Toward universal substituent constants: Model chemistry sensitivity of descriptors from the quantum theory of atoms in molecules

The quantum theory of atoms in molecules (QTAIM) provides a theoretical foundation to determine the properties of functional groups through additive atomic contributions. Many studies have used QTAIM in their analyses with a variety of electronic structure methods, but it is unknown if the properties measured using one model chemistry, the combination of the electronic structure method and basis set, can be compared to those measured by another. Here, we evaluate the sensitivity of QTAIM functional group and bond critical point properties using six functionals and seven basis sets. High-level B2PLYPD3-BJ/aug-cc-pV5Z reference values are provided for 116 functional groups and the property sensitivity with respect to these values are evaluated based on absolute deviations and by assessing linear relationships. Functional group properties, including charges, dipoles, quadrupoles and volumes, were found to be mostly insensitive to choice of computational model chemistry. However, due to structural and topological inconsistencies, the 6-31G(d) basis set is not recommended for use. Bond critical point properties varied with choice of model chemistry, but models incorporating hybrid functionals and triple-ζ basis sets provided values suitable for use in regression studies.     

Inductive effect: a quantum theory of atoms in molecules perspective

Substituent effects are ubiquitous in chemistry and the most fundamental is the inductive effect. In this study, the so-called inductive effect was probed in derivatives of bicyclo[1.1.1]pentane-1-carboxylic acid using the isodesmic reaction energy of the acid-base deprotonation, calculated at the PBE0/6-31++G(d,p) level of theory (used throughout). Although structure, molecular orbitals, and nuclear magnetic shielding parameters are discussed, the main focus of this study is the use of the quantum theory of atoms in molecules to analyze the electron density distribution. It was observed that the effect propagates via the manipulation of atomic dipole moments controlled by that of the substituent. As the dipole moment conforms to the principle of atomic transferability, it is found that the substituent dipole determined in simple systems (e.g., R-H) can be used to describe the effect upon the bicyclo[1.1.1]pentane-1-carboxylic acid system.     

η and η' mesons from lattice QCD

The large mass of the ninth pseudoscalar meson, the η', is believed to arise from the combined effects of the axial anomaly and the gauge field topology present in QCD. We report a realistic, 2+1-flavor, lattice QCD calculation of the η and η' masses and mixing which confirms this picture. The physical eigenstates show small octet-singlet mixing with a mixing angle of θ=-14.1(2.8)°. Extrapolation to the physical light quark mass gives, with statistical errors only, mη=573(6) MeV and mη'=947(142) MeV, consistent with the experimental values of 548 and 958 MeV.     

Density functional study of lithium hexamethyldisilazide (LiHMDS) complexes: effects of solvation and aggregation

The title compound, lithium hexamethyldisilazide (LiHMDS), has been studied using modern quantum-chemical methods in the form of the B3LYP approach. Monomers, dimers, trimers, and tetramers, microsolvated with up to four THF molecules have been considered. The choice of model complex is seen to be important-for instance, the simpler water molecule is shown to be an inappropriate substitute for the THF solvent. Calculated lithium NMR shieldings are reported, but by themselves, they seem to be insufficient for unequivocal assignments of the different species. The energetics of aggregation and solvation have been studied. Temperature effects are seen to be important, and the degrees of solvation and aggregation are higher at 0 K than at 298 K. The highest degree of THF solvation for the monomer and dimer is found to be three (0 K) and two (298 K), respectively. The highest possible degree of aggregation for unsolvated LiHMDS is four. However, in nonpolar solvents, formation of the LiHDMS dimer from the trimer is thermodynamically preferred. The pathway is likely to involve an intermediate tetramer. In THF solution, di-solvated monomers and dimers are the most likely species.     

