Heteroditopic receptor based on crown ether and cyclen units for the recognition of zwitterionic amino acids

The molecular recognition of five targeted amino acids differing in the nature of the side (R)- group and in the size of the aliphatic chain, glycine (Hgly), phenylalanine (Hphe), glutamic acid (Hglu^?), 4-aminobutyric acid (Hgaba), and 6-aminohexanoic acid (Heahx), has been studied with a new heteroditopic receptor based in two distinct macrocycles, a cyclen and a crown ether moiety. The bismacrocycle L was synthesized via the bis-aminal route allowing to obtain the designed compound in gram scale and in good yield. Protonation constants of L and its binding constants with amino acids were determined by potentiometry in H₂O/MeOH (1:1 v/v) solutions at 298.2 K and I=0.10 mol dm^?3 in NMe₄NO₃. Stronger binding ability of the H_nLⁿ⁺ receptor for α-amino acids, Hgly and Hphen, than for the other studied substrates were found. Structural data derived from NMR studies showed that the binding of α-amino acids result from the cooperative participation of hydrogen bonds between the carboxylate group of amino acids and the polyammonium sites of cyclen, and the ion-dipole interactions between the ammonium group of the amino acids and the oxygen atoms of the crown ether.     

Development of an ELISA procedure to study sorption of atrazine onto a sewage sludge-amended luvisol soil

Pesticides may contaminate ground and surface waters and one of the major factors governing this property is soil sorption. Sorption can be assessed by batch equilibrium technique which produces lots of extracts with high dissolved organic carbon concentration in which the pesticide concentration has to be determined. We developed an ELISA procedure to analyse atrazine based on polyclonal antibodies (C193) for which tracer structure and dilutions of immunochemical reagents were adapted to fit the purpose. After a 1000-fold dilution (or after an SPE clean-up procedure) extracts of a sewage-sludge amended luvisol (used as an example application of the methodology developed) could be reliably analysed. The Freundlich model is able to describe adsorption for this system (r² = 0.977) delivering a distribution coefficient K_F of 1.6 ± 0.2 (mg kg⁻¹) (mg L⁻¹)^−N and an isotherm nonlinearity factor N of 0.70 ± 0.09.     

Computational Investigation of the Effect of pH on the Color of Firefly Bioluminescence by DFT

In spite of recent advances towards understanding the mechanism of firefly bioluminescence, there is no consensus about which oxyluciferin (OxyLH₂) species are the red and yellow‐green emitters. The crystal structure of Luciola cruciata luciferase (LcLuc) revealed different conformations for the various steps of the bioluminescence reaction, with different degrees of polarity and rigidity of the active‐site microenvironment. In this study, these different conformations of luciferase (Luc) are simulated and their effects on the different chemical equilibria of OxyLH₂ are investigated as a function of pH by means of density functional theory with the PBE0 functional. In particular, the thermodynamic properties and the absorption spectra of each species, as well as their relative stabilities in the ground and excited states, were computed in the different conformations of Luc. From the calculations it is possible to derive the acid dissociation and tautomeric constants, and the corresponding distribution diagrams. It is observed that the anionic keto form of OxyLH₂ is both the red and the yellow‐green emitter. Consequently, the effect of Luc conformations on the structural and electronic properties of the Keto‐(?1) form are studied. Finally, insights into the Luc‐catalyzed light‐emitting reaction are derived from the calculations. The multicolor bioluminescence can be explained by interactions of the emitter with active‐site molecules, the effects of which on light emission are modulated by the internal dielectric constant of the different conformations. These interactions can suffer also from rearrangement due to entry of external solvent and changes in the protonation state of some amino acid residues and adenosine monophosphate (AMP).     

Generalized Linear Systems on Curves and Their Weierstrass Points

Let C be a projective Gorenstein curve over an algebraically closed field of characteristic 0. A generalized linear system on C is a pair (?, ε) consisting of a torsion-free, rank-1 sheaf ? on C, and a map of vector spaces ε: V → Γ(C, ?). If the system is nondegenerate on every irreducible component of C, we associate to it a 0-cycle W, its Weierstrass cycle. Then we show that for each one-parameter family of curves C _t degenerating to C, and each family of linear systems (? _t , ε _t ) along C _t , with ? _t invertible, degenerating to (?, ε), the corresponding Weierstrass divisors degenerate to a subscheme whose associated 0-cycle is W. We show that the limit subscheme contains always an “intrinsic” subscheme, canonically associated to (?, ε), but the limit itself depends on the family ? _t .     

