Solvent effects on 17O nuclear magnetic shielding: N-methylformamide in polar and apolar solutions

The solvent effect on ¹⁷O isotropic shielding was computed by different methods: the polarizable continuum model and a mixed approach, including a few real solvent molecules treated as the solute. The experimental data show that the behavior of protic and aprotic solvents is markedly different: we found that the continuum approach describes well the observed shielding at various dielectric constants for aprotic solvents, while the mixed procedure is needed when hydrogen bonds to the magnetic centre are present.Contribution to the Jacopo Tomasi Honorary Issue     

New designs for inhibitors of the NF-κB: DNA binding

We present a series of new inhibitors of the association between nuclear factor kappa B (NF-B) and the corresponding B site in DNA. They were designed using the lead compound 15-deoxy-^12,14 -prostaglandin J₂ (PGJ2), which is a natural product with demonstrated inhibitory efficiency for this system. First, the binding mode of PGJ2 to NF-B was unraveled by GOLD docking calculation. Subsequently, substitutions were made to PGJ2 to optimize its association with NF-B. Care was taken not to strongly increase the reactivity of the new compounds, and to keep the overall shape, size and hydrophilicity of the lead compound, which should render them a similar bioavailability. Molecular mechanics calculations were performed to decide on the suitability of the substitutions, and to evaluate the energies of association with NF-B. Density functional theory calculations were performed also to study the overall reactivity of the substituted drugs towards NF-B. Important general conclusions were obtained, concerning the improvement of these natural inhibitors; namely, a set of rational methodologies were deduced to improve the association between the PGJ2 derivatives and NF-B, and their efficiency demonstrated by generating a set of substituted complexes, some of them with a very much increased affinity for NF-B, opening new doors to enlarge the therapeutic capabilities of this class of drugs.     

Trace elements in a profile of the unsaturated zone of the São Paulo Basin

This study comprises Tertiary sediments (clays, silts, and fine clayey sands) from the unsaturated zone of the Experimental Station in the University of São Paulo, taken from a nine meters depth profile; ten samples were separated in bulk and <53 m fractions. Chemical composition was determined by INAA to ascertain the distribution of trace elements throughout the sediment deposition, and to establish the background parameters, useful for mobilization studies of such elements after industrial waste disposal.     

Deprotection by electrolysis: Part I. The application of homogeneous redox catalysis to the study of the reduction of tosyl esters and amides

The mechanism of the cathodic cleavage of tosylate protecting groups from alcohols, amines and phenols in dimethylformamide has been probed using the technique of homogeneous redox catalysis. Some nine tosyl esters and six tosyl amides have been investigated and it is confirmed that these deprotection reactions occur by cleavage of the anion radicals. The formal electrode potentials for the couples, neutral molecule/anion radical, are reported and it is shown that the rate constants for the cleavage of the anion radicals lie in the range 10⁴ s^?1 to >10⁸ s^?1. Indeed for aromatic amines and phenols, the homogeneous charge transfer between the catalyst and the substrate becomes the rate determining step.     

Characterization of the N-linked glycosylation site of recombinant pectate lyase

Recombinant pectate lyase from Aspergillus niger was overexpressed in Aspergillus nidulans. The two recombinant proteins produced differed in molecular mass by 1200 Da, which suggested that the larger molecular weight protein was glycosylated. The deduced amino acid sequence was searched for potential N-linked glycosylation sites, and one potential site was identified at residue 64. The proteins were analyzed for their ability to bind various lectins as an assay for the presence of carbohydrates. The proteins were then digested with trypsin to facilitate the isolation of the potential glycosylation site. The resulting digestion products were subsequently analyzed by liquid chromatography/mass spectrometry using in-source collision induced dissociation to detect glycopeptides. Once the glycopeptide had been identified, treatment with an endoglycosidase both verified the location of glycosylation and identified the mass of the glycan. The Complex Carbohydrate Structural Database was searched for possible N-linked structures with the same mass, and the suggested primary sequence was confirmed by an exoglycosidase digestion. The data demonstrated that the larger recombinant protein contained a high mannose N-linked structure (Man(5)GlcNAc(2)) attached to N-64, while this site was not occupied in the smaller protein.     

