Kekulé structure counts: General formulations for primitive coronoid hydrocarbons

Summary The Kekulé structure counts (K) for primitive coronoids are treated. TheK formula which involves the trace of a matrix product is recalled and supplemented with new findings. In this way a kind of symmetry in the mathematical formulations is restored. Another general formulation for theK number is provided in terms of polynomials which, for a somewhat mysterious reason, are identified as the matching polynomials of cycles.

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Zählung von Kekulé-Strukturen

Zusammenfassung Es werden Kekulé-Strukturzählungen (K) für einfache Coronoide behandelt. Die Formel fürK wird durch neugefundene Eigenschaften ergänzt. So wird eine Art von Symmetrie in den mathematischen Formulierungen erreicht. Eine andere generelle Formulierung derK-Zahlen wird in Form von Polynomen bereitgestellt, welche aus uneinsichtigen Gründen als die passenden Polynome von Cyclen identifiziert wurden.

     

Computing a new family of shape descriptors for protein structures

The large-scale 3D structure of a protein can be represented by the polygonal curve through the carbon alpha atoms of the protein backbone. We introduce an algorithm for computing the average number of times that a given configuration of crossings on such polygonal curves is seen, the average being taken over all directions in space. Hereby, we introduce a new family of global geometric measures of protein structures, which we compare with the so-called generalized Gauss integrals.     

Structural analysis of lignin by resonance Raman spectroscopy

Resonance Raman (RR) spectroscopy, combined with Kerr gated fluorescence rejection in the time domain, has recently elucidated lignin structure with unique sensitivity and selectivity. This promises structural studies of fluorescent natural macromolecules, such as lignin, which were previously not possible. Such studies rely on an improved understanding of the RR spectral behavior of lignin, which is today scarcely understood. We explain for the first time this behavior by a semi-empirical theory, and observe its pertinent features for lignin in vascular plants. We have used well-defined oxidative treatments as means of probing lignin structural elements, and show that RR sensitivity and selectivity depend crucially on excitation wavelength. Through the theory we relate these results to basic structural aspects of lignin. Spectra obtained by blue light laser excitation (400 nm) are dominated by low redox potential syringyl lignin groups, whereas lower photon energy (500 nm) decreases the selectivity markedly. RR bands depend on molecular structure but also on molecular environment. Thus charge transfer donor-acceptor interactions within lignin reduce the intensity of bands associated with electron rich moieties. New possibilities for basic and selective structural information on fluorescent natural materials, such as lignin, have thus appeared.     

A neutron activation study of trace element contents in plants growing on soils of different acidity

As part of a research program on the influence of soil acidification on metal uptake in plants, the present work was carried out in order to investigate the feasibility of instrumental neutron activation analysis for this purpose. The work was restricted to elements yielding medium- or long-lived radionuclides on neutron activation. Elements studied include Na, Sc, Cr, Fe, Co, Zn, Br, Rb, Cs, Ba and La. The material analyzed was from a comparison of trace element contents in natural vegetation from corresponding coniferous forest locations in South Norway, which is considerably exposed to acidic deposition from long-range atmospheric transport, and Central Norway, which is far less affected. In particular Rb and Cs show pronounced differences between the two regions regarding concentration levels in certain plant species.     

Intercomparison on measurements of PCBs in pork fat during the Belgian PCB-crisis

During the Belgian PCB crisis (1999/2000) the quality of the data from the PCB monitoring were studied with a proficiency testing experiment. Pork fat that was spiked at the Institute for Reference Materials and Measurements (EC-JRC-IRMM) was sent out as unknown to all laboratories that participated in the monitoring. In parallel, the material was certified on the basis of the results of several leading PCB laboratories throughout Europe that did not participate in the monitoring. During the first round 15 to 25% deviation was experienced, while in the end of this multistep intercalibration procedure the average deviation for the respective PCBs was 10.9% (PCB 28), 13.1% (PCB 52), 10.1% (PCB 101), 10.7% (PCB 118), 10.7% (PCB 138), 9.1% (PCB 153), 8.1% (PCB 180) and 8.2% for the sum of the 7 PCBs. The concentrations measured for the higher volatile PCB 28 had a tendency to show lower levels, while for PCB 180 this was less pronounced. On the other hand, PCB 153 showed results rather to the higher side. During this exercise the material was also tested for stability by one of the certifying laboratories.     

Quantum chemical calculations on the Peterson olefination with alpha-silyl ester enolates

The reaction of stabilized Peterson reagents (alpha-silyl ester enolates) with ketones has been studied theoretically and experimentally. Enolate geometry was studied by trapping experiments and NMR spectroscopy and was found to differ markedly with the nature of the base (LiHMDS vs LDA vs KHMDS). The chelating effect of the lithium counterion was found to be critical for the reaction. For the two ketones studied, the combined weight of experimental and computational data assigns geometrical selectivity to the initial addition transition state, though in general there appears to be a fine balance between three possible choices for the rate-determining step.     

