Testing the performance of density functionals for the calculation of energetic properties of complex-forming radical-molecule reactions

The performance of some popular and some more recent density functional methods for the calculation of energies of stationary points on the potential surfaces of radical-molecule reactions was examined. The functionals studied are B3-LYP, BH&H, BH&H-LYP, MPW1K, MPWB1K, TPSS, TPSSh, BB1K, M05 and M05-2X, in conjunction with nine different AO basis sets. The reaction energies, barrier heights and the relative energies of the pre-and post-reaction complexes were compared with those obtained at the CCSD(T)/CBS limit for the reactions of OH radicals with HOOH and CH₃OOH. Very poor barrier heights are provided by the B3-LYP, TPSS and TPSSh functionals. The best overall performance was obtained with the BB1K, MPW1K and MPWB1K functionals. In these reactions all of the studied functionals provide converged results only if they are used with large basis sets like aug-cc-pVTZ and def2-TZVP. The data show that before relying on a functional for a specific reaction, it is desirable to make some test calculations on the performance. The same functional can predict some relative energies very well and some others very poorly even in systems including chemically similar reactants.     

Synthesis,spectral, thermal and structural study of bis(2-bromobenzoato-O,O′)-bis(methyl-3-pyridylcarbamate-N)-zinc(II)

The new complex bis(2-bromobenzoato-O,O′)-bis(methyl-3-pyridylcarbamate-N)-zinc(II), [Zn(2-BrC₆H₄COO)₂mpc₂] (1), has been prepared and characterized by elemental analysis, IR spectroscopy, thermal analysis and single-crystal X-ray diffraction. The bonding between the ligands and the central atom was investigated by DFT studies. The theoretical infrared spectrum of 1 was compared with the experimental data. The complex proved to be thermally stable up to 165 °C. Volatile intermediate products of its thermal decomposition were identified by mass spectrometry. The coordination environment of the zinc atom consists of two nitrogen atoms of two methyl-3-pyridylcarbamate ligands and is chelated by four oxygen atoms of two 2-bromobenzoate ligands (ZnO₄N₂ – chromophore).     

Multiresidue analysis of pollutants as their trimethylsilyl derivatives,by gas chromatography–mass spectrometry

This paper reports a multiresidue analysis procedure which permits the identification and quantification of sixty-three water-soluble pollutants. Subsequent to their solid-phase extraction (SPE) enrichment, analyses of species have been carried out from one solution, by a single injection, as their trimethylsilyl-oxime ether/ester derivatives, by gas chromatography–mass spectrometry, within 31 min. Based on our optimized extraction, derivatization and mass fragmentation studies separation have been performed in the total ion current mode, identification and quantification of compounds have been carried out on the basis of their selective fragment ions. Including various pharmaceuticals, benzoic acid, its substituted species, different aromatic carboxylic acids, cholic acids, unsaturated and saturated fatty acids, aliphatic dicarboxylic acids, as well as synthetic pollutants of various origins (2,4-di-tert-butylphenol, different phthalates). Standard compounds were added to 500 mL effluent wastewater samples, at three concentrations (1–5 μg/L, 5–10 μg/L and 10–20 μg/L). Recoveries, using the Waters Oasis cartridges performing extractions at pH 2, pH 4 and pH 7 proved to be the optimum at pH 4 (average recoveries (94.5%), except for cholesterol (10%), paracetamol (18%) and 2,5-dihydroxybenzoic acid (25%). Carbamazepine could be recovered at pH 7, only. Responses, obtained with derivatized standards proved to be linear in the range of 4–80 μg/L levels. Limit of quantitation values varied between 0.92 ng/L (4-hydroxyphenylacetic acid) and 600 ng/L (dehydrocholic acid) concentrations. One of the most important messages of this work is the confirmation of the origin of blank values. It was shown that contaminants, mainly 2,4-di-tert-butylphenol, different phthalates and fatty acids, are sourced both from the reagents and mainly from the SPE procedure, independent on the cartridge applied. Reproducibilities, characterized with the relative standard deviations (RSDs) of measurements, varied between 0.71% and 10%, with an average of 4.38% RSD. The practical utility of the method was shown by the identification and quantification of the pollutant contents of Hungarian influent and effluent wastewaters (for six consecutive months and that of the Danube River for 2 months).     

