Semisimilarity of molecular bodies: Scaling–nesting similarity measures

A simple, new technique for the evaluation of the similarity of molecular shapes is presented. The concept of semisimilarity (asymmetric similarity) is applied within the topological–geometrical framework of scaling–nesting similarity measures of molecules. The practical application of these similarity measures is illustrated by the examples of the three-dimensional formal bodies of electronic charge densities of a set of simple molecules. © 1994 John Wiley & Sons, Inc.     

Contribution to the study of the mechanism of curing of unsaturated polyester resins

The mechanism of copolymerization of monomethyl and dimethyl maleates and fumarates with styrene was studied by analysis of the conformation of the acid units of the resulting copolymers. The absorption bands for C?O stretching and OH stretching in the spectra of the copolymers are fully identical. They are quite different from the spectra of the copolymers obtained from maleic anhydride and styrene that are subsequently treated with absolute methanol to give the monoester which is then esterified with diazomethane to give the diester. The acid units of the copolymers derived from maleic anhydride exist in a gauche configuration; copolymers derived from fumaric units exist in a trans conformation. The identity of copolymers derived from maleic units with those derived from fumaric units but not with those derived from maleic anhydride indicates that the first step in the copolymerization of the maleic units is an isomerization to fumaric units, which are actually the genuine comonomers.     

Inhibition and labeling of enzymes and abzymes by phosphonate diesters

Reactive phosphonate diesters were designed and prepared as inhibitors of serine proteases and esterases. Inactivation of trypsin, chymotrypsin, and butyrylcholinesterase was determined by residual enzymaticactivity as well as by the release of a chromogenic or fluorogenic product of the inhibition reaction. Second-order rate constants were determined from rates of nitrophenol formation. Application of the reaction for active-site titration of enzyme preparations is demonstrated. A basic functional group present in the nitrophenyl tropane phosphonate diester was shown to confer selectivity for inactivation of try psin and chymotrypsin. Biotinylated derivatives of the phosphonate diesters were prepared to permitanalysis of proteins modified in the inhibition reaction. Labeled polypeptides were resolved by SDSPAGE, electroblotted, and detected by streptavidin-peroxidase staining. A detection limit of less than 4 ng, corresponding to 20 nM of trypsin, was demonstrated. Pretretment of enzymes with DFP or nonbiotinylated phosphonates specifically blocks the labeling. This technique permits identification of serine proteases in complex mixtures with good sensitivity and specificity.     

Generalizing a realization result of B. Zimmermann and K. B. Lee to infranilmanifolds

Let M be a closed infranilmanifold. We show that each finite subgroup G of the outer automorphism group Out ₁(M) admits a finite inflation pHG which can be effectively geometrically realized as a group of affine diffeomorphisms of M. This generalizes an analogous result obtained earlier for closed flat Riemannian manifolds by Lee ([7]) and Zimmermann ([12]). Using the Seifert construction we construct explicitly an example of such a manifold for which Nielsen's realization problem fails. This shows the need for such inflations and can be seen as a complementary example to those in [9].     

Virus Particles Monitored by Fluorescence Spectroscopy: A Potential Detection Assay for Macromolecular Assembly¶

Native fluorescence spectroscopy was used for in situ investigations of two lipid‐containing bacteriophages from the cystovirus family as well as their Pseudomonad host cells. Both the viruses φ6 and φ12 and their bacterial host proteins contain the amino acid tryptophan (trp), which is the predominant fluorophore in UV. Within proteins, trp's structural environment differs, and the differences are reflected in their spectroscopic signatures. It was observed that the peak of the trp emission from both viruses was at 330 nm, a significantly shorter wavelength than trp in either the Pseudomonad host cells or the amino acid's chemical form. This allowed us to monitor the viral attachment process and subsequent lytic release of progeny virus particles by measurement of the trp emission spectra during the infection process. This work demonstrates that fluorescence may offer a novel tool to detect viruses and monitor viral infection of cells and may be part of a biodefense application.     

