Structure of exo,exo-2,3-endo,endo-5,6-tetrabromobicycloheptane

The X-ray crystal structure analysis of the title compound, exo,exo-2,3-endo,endo-5,6-tetrabromobicycloheptane, C₇H₈Br₄, which is a product of high temperature bromination of norbornadiene, shows that the skeleton of the molecule is not changed after two bromine molecules are added via successive bromination reactions. The addition of Br₂ to both double bonds occurs (contrary to our expectation) in a syn fashion. It crystallizes in the orthorhombic space group Pbca with a = 15.688(2), b = 13.345(2), c = 9.461(1) Å, V = 1980.7(3) ų, Z = 8 and Dx = 2.762 gcm^–3.     

Brownian dynamics simulations of the reactions of hydrated electrons with components of DNAs and a DNA double-helix

As a first step toward developing simulation models for studying the indirect mechanism of radiation damage to DNAs, we have carried out Brownian dynamics simulations to study the reactions of hydrated electrons with a 12-base-pair B-DNA, (dA)₁₂(dT)₁₂, and with bases, monodeoxynucleotides, and polydeoxynucleotides. We first studied in detail the sensitivity of diffusion reaction rate constants to different model and simulation parameters. Based on the sensitivity studies, a set of model and simulation parameters was obtained for the final production runs. The use of this set of parameters reduced the computational costs but delivered reasonably reliable results. The calculated reaction rate constants were in qualitative agreement with experiments. For the DNA double-helix, (dA)₁₂(dT)₁₂, the simulations demonstrated that hydrated electrons preferred to attack the two ends of the double-helix. Electrostatic interactions between the DNA and the hydrated electrons make the T strand more susceptible to attack than the A strand. The increased reactivity of the T strand due to electrostatic interactions results from the increased reactivity of the C6 sites of the thymine bases, at the expense of the reactivity of the C8 sites of the adenine bases. The reactivity of the relatively buried reactive sites of the adenine and thymine bases are less affected by electrostatic interactions. © 1997 by John Wiley & Sons, Inc. J Comput Chem 18: 888–901, 1997     

Pyrolysis of β-hydroxyketones and α-ketoesters: Gas-phase elimination kinetics of 3-hydroxy-3-methyl-2-butanone and methyl benzoylformate

The rates of gas-phase elimination reactions of methyl benzoylformate ( 1 ) and 3-hydroxy-3-methyl-2-butanone ( 2 ) were obtained at T = 600 K. The two substrates undergo unimolecular first-order elimination for which the Arrhenius equations are, respectively, log k = 13.2 − 53270/(4.574 × 600) for ( 1 ) and log k = 12.4 − 53060/(4.574 × 600) for ( 2 ). The products of pyrolysis of ( 1 ) are benzaldehyde, formaldehyde and CO, while those of ( 2 ) are acetaldehyde and acetone. The kinetics of the elimination reactions show benzoylformic acid to be 10⁶-fold more reactive than ( 1 ), and pyruvic acid ca. 10⁵-fold more reactive relative to ( 2 ); an indication of the rate-controlling part played by the acidity of the hydrogen atom involved in the elimination process of the present compounds in this particular type of reaction. © 1997 John Wiley & Sons, Inc. Int J Chem Kinet 29: 295–298, 1997.     

Effects of the Three-Nucleon Forces from Different Meson Exchanges on the Triton Binding Energy

Effects of the three-nucleon forces on the triton binding energy are investigated using different models for which the xN scattering amplitudes for the off-mass-shell pions are extrapolated from the on-mass-shell data. In the independent model potential, the threenucleon forces are constructed using the chiral symmetry through partial conservation of the axial current vectors and current algebra. On the other hand, the three-nucleon forces in the dependent model potential are derived from an effective Lagrangian which is constrained by chiral and gauge symmetry. The effect of the long range 2π and the repulsive ap-exchange three-nucleon forces on the triton binding energy are investigated. The bound state triton binding energies are then calculated by solving the Faddeev equations with a Hamiltonian including the three-nucleon forces, using different nucleon-nucleon interactions. The pionic form factors are considered with different sets of the form factor cutoff,parameter Λ. The 2π-exchange forces with S- and P-wave amplitudes are found to overbind the triton binding energy by about 0.4～Y 1.6 MeV. However, xp-exchange forces are found to reduce the 2π exchange forces by about 18% of its contribution, to the triton binding energy.     

The Kynurenine Pathway and Kynurenine 3-Monooxygenase Inhibitors

Under normal physiological conditions, the kynurenine pathway (KP) plays a critical role in generating cellular energy and catabolizing tryptophan. Under inflammatory conditions, however, there is an upregulation of the KP enzymes, particularly kynurenine 3-monooxygenase (KMO). KMO has garnered much attention due to its production of toxic metabolites that have been implicated in many diseases and disorders. With many of these illnesses having an inadequate or modest treatment, there exists a need to develop KMO inhibitors that reduce the production of these toxic metabolites. Though prior efforts to find an appropriate KMO inhibitor were unpromising, the development of a KMO crystal structure has provided the opportunity for a rational structure-based design in the development of inhibitors. Therefore, the purpose of this review is to describe the kynurenine pathway, the kynurenine 3-monooxygenase enzyme, and KMO inhibitors and their potential candidacy for clinical use.     

