Use of circular variance to quantify the deviation of a macromolecule from the spherical shape

It is shown that the extent of deviation of a molecular shape from spherical can be characterized by comparing the distribution of the circular variances, a measure originally proposed to quantify angular spread, of the vectors from each atom to the rest of the molecule to the circular variance of a collection of atoms filling the unit sphere. Different measures for quantifying the difference between distribution are proposed and compared.     

Assessment of mobility of heavy metals in two soil types by use of column leaching experiments and chemometric evaluation of elution curves

The objectives of this study were to evaluate the mobility of heavy metals (HMs) in two types of soils (acidic forest soil and neutral agricultural soil) by leaching with calcium chloride solution in column experiments. The screening properties of neutral agricultural soil towards pollution by heavy metals (Ni, Cu, Zn and Cd) are approximately 10 times higher than those of acid forest soil. The neutral agricultural soil, polluted artificially by one pore volume (PV) of an HMs solution of concentration 200 mg L^?1, can screen the leaching of these metals over several hundreds of years. The higher apparent desorption rate and per cent desorption of HMs (especially Cd) in acid forest soil indicated a higher potential of intensive migration of the metals across the profile and indicated potential risk of Cd pollution for this type of soil. The latest approach of artificial neural networks to describe transport of HMs in soil has been also evaluated. Using a simple three-layer perceptron topology with three hidden neurons, the experimental data could be simulated. The results suggested that the pH of soil is a major factor controlling the retention of the heavy metals in the soils.     

A study of the exposure of various population groups to platinum in Vienna (Austria) through urine analysis by inductively coupled plasma-mass spectrometry

Platinum is emitted to environment by automobile catalytic converters (ACCs), hospitals, noble metal refineries, and other industries. Due to abrasion of ACCs platinum leaves the cars with the exhaust fumes and can thus be found in urban and rural atmospheres. To study the exposure to this element its concentration in urine is determined. Urine represents an often used specimen for monitoring studies, as it plays an important role in the elimination of various substances from the body and in addition it can be collected easily. It is supposed that the Pt-intake depends on the physical activity of a person, i.e. the amount of air inhaled and food consumed. Therefore subjects without and with one or two hip-endoprostheses were selected for this monitoring study. The medians obtained for the Pt-concentration of the urine-samples of these three groups were 3.7 µg/g, 3.3 µg/g and 1.9 µg/g for persons with no, one and two prostheses, respectively. Applying a Mann-Whitney-U-test on these data leads to a p-value of 0.051 comparing the groups with n = 0 and n = 2, and a p-value of 0.052 for n = 1 and n = 2 (n = number of prostheses).     

Efficient multipole expansion: Choice of order and density partitioning techniques

Two approaches to improve the convergence of the multipole series were considered: 1) an increase in the order of the expansion; 2) decomposition of the molecular charge density into smaller distributions. New decompositions of the molecular electronic density and a computational procedure to generate high-order moments are presented. The accuracy and timing of test calculations on the H₂O ... H₂O system are given and suggestions are made for optimizing the choice of an expansion for more general systems.We express our appreciation to the National Institutes of Health which supported this work under Grant 1 R01 GM 20436-02.     

Dérivés C-glycosyliques. VII. Synthèse et réactions de nitrones dérivées de sucres. Communication préliminaire

The syntheses of three types of sugar nitrones (aldonitrone, ketonitrone and α-β unsaturated aldonitrone) are described. On 1,3-dipolar cycloaddition with phenylacetylene, the aldonitrone gave two Δ₄-isoxazolines epimeric at the new asymetric carbon, while the same reaction on the ketonitrone led to a spiro-Δ₄-isoxazoline. The reaction of these nitrones with carbon nucleophiles like phenylethynylmagnesium bromide constitutes a novel chain-extension reaction in carbohydrate chemistry.     