Reduced Fluoresceinamine for Peroxynitrite Quantification in the Presence of Nitric Oxide

A new fluorescent analytical methodology for the quantification of peroxynitrite (ONOO(-)) in the presence of nitric oxide (NO) was developed. The quantification of ONOO(-) is based in the oxidation of the non-fluorescent reduced fluoresceinamine to a high fluorescent oxidized fluoresceinamine in reaction conditions where the interference of NO is minimized. Screening factorial experimental designs and optimization Box-Behnken experimental design methodologies were used in order to optimize the detection of ONOO(-) in the presence of NO. The factors analysed were: reduced fluoresceinamine concentration (C( Fl)); cobalt chloride concentration (C(CoCl2)); presence of oxygen (O(2)); and, the pH (pH). The concentration of sodium hydroxide (C(NaOH)) needed to diluted the initially solution of ONOO(-) was also evaluated. An optimum region for ONOO(-) quantification where the influence of NO is minimal was identified - C(Fl) from 0.50 to 1.56 mM, C(CoCl2) from 0 to 1.252?×?10(-2) M, pH from 6 to 8 and C(NaOH) 0.10 M. Better results were found in the presence of NO at pH 7.4, C(Fl) 0.5 mM, without oxygen, without cobalt chloride and with a previous dilution of peroxynitrite solution with C(NaOH) 0.1 M. This methodology shows a linear range from 0.25 to 40 μM with a limit of detection of 0.08 μM. The bioanalytical methodology was successfully applied in the ONOO(-) quantification of fortified serum and macrophage samples.     

Direct electrochemical reduction of a bromo-propargyloxy ester at vitreous carbon cathodes in dimethylformamide

Cyclic voltammograms for the reduction of ethyl 2-bromo-3-(3^′,4^′-dimethoxyphenyl)-3-(propargyloxy)propanoate (1) at glassy carbon electrodes in dimethylformamide containing tetraalkylammonium salts exhibit three prominent waves corresponding to cleavage of the carbon–bromine bond and to subsequent reduction of ethyl trans-3-(3^′,4^′-dimethoxyphenyl)-prop-2-enoate (4). Controlled-potential electrolyses of 1 at potentials corresponding to reduction of the carbon–bromine bond afford 4 as the major product with an average yield of 56%. In the presence of a proton donor (1,1,1,3,3,3-hexafluoro-2-propanol), the quantity of 4 decreases slightly, and 2-(3^′,4^′-dimethoxyphenyl)-3-(ethoxycarbonyl)-4-methyl-2,5-dihydrofuran (3) is obtained in moderate amount (26%). We propose a mechanistic scheme whereby the major products are formed via a combination of one- and two-electron processes.     

Electroreductive intramolecular cyclization of a bromo propargyloxy ester catalyzed by nickel(i) tetramethylcyclam electrogenerated at carbon cathodes in dimethylformamide

Cyclic voltammetry and controlled-potential electrolysis have been employed to investigate and characterize the reductive intramolecular cyclization of ethyl 2-bromo-3-(3',4'-dimethoxyphenyl)-3-(propargyloxy)propanoate (1) promoted by (1,4,8,11-tetramethyl-1,4,8,11-tetraazacyclotetradecane)nickel(I), [Ni(tmc)](+), electrogenerated at glassy carbon cathodes in dimethylformamide containing tetraalkylammonium salts. Cyclic voltammograms for reduction of [Ni(tmc)](2+) in the presence of 1 reveal that [Ni(tmc)](+) catalytically reduces 1 at potentials more positive than those required for direct reduction of 1. During controlled-potential electrolyses of solutions containing [Ni(tmc)](2+) and 1, catalytic reduction of the latter proceeds via one-electron cleavage of the carbon-bromine bond to form a radical intermediate that undergoes cyclization to afford 2-(3',4'-dimethoxyphenyl)-3-(ethoxycarbonyl)-4-methylenetetrahydrofuran (2). In the presence of a base (either electrogenerated or deliberately added as potassium tert-butoxide), 2 rearranges to give 2-(3',4'-dimethoxyphenyl)-3-(ethoxycarbonyl)-4-methyl-2,5-dihydrofuran (3). A mechanistic scheme is proposed to explain the results obtained by means of cyclic voltammetry and controlled-potential electrolysis.     

Monitoring of molecular transformations in acid-base reactions by evolving factor analysis of Fourier transform infrared spectral data

An evolving factor analysis procedure with concentration constraints (gradient concentration window) was applied to the analysis of data sets of aqueous Fourier transform infrared (FT-IR) spectra of carboxylic acids (acetic, malonic and succinic acids) collected in experiments with varying pH. Besides the calculation of the number of acid-base systems, this procedure allowed the calculation of the FT-IR spectra of the acid-base species present in equilibrium as well as the corresponding pK(a) values.     

Abel maps and limit linear series

We explore the relationship between limit linear series and fibers of Abel maps in the case of curves with two smooth components glued at a single node. To an \(r\)-dimensional limit linear series satisfying a certain exactness property (weaker than the refinedness property of Eisenbud and Harris) we associate a closed subscheme of the appropriate fiber of the Abel map. We then describe this closed subscheme explicitly, computing its Hilbert polynomial and showing that it is Cohen–Macaulay of pure dimension \(r\). We show that this construction is also compatible with one-parameter smoothings.