Lysinibacillus Isolate MK212927: A Natural Producer of Allylamine Antifungal ‘Terbinafine’

Resistance to antifungal agents represents a major clinical challenge, leading to high morbidity and mortality rates, especially in immunocompromised patients. In this study, we screened soil bacterial isolates for the capability of producing metabolites with antifungal activities via the cross-streak and agar cup-plate methods. One isolate, coded S6, showed observable antifungal activity against Candida (C.) albicans ATCC 10231 and Aspergillus (A.) niger clinical isolate. This strain was identified using a combined approach of phenotypic and molecular techniques as Lysinibacillus sp. {"type":"entrez-nucleotide","attrs":{"text":"MK212927","term_id":"1520090447"}}MK212927. The purified metabolite displayed fungicidal activity, reserved its activity in a relatively wide range of temperatures (up to 60 °C) and pH values (6–7.8) and was stable in the presence of various enzymes and detergents. As compared to fluconazole, miconazole and Lamisil, the minimum inhibitory concentration of the metabolite that showed 90% inhibition of the growth (MIC₉₀) was equivalent to that of Lamisil, half of miconazole and one fourth of fluconazole. Using different spectroscopic techniques such as FTIR, UV spectroscopy, 1D NMR and 2D NMR techniques, the purified metabolite was identified as terbinafine, an allylamine antifungal agent. It is deemed necessary to note that this is the first report of terbinafine production by Lysinibacillus sp. {"type":"entrez-nucleotide","attrs":{"text":"MK212927","term_id":"1520090447"}}MK212927, a fast-growing microbial source, with relatively high yield and that is subject to potential optimization for industrial production capabilities.     

Bioactivities and Mode of Actions of Dibutyl Phthalates and Nocardamine from Streptomyces sp. H11809

Dibutyl phthalate (DBP) produced by Streptomyces sp. {"type":"entrez-nucleotide","attrs":{"text":"H11809","term_id":"876629"}}H11809 exerted inhibitory activity against human GSK-3β (Hs GSK-3β) and Plasmodium falciparum 3D7 (Pf 3D7) malaria parasites. The current study aimed to determine DBP’s plausible mode of action against Hs GSK-3β and Pf 3D7. Molecular docking analysis indicated that DBP has a higher binding affinity to the substrate-binding site (pocket 2; −6.9 kcal/mol) than the ATP-binding site (pocket 1; −6.1 kcal/mol) of Hs GSK-3β. It was suggested that the esters of DBP play a pivotal role in the inhibition of Hs GSK-3β through the formation of hydrogen bonds with Arg96/Glu97 amino acid residues in pocket 2. Subsequently, an in vitro Hs GSK-3β enzymatic assay revealed that DBP inhibits the activity of Hs GSK-3β via mixed inhibition inhibitory mechanisms, with a moderate IC₅₀ of 2.0 µM. Furthermore, the decrease in K_m value with an increasing DBP concentration suggested that DBP favors binding on free Hs GSK-3β over its substrate-bound state. However, the antimalarial mode of action of DBP remains unknown since the generation of a Pf 3D7 DBP-resistant clone was not successful. Thus, the molecular target of DBP might be indispensable for Pf survival. We also identified nocardamine as another active compound from Streptomyces sp. {"type":"entrez-nucleotide","attrs":{"text":"H11809","term_id":"876629"}}H11809 chloroform extract. It showed potent antimalarial activity with an IC₅₀ of 1.5 μM, which is ~10-fold more potent than DBP, but with no effect on Hs GSK-3β. The addition of ≥12.5 µM ferric ions into the Pf culture reduced nocardamine antimalarial activity by 90% under in vitro settings. Hence, the iron-chelating ability of nocardamine was shown to starve the parasites from their iron source, eventually inhibiting their growth.     

Natural product propolis: chemical composition

The chemical composition of propolis from East Mediterranean (Hatay, Adana and Mersin) was studied in order to determine the major compounds by using GC-MS. In this study, the ethanolic extract of propolis prepared by mixing 1900mL 70% ethanol and 100g propolis was used. Chemical analysis of propolis extracts indicated that the propolis samples had high concentrations of the aromatic acids, esters and other derivatives which are responsible for the anti-bacterial, anti-fungal, anti-viral, anti-inflammatory and anti-cancer properties of propolis such as benzyl cinnamate, methyl cinnamate, caffeic acid, cinnamyl cinnamate and cinnamoylglcine besides the most common compounds as fatty acid, terpenoids, esters, alcohols hydrocarbons and aromatic acids.     

Synthesis,thermal reactivity,and kinetics of stabilized phosphorus ylides,part 2: [(Arylcarbamoyl)(cyano)methylene]triphenylphosphoranes and their thiocarbamoyl analogues

A series of five cyano(arylcarbamoyl) phosphorus ylides 2 and five cyano(arylthiocarbamoyl) phosphorus ylides 3 are prepared and fully characterized. Pyrolytic reaction products of a representative example of each type obtained by flash vacuum pyrolysis technique show that they undergo thermal extrusion of Ph₃PO or Ph₃PS. Kinetic study of the gas‐phase pyrolysis of each ylide by static method shows that these reactions are unimolecular and first order with no significant substituent effect, but the thiocarbamoyl ylides 3 react 40–65 times more rapidly than their carbamoyl analogues 2 . © 2006 Wiley Periodicals, Inc. Int J Chem Kinet 38: 496–502, 2006     

Coupled bending and torsional vibration of a beam with in-span and tip attachments

In this paper, the coupled flexural-torsional free and forced vibrations of a beam with tip and/or in-span attachments are studied. First, a mathematical model is established, which consists of a beam with several tip attachments, i.e, a tip mass of non-negligible dimensions, a linear spring grounding the tip mass, and a torsional spring connected at the end of the beam. The modal functions of this model and the orthogonality condition among them are derived. For the purpose of verification the properties of the tip attachments are changed, and the numerical results obtained are compared with those given in the relevant literature. Effects of tip mass and distributed mass in-span on natural frequencies and modes are investigated for two cantilever beams with different cross sections. An application of the orthogonality condition in the case of a beam with tip mass is also presented for a forced vibration example.