Titanium as a chemical modifier for the determination of cobalt in marine sediments

The determination of cobalt in marine sediments by electrothermal atomic absorption spectrometry was studied using no modifier and magnesium and titanium as modifiers. Titanium is one of the major sediment constituents, which widely affects the cobalt determination and it was studied as a chemical modifier since it was the only concomitant that increased the cobalt signal in the concentration range usually found in sediments. The performance of Mg and Ti as chemical modifiers was compared relative to maximum pyrolysis and atomization temperatures, linear calibration range, sensitivity and matrix effects. The pyrolysis curves showed that the analyte could be stabilized up to 1400 °C when either Ti or Mg(NO₃)₂ was present, while only 1000 °C could be used in the absence of a modifier. The optimum atomization temperature was 2500 °C in all cases. Analytical curves were compared using no modifier, 5 μg Ti and 100 μg Mg(NO₃)₂ as modifiers, and the linear range found was up to approximately 4 ng Co whether a modifier was used or not. With Ti as a chemical modifier, analytical curves for cobalt in aqueous solution and in a synthetic matrix resulted in the same sensitivity (m₀=55 pg), whereas the use of Mg led to characteristic mass values of 59 and 72 pg in aqueous solution and in a synthetic matrix, respectively, showing some matrix effect. The detection limits (3σ, n=10) were 0.4 μg g⁻¹ using no modifier and 0.3 μg g⁻¹ with Ti as a modifier in the original matrix. A reference estuarine sediment NIST 1646 with a non-certified content of 10.5 μg g⁻¹ Co was analyzed and the found value of 10.9±2.4 μg g⁻¹, (n=3), using Ti as chemical modifier and calibration against aqueous standards, was in good agreement with the recommended value.     

A sol-gel route for the development of rare-earth aluminum borate nanopowders and transparent thin films

A new sol-gel route was applied to obtain Y_0.9Er_0.1Al₃(BO₃)₄ crystalline powders and amorphous thin films by using Al(acac)₃, B(OPrⁱ)₃, Y(NO₃)₃·6H₂O, and Er(NO₃)₃·5H₂O as starting materials dissolved in propionic acid and ethyl alcohol mixtures. Our study shows that propionic acid acts as good chelant agent for yttrium and erbium ions while ethyl alcohol allows to dissolve Al(acac)₃. This process makes the resulting sols very stable to obtain homogeneous gels and transparent amorphous thin films. In addition, the propionic acid prevents the sol precipitation, making easy porous- and crack-free thin film depositions. Chemical reactions involved in the complexation were discussed. As-prepared powders and films are amorphous and present a good thermal stability due to their high glass transition (746 °C) and crystallization temperatures (830 °C). This new sol-gel route showed to be adequate to obtain dense and crack-free thin films free of organic and hydroxyl groups that can be considered as promising materials to be used in integrated optical systems.     

Multinuclear NMR studies and ab initio structure calculations of hindered phencyclone diels‐alder adducts from symmetrical cyclic dienophiles: Cyclohexene,vinylene carbonate,vinylene trithiocarbonate and two N‐aryl maleimides

A series of hindered Diels‐Alder adducts have been prepared from phencyclone, 1 , with various unusual symmetrical cyclic dienophiles, including cyclohexene, 2a ; vinylene carbonate, 2b ; vinylene trithiocarbonate, 2c ; and the N‐aryl maleimides: N‐(4‐dimethylamino‐3,5‐dinitrophenyl)maleimide (“Tuppy's maleimide”), 2d ; and N‐[3,5‐bis(trifluoromethyl)phenyl]maleimide, 2e . The highly hindered adducts, 3a‐e , respectively, were extensively characterized by one‐ and two‐dimensional NMR methods, observing proton, carbon‐13 and fluorine‐19. High resolution COSY45 spectra permitted rigorous proton NMR assignments. The 2D heteronuclear C‐H chemical shift correlation spectra (HETCOR, XHCORR) were obtained for adducts 3a‐d , allowing specific assignments for protonated carbons. Corrections to earlier proton NMR assignments for the vinylene carbonate adduct are given; results of the gated decoupling ¹³C NMR experiment for this adduct supported endo adduct stereochemistry. Relative proton chemical shifts for bridgehead phenyls of adduct 3c appeared anomalous relative to other adducts, suggesting possible special anisotropic interactions (with endocyclic sulfur or other anisotropic groups in the product) due to the unusual calculated orientation of the phenyls. The unsubstituted bridgehead phenyls in all adducts were shown to exhibit slow exchange limit (SEL) ¹H and ¹³C spectra on the NMR timescales at ambient temperatures (7 tesla) showing slow rotations about the C(sp³)‐C(aryl sp²) bonds. The rapid rotation of the N‐aryl rings of the maleimide adducts was indicated by fast exchange limit spectra, suggesting that ortho substitution of the N‐aryl ring may be necessary to slow this rotation to the SEL regime. Ab initio geometry optimizations at the Hartree‐Fock level were carried out for each adduct, with the 6‐31G* basis sets. Appreciable geometry differences were seen in calculated structures, and significant NMR chemical shift differences were experimentally observed, depending on the nature of the groups attached to the (Z)‐HC=CH moiety of the dienophiles.