation of a storage-ring free-electron laser

Local bifurcation control is a topic of fundamental importance in the field of nonlinear dynamical systems. We discuss an original example within the context of storage-ring free-electron laser physics by presenting a new model that enables analytical insight into the system dynamics. The transition between the stable and the unstable regimes, depending on the temporal overlapping between the light stored in the optical cavity and the electrons circulating into the ring, is found to be a Hopf bifurcation. A feedback procedure is implemented and shown to provide an effective stabilization of the unstable steady state.     

Molecular dynamics simulations of the ligand-induced chemical information transfer in the 5-HT(1A) receptor

Comparative molecular dynamics simulations of the 5-HT(1A) receptor in its empty as well as agonist- (i.e. active) and antagonist-bound (i.e. nonactive) forms have been carried out. The agonists 5-HT and (R)-8-OH-DPAT as well as the antagonist WAY100635 have been employed. The results of this study strengthen the hypothesis that the receptor portions close to the E/DRY/W motif, with prominence to the cytosolic extensions of helices 3 and 6, are particularly susceptible to undergo structural modification in response to agonist binding. Despite the differences in the structural/dynamics behavior of the two agonists when docked into the 5-HT(1A) receptor, they both exert a destabilization of the intrahelical and interhelical interactions found in the empty and antagonist-bound receptor forms between the arginine of the E/DRY sequence and both D133(3.49) and E340(6.30). For both agonists, the chemical information transfer from the extracellular to the cytosolic domains is mediated by a cluster of aromatic amino acids in helix 6, following the ligand interaction with selected amino acids in the extracellular half of the receptor, such as D116(3.32), S199(5.42), Y195(5.38), and F361(6.51). A significant reduction in the bend at P360(6.50), as compared to the empty and the antagonist-bound receptor forms, is one of the features of the agonist-bound forms that is related to the breakage of the interhelical salt bridge between the E/DRY arginine and E340(6.30). Another structural feature, shared by the agonist-bound receptor forms and not by the empty and antagonist-bound forms, is the detachment of helices 2 and 4, as marked by the movement of W161(4.50) away from helix 2, toward the membrane space.