Large antipodal families

A family {A _i | i ∈ I} of sets in ℝ ^d is antipodal if for any distinct i, j ∈ I and any p ∈ A _i , q ∈ A _j , there is a linear functional ϕ:ℝ ^d → ℝ such that ϕ(p) ≠ ϕ(q) and ϕ(p) ≤ ϕ(r) ≤ ϕ(q) for all r ∈ ∪ _i∈I A _i . We study the existence of antipodal families of large finite or infinite sets in ℝ³. The research was supported by the Hungarian-South African Intergovernmental Scientific and Technological Cooperation Programme, NKTH Grant no. ZA-21/2006 and South African National Research Foundation Grant no. UID 61853, as well as Hungarian National Foundation for Scientific Research Grants no. NK 67867, no. T47102, and no. K72537.     

A new type of edge-derived vertex coloring

We study the minimum number of weights assigned to the edges of a graph G with no component K₂ so that any two adjacent vertices have distinct sets of weights on their incident edges. The best possible upper bound on this parameter is proved.     

The photochemical reaction cycle of retinal reconstituted bacteriorhodopsin

The function of three types of bacteriorhodopsins was compared: the wild-type, the bleached and retinal reconstituted and retinal deficient bacteriorhodopsin after retinal addition. The apparent pK(a) of the proton acceptor group for the bleached BR and retinal deficient BR shifted toward higher pH values compared to the wild-type BR. Fitting the photocycle model to the absorption kinetic signals for all three proteins showed the existence of the same intermediates, but the time-dependent concentration of the intermediates was different. Although measurements were made at pH 7, the absorption kinetics and photoelectric signals in both retinal reconstituted samples acted as wild-type bacteriorhodopsin at significantly higher pH. Below pH 3 the retinal deficient and reconstituted sample bleached. These results suggested that the added retinal was not able to rebind in the same position in the protein as in native bacteriorhodopsin. This points out that care should be taken, when bleached bacteriorhodopsin is reconstituted with different retinal analogs.     

The influence of the halide ions on the photochemical reaction cycle of pharaonis halorhodopsin

Sodium salt of chloride, bromide and iodide were used to elucidate the effect of the size of the anion on the binding to pharaonis halorhodopsin and its transport during the photocycle of this retinal protein. Spectroscopic titration revealed an apparent strong binding constant of 2 mM for chloride, 0.23 mM for bromide and 5 mM for iodide. In the case of iodide a second, week binding constant of about 10 M could be estimated. This second binding constant was similar to that observed earlier for nitrate. By changing the halide ions, only the transitions in the second half of the photocycle were affected, which contained intermediates N, O, and HR'. The O to HR' transition becomes faster with increasing ion volume, meaning that the ion uptake is accelerated. This effect shows a direct correlation with the ion radius. With increasing ion concentration the N-O-HR' equilibrium changed in such a way that the accumulated O tended to decrease. This tendency was overruled in iodide, by the appearance of the second binding constant. The increasing iodide concentration, up to 100mM decreases the accumulation of the intermediate O, due to kinetic reasons, but at higher ion concentration the amount of O increases, although its decay becomes faster. This effect correlates with the appearance of the second iodide bound to the protein.     

New facile tandem route to oxo- and thioxo[1,2,4]triazolo[1,5-a]pyridinium salts

2-Arylsulfanyl- and benzylsulfanylpyridinium N-arylimides (2), easily available from tetrazolo[1,5-b]pyridinium salts (1), participate in 1,3-dipolar cycloaddition with aryl isothiocyanates and aryl isocyanates to result in formation of fused thioxo- and oxo[1,2,4]triazolium salts (5 and 12), respectively. This transformation is interpreted as a regular 1,3-cycloaddition followed by spontaneous elimination of the aryl- or benzylsulfanyl group. Formation of these triazolium salts can be followed--under appropriate reaction conditions--by ring-opening reactions to afford some new triazolyldienes (6). Recognition of the intermediate participation of the thiolate anion along the pathway 1 --> 5 allowed elaboration of a simple procedure to 5 implying a tandem reaction sequence.     

Conservative spatial chaos of buckled elastic linkages

Buckling of an elastic linkage under general loading is investigated. We show that buckling is related to an initial value problem, which is always a conservative, area-preserving mapping, even if the original static problem is nonconservative. In some special cases, we construct the global bifurcation diagrams, and argue that their complicated structure is a consequence of spatial chaos. We characterize spatial chaos by the associated initial value problem's topological entropy, which turns out to be related to the number of buckled configurations.