A new asymmetric Pseudo‐Voigt function for more efficient fitting of XPS lines

Asymmetric peak profiles for the application in spectroscopy can be obtained in a simple way by substituting the usually constant full width at half maximum parameter in Pseudo‐Voigt functions with an energy‐dependent expression, for instance of sigmoidal shape. While this approach has been successfully applied to vibrational spectra, we find that the resulting curves are less suitable for least‐squares fits of X‐ray photoelectron spectroscopy (XPS) data. However, if one additionally allows a variable displacement of the sigmoidal step relative to the peak, excellent fitting results can be obtained. We demonstrate the applicability of our extended approach on several inherently asymmetric XPS lines, i.e. the C 1s signal of graphite and C₂H₂/Pd(100), the 3d_5/2–3d_3/2 doublet of palladium, and the 4f_7/2–4f_5/2 doublet of platinum. Comparison of the corresponding fit results with the results obtained by the application of more elaborate, theory‐based line profiles (Doniach‐?unji? and Mahan functions) shows that the modified Pseudo‐Voigt function gives practically identical results in terms of peak shape and area, while requiring much less computational effort since no convolution procedures are required for its calculation. Thus, this function is most suitable for application in one of the following situations: (i) the peak shape of a given signal is known but cannot be calculated with ease, and (ii) the theoretical peak shape is not (yet) known, however, one wants to perform a first quantitative screening of the data at issue. Copyright © 2014 John Wiley & Sons, Ltd.     

Synthesis of hydantoins and dihydrouracils via thermally-promoted cyclization of ureidoacetamides

The synthesis of hydantoins and dihydrouracils from ureidoacetamides has been carried out at high temperature in glycol solvents. A series of substrates were prepared and examined to determine the effect of substrate structure, N-acyl substitution (X), and solvent on the course of the reaction. A dramatic effect was observed when using ureidoacetamides (e.g., X=N-methyl-N-phenyl), which led to higher yields, faster reaction times, and lower racemization of chiral substrates. The rate of racemization of a chiral hydantoin in the presence of dibenzylamine and N-methyl aniline has also been determined. The thermal cyclization methodology has been applied to the preparation of a complex hydantoin.     

Diverted total synthesis of falcitidin acyl tetrapeptides as new antimalarial leads

We report not only the convergent total synthesis of falcitidin, a natural inhibitor of falcipain-2 from myxobacterium Chitinophaga, but also its diversification into a new antimalarial class of N-acyl tetrapeptides (Acyl-His-Ile-Val-Pro-NH₂). Despite the lack of whole-cell activity of falcitidin itself, our study led to the identification of a trifluoromethyl (CF₃) analogue displaying sub-micromolar IC₅₀ activity against Plasmodium falciparum 3D7 in a standard blood-cell assay, but only when N-tritylated on its histidine (imidazole) residue.     

Are accurate computations of the 13C′ shielding feasible at the DFT level of theory?

The goal of this study is twofold. First, to investigate the relative influence of the main structural factors affecting the computation of the ¹³C′ shielding, namely, the conformation of the residue itself and the next nearest‐neighbor effects. Second, to determine whether calculation of the ¹³C′ shielding at the density functional level of theory (DFT), with an accuracy similar to that of the ¹³C^α shielding, is feasible with the existing computational resources. The DFT calculations, carried out for a large number of possible conformations of the tripeptide Ac‐G XY ‐NMe, with different combinations of X and Y residues, enable us to conclude that the accurate computation of the ¹³C′ shielding for a given residue X depends on the: (i) (?,ψ) backbone torsional angles of X ; (ii) side‐chain conformation of X ; (iii) (?,ψ) torsional angles of Y ; and (iv) identity of residue Y . Consequently, DFT‐based quantum mechanical calculations of the ¹³C′ shielding, with all these factors taken into account, are two orders of magnitude more CPU demanding than the computation, with similar accuracy, of the ¹³C^α shielding. Despite not considering the effect of the possible hydrogen bond interaction of the carbonyl oxygen, this work contributes to our general understanding of the main structural factors affecting the accurate computation of the ¹³C′ shielding in proteins and may spur significant progress in effort to develop new validation methods for protein structures. © 2013 Wiley Periodicals, Inc.     

The development of radioactive glass surrogates for fallout debris

The production of glass that emulates fallout is desired by the nuclear forensics community for training and measurement exercises. The composition of nuclear fallout is complex, with widely varying isotopic compositions (Fahey et al., Proc Natl Acad Sci USA 107(47):20207–20212, 2010; Bellucci et al., Anal Chem 85:7588–7593, 2013; Wallace et al., J Radioanal Nucl Chem, 2013; Belloni et al., J Environ Radioact 102:852–862, 2011; Freiling, Science 139:1058–1059, 1963; Science 133:1991–1999, 1961; Bunney and Sam Government Report: Naval Ordinance Laboratory, White Oak, 1971). As the gaseous cloud traverses from hotter to cooler regions of the atmosphere, the processes of condensation and nucleation entrain environmental materials, vaporized nuclear materials and fission products. The elemental and isotopic composition of the fission products is altered due to chemical fractionation (i.e. the fission product composition that would be expected from fission of the original nuclear material is altered by differences in condensation rates of the elements); the fallout may be enriched or depleted in volatile or refractory fission products. This paper describes preliminary work to synthesize, irradiate and fractionate the fission product content of irradiated particulate glass using a thermal distillation 2 h after irradiation. The glass was synthesized using a solution-based polymerization of tetraethyl orthosilicate. (Izrael, Radioactive fallout after nuclear explosions and accidents, 2002) Uranium was incorporated into the glass particulate at trace concentrations during polymerization. The particulate was subjected to a short thermal neutron irradiation then heated to 1,273 K approximately 2 h after the end of irradiation. Fission products of ^{133, 134, 135}I, ^{132, 134}Te, ¹³⁵Xe, ¹³⁸Cs and ^{91, 92}Sr were observed to be distilled from the particulate. The results of these preliminary studies are discussed.