Characterization of fulvic acids by liquid chromatography-quadrupole time-of-flight mass spectrometry

Fulvic acid standards from Suwannee River, Pony Lake, Elliot Soil, Waskish Peat, and Nordic Reservoir were characterized by liquid chromatography coupled to quadrupole time-of-flight mass spectrometry (LC-QTOF-MS) operating in negative electrospray ionization mode. The method employed a commercially available stationary phase that resulted in a distinctive chromatographic peak for each of the fulvic acid samples that differed in width and retention time at peak maximum. The QTOF-MS, operating in TOF mode, revealed that the unique chromatographic peak shapes were the result of the relative fraction of hydrogen and oxygen contained in various fulvic acid components. Those species that contained larger amount of hydrogen displayed a larger mass defect and were retained longer on the LC column, indicating reduced polarity. This is supported by a reduction in the degree of fragmentation related to polar functional groups as the mass defect and retention time increased. Lastly, the analysis of even and odd mass (at m/z 1 greater) ion intensity ratios revealed a correlation to the percent nitrogen of the various standards.     

Simultaneous determination of N-acetylglucosamine, N-acetylgalactosamine, N-acetylglucosaminitol and N-acetylgalactosaminitol by gas-liquid chromatography

A gas-liquid chromatographic procedure is described which will concomitantly separate and quantitate N-acetylglucosamine, N-acetylgalactosamine, N-acetylglucosaminitol and N-acetylgalactosaminitol in a single analytical run. The hexosamines, as their O-methyloximes, and the hexosaminitols can be separated as either their per-O-acetylated or per-O-trimethylsilylated derivatives. This method is particularly useful with samples that possess both N-acetylhexosaminitols and N-acetylhexosamines as are seen with N-linked oligosaccharides that are cleaved from glycoproteins by alkaline borohydride treatment. This procedure demonstrates a range of acceptable linearity of 1-1000 nmoles for each type of amino sugar.     

Acyclic tautomers in crystalline carbohydrates: the keto forms of 1-deoxy-1-carboxymethylamino-D-2-pentuloses (pentulose-glycines)

NMR and X-ray diffraction studies on acyclic carbohydrate keto tautomers of N-(1-deoxy-d-erythro-2-pentulos-1-yl)- and N-(1-deoxy-d-threo-2-pentulos-1-yl)glycines (ribulose-glycine, 1 and xylulose-glycine, 2), are reported. In aqueous solutions, both 1 and 2 exist as a tautomeric mixture, with the beta-furanose as a major form, followed by the alpha-furanose and the acyclic keto tautomer. Both 1 and 2 crystallize as zwitterions in the acyclic keto form. Solid-state 13C NMR spectra reveal the existence of two crystallographically independent molecules in 2 but only one in crystalline 1. The structure of 2 was solved by X-ray diffraction; in the crystal, two conformational isomers, 2a and 2b in a 1:1 ratio, were identified. The conformers are packed in stacks of similar molecules, with a system of intermolecular hydrogen bonds involving all hydroxyl, ammonium, and carboxyl groups. The structural data indicate that the sugar portion of acyclic 2 adopts conformations similar to those proposed for the parent d-xylulose.     

Determination of thirteen common elements in food samples by inductively coupled plasma atomic emission spectrometry: comparison of five digestion methods

Five sample digestion procedures were evaluated for the determination of Al, B, Ca, Cu, Fe, K, Mg, Mn, Na, P, S, Sr, and Zn in food samples by inductively coupled plasma atomic emission spectrometry. The 5 procedures include dry ashing at 500 degrees C, wet digestion with HNO3-HClO4, microwave digestion with HNO3, microwave digestion with HNO3-H2O2, and microwave digestion with HNO3-H2O2-HF. For microwave digestion with HNO3-H2O2-HF, silicon (IV) oxide was used to eliminate the excess HF, making it possible to determine total Al, B, and other common elements accurately and simultaneously. Seven National Institute of Standards and Technology standard reference materials (SRMs) were analyzed to compare the recovery of 13 elements with above digestion procedures. The results demonstrated that the microwave digestion procedure with HNO3-H2O2-HF yielded the best recoveries for all 13 elements in the selected SRMs. The determined concentrations of most elements were close for all 3 microwave digestion procedures with the exception of Al in oyster tissue, bovine liver, and spinach. Notably, the wet digestion with HNO3-HClO4 is the simplest and the most effective procedure for the selected elements except Al and B. Although there are several concerns with the dry ashing procedure, it might be a preferable procedure for those analyses where only nonvolatile elements are to be determined and the concentrations of the elements are low.