The comparison of calculated transition probabilities with luminescence characteristics of erbium(III) in fluoride glasses and in the mixed yttrium-zirconium oxide crystal

Fluorozirconate glasses containing 2 mole% ErF₃ were prepared by melting the binary fluorides with ammonium bifluoride under an atmosphere of carbon tetrachloride and argon at 850°C. Absorption spectra of these glasses were obtained and the Judd-Ofelt parameters were calculated. Emission spectra and lifetimes of erbium in fluorozirconate glass, in lead-gallium-zinc fluoride glass, and in yttrium-zirconium oxide crystal were measured and compared with the theoretical calculations. Laser emission lines in these materials are deduced from these measurements. It is suggested that materials doped with erbium may serve as light sources for fiber optic waveguides made from the undoped materials.     

A new versatile receptor platform

We prepared a molecular receptor based on the molecular tweezer concept. Our system offers versatility, an extremely short synthetic route, good yield, large quantities, and finally having binding constants that equal the best known tweezer molecules when it comes to binding various nitroaromatics such as 1,3,5-trinitrotoluene (24 M(-1)), 1,3,5-trinitrobenzene (182 M(-1)), and 2,4,7-trinitrofluorenone (490 M(-1)) as determined using 1H NMR in CDCl3. It is notable that these binding constants are achieved although the molecular framework is not locked in a fixed and rigid conformation. The rigidity has been claimed to be the governing factor when it comes to achieving a large binding constant. We propose that our molecular tweezer system may be preorganized and that this explains the high binding constants observed. Further, we investigated the crystal structures of both the neutral receptor molecule and a complex with 1,3,5-trinitrobenzene and found that the molecule forms a pocket suited to accommodate flat aromatic analytes.     

Molecular simulations of surface forces and film rupture in oil/water/surfactant systems

We use dissipative particle dynamics (DPD) and molecular models to simulate interacting oil/water/surfactant interfaces. The system comprises sections of two emulsion droplets separated by a film. The film is in equilibrium with a continuous phase, in analogy with the surface force apparatus. This is achieved by combining DPD with a Monte Carlo scheme to simulate a muVT ensemble. The setup enables the computation of surface forces as a function of the distance between the two interfaces, as well as the detection of film rupture. We studied monolayers of nonionic model surfactants at different densities and compared oil-water-oil and water-oil-water emulsion films. Between surfactant monolayers facing each other tails-on (water-oil-water films), we observed repulsive forces due to the steric interaction between overlapping hydrophobic tails. The repulsion increases with surfactant density. Conversely, no such repulsion is observed between surfactant monolayers facing each other heads-on. Instead, the film ruptures, the monolayers merge, and a channel forms between the two droplet phases. Film rupture can also be induced in the water-oil-water films by forcing the interfaces together. The separation at rupture increases for oil-water-oil films and decreases for water-oil-water films when the surfactant density increases. The results are in qualitative agreement with existing theories of emulsion stability in creams, in particular with the channel nucleation theory based on the natural curvature of surfactants.     

Dimethyl ether oxidation at elevated temperatures (295-600 K)

Dimethyl ether (DME) has been proposed for use as an alternative fuel or additive in diesel engines and as a potential fuel in solid oxide fuel cells. The oxidation chemistry of DME is a key element in understanding its role in these applications. The reaction between methoxymethyl radicals and O(2) has been examined over the temperature range 295-600 K and at pressures of 20-200 Torr. This reaction has two product pathways. The first produces methoxymethyl peroxy radicals, while the second produces OH radicals and formaldehyde molecules. Real-time kinetic measurements are made by transient infrared spectroscopy to monitor the yield of three main products-formaldehyde, methyl formate, and formic acid-to determine the branching ratio for the CH(3)OCH(2) + O(2) reaction pathways. The temperature and pressure dependence of this reaction is described by a Lindemann and Arrhenius mechanism. The branching ratio is described by f = 1/(1 + A(T)[M]), where A(T) = (1.6(+2.4)(-1.0) x 10(-20)) exp((1800 +/- 400)/T) cm(3) molecule(-1). The temperature dependent rate constant of the methoxymethyl peroxy radical self-reaction is calculated from the kinetics of the formaldehyde and methyl formate product yields, k(4) = (3.0 +/- 2.1) x 10(-13) exp((700 +/- 250)/T) cm(3) molecule(-1) s(-1). The experimental and kinetics modeling results support a strong preference for the thermal decomposition of alkoxy radicals versus their reaction with O(2) under our laboratory conditions. These characteristics of DME oxidation with respect to temperature and pressure might provide insight into optimizing solid oxide fuel cell operating conditions with DME in the presence of O(2) to maximize power outputs.