Infrared spectroscopic properties of water molecules dissolved in some oxygen bases

The infrared spectra in the OH-stretching and HOH-bending regions of H₂O, and in the OH-stretching region of HDO dissolved in a number of ketones and ethers have been recorded. The number of component bands and their wavenumbers, halfwidths and intensities, as well as the total OH-stretching intensity in each solvent, have been interpreted in terms of a model for the types of hydrogen bonded solvent:water complexes formed in these systems.The effect of temperature on the spectra of H₂O in some of the ketones has been rationalized on the basis of the equilibrium existing between the different hydrogen bonded species present in solution.     

Monte Carlo simulations of the solution structure of simple alcohols in water-acetonitrile mixtures

Monte Carlo simulations have been performed to explore the solution structure of ethyl, isopropyl, isobutyl, and tertiary butyl alcohols in pure water, pure acetonitrile, and different mixtures of the two solvents. The explicit solvent studies in NpT ensembles at T = 298 K illustrate that the solute "discriminates" the solvent's components and that the composition of the first solvation shell differs from that of the bulk solution. Since the polarizable continuum dielectric method (PCM) does not presently model the solvation of molecules with both polar and apolar sites in mixed protic solvents, we suggest a direction for further program development wherein a continuum dielectric method would accept more than one solvent and the solute sites would be solvated by user-defined solvent components. The prevailing solvation model will be determined upon the lowest free energy calculated for a particular solvation pattern of the solute having a specific conformational/tautomeric state. Characterization of equilibrium hydrogen-bond formation becomes a complicated problem that depends on the chemical properties of the solute and its conformation, as well as upon the varying nature of the first solvation shell. For example, while the number of hydrogen bonds to secondary and tertiary alcohol solutes are nearly constant in pure water and in water-acetonitrile mixtures with at least 50% water content, the number of hydrogen bonds to primary alcohols gradually decreases for most of their conformations when acetonitrile content is increased. Nonetheless, the calculations indicate that O-H...O(water) hydrogen bonds are still possible in a small fraction of the arrangements for the solution models with water content of 30% or less. The isopentene solute does not form any observable hydrogen bonds, despite having an electron-rich, double-bond site.     

ESR STUDY OF ORIENTED TRIPLET MOLECULES GENERATED BY EXCITATION WITH POLARIZED LIGHT

Abstract— The lowest-lying triplet states of a variety of aromatic molecules and complexes have been generated by the irradiation of these compounds in solvent glasses with plane-polarized light. Measurements of the allowed (Δ M=± 1) ESR transitions clearly demonstrate that the triplets so formed are oriented with respect to the external magnetic field. By this method the triplet zero-field splitting parameters, D and E , can be evaluated simply and reliably. Intramolecular energy transfer is postulated to explain the triplet spectra of Zn( o -phen)₂(NO₃)₂ and Zn( o -phen)₃(NO₃)₂. It was observed that in triplet-triplet energy transfer from benzophenone to naphthalene there is no apparent orientation requirement between the donor and acceptor molecules. Further areas of significance and application of this technique are suggested.     

Phosphaalkynes—Syntheses,Reactions, Coordination Behavior [New Synthetic Methods (73)]

Organophosphorus compounds have been applied in two ways in chemical synthesis. They can either be used as a reagent in a step of the synthesis (for example, in the Wittig reaction) or they can be incorporated directly into the target molecule. This second application, in particular, has expanded greatly in the last few years with the preparation of low-coordination phosphorus compounds. These include the phosphaalkynes, which are of great interest to organic and inorganic chemists. Phosphaalkynes have been employed in the synthesis of heterocyclic compounds, phosphaarenes and their valence isomers, and polycyclic compounds. Further applications have been the use of phosphaalkynes as new ligand systems in complex chemistry and their cyclooligomerization with organometallic reagents. While the chemical properties of phosphaalkynes have little in common with those of nitriles, they are in many ways very similar to those of the isoelectronic acetylenes.     

Synthèse de flavones et de xanthones dans la série du benzo[4,5]thiophène

We describe the first synthesis of 2-arylbenzo[4,5]thieno-[2,3-b]pyran-4-one and of 2-arylbenzo [4,5] thieno [3,2-b] pyran-4-one, from benzo [4,5] thiophene and we have extended these cyclizations to obtain the heterocyclic analogs of the xanthones.