On an Extension Problem for Polynomials

Consider the following problem: given complex numbers a₁, ...,a_n, find an L function f of minimum norm whose Fourier coefficientsc_k(f) are equal to a_k for k between 0 and n. We show the uniquenessof this function, and we estimate its norm. The operator-valuedcase is also discussed. 2000 Mathematics Subject Classification30E05, 47A20, 47A56, 47A57.     

Determination of selenocysteine and selenomethionine in edible animal tissues by 2D size-exclusion reversed-phase HPLC-ICP MS following carbamidomethylation and proteolytic extraction

A method was developed for the simultaneous determination of selenomethionine (SeMet) and selenocysteine (SeCys) in meat (chicken and lamb muscles) and different offal tissues (heart, liver, kidney). The analytical procedure was based on the protein extraction with urea under reducing conditions (dithiothreitol), derivatization of SeCys and SeMet by carbamidomethylation with iodoacetamide (IAM) followed by quantitative proteolysis. The mixture of the derivatized Se-amino acids was purified by size-exclusion liquid chromatography (LC) and analysed by ion-paring reversed-phase HPLC–inductively coupled plasma mass spectroscopy (ICP MS). The quantification of SeCys and SeMet was carried out by the method of standard additions. ⁷⁷SeMet was used to control the SeMet derivatization efficiency and recovery. The method was validated by the determination of the Se mass balance. The Se-amino acids accounted for 91 ± 8% of the total selenium (mean of 95 samples of seven tissues analysed over a period of 18 months). The method was applied to the discrimination of the contribution of selenoproteins (containing SeCys) and other Se-containing proteins (containing SeMet) in tissues of animals during supplementation studies (dose–effect and tolerance).     

TRAJELIX: A Computational Tool for the Geometric Characterization of Protein Helices During Molecular Dynamics Simulations

Summary We have developed a computer program with the necessary mathematical formalism for the geometric characterization of distorted conformations of alpha-helices proteins, such as those that can potentially be sampled during typical molecular dynamics simulations. This formalism has been incorporated into TRAJELIX, a new module within the SIMULAID framework (http://inka.mssm.edu/~mezei/simulaid/) that is capable of monitoring distortions of alpha-helices in terms of their displacement, global and local tilting, rotation around their axes, compression/extension, winding/unwinding, and bending. Accurate evaluation of these global and local structural properties of the helix can help study possible intramolecular and intermolecular changes in the helix packing of alpha-helical membrane proteins, as shown here in an application to the interacting helical domains of rhodopsin dimers. Quantification of the dynamic structural behavior of alpha-helical membrane proteins is critical for our understanding of signal transduction, and may enable structure-based design of more specific and efficient drugs.     

Effect of cholesterol on the properties of phospholipid membranes. 4. Interatomic voids

The properties of the interatomic voids present in fully hydrated dimyristoylphosphatidylcholine (DMPC)-cholesterol mixed membranes of different compositions are analyzed in detail using a generalized variant of the Voronoi-Delaunay method on the basis of computer simulation results. The systems investigated are chosen from both sides of the DMPC-cholesterol miscibility gap; the pure DMPC bilayer has also been included in the analysis as a reference system. The results obtained show that the empty space is organized in a more compact way, forming larger voids in the presence than in the absence of cholesterol. The voids located in the region of the rigid cholesterol rings become, on average, less spherical, oriented more parallel with the membrane normal axis with increasing cholesterol concentration, whereas an opposite effect of cholesterol is observed in the middle of the membrane among the chain terminal methyl groups. In general, the preferential orientation of the voids is found to strongly correlate with that of the molecules in the hydrocarbon phase of the membranes. The membranes are found to contain rather large voids, the volume of which can be an order of magnitude larger than the largest spherical cavities present in the systems. These voids are elongated or branching channels rather than big empty holes. The voids located among the DMPC and cholesterol molecules are lying preferably parallel with the membrane normal axis. The existence of such empty channels can be of great importance in the cross-membrane permeation of small, uncharged penetrants, in particular, of polar molecules.