CuII binding sites located at His-96 and His-111 of the human prion protein: thermodynamic and spectroscopic studies on model peptides

The prion protein (PrP) is a Cu(2+)-binding cell-surface glycoprotein. Using PrP peptide fragments, by means of potentiometric, spectroscopic and thermodynamic techniques, we have shown that Cu(2+) ions bind to the region comprising His-96, His-111 and the octarepeat domain within residues 60-91. Cu(2+) may bind in different modes, which strongly depend both on His position within the peptide sequence and on the adjacent residues. We have used a series of protected oligopeptides having His at the C- or the N-terminus, inducing different binding modes to amide nitrogens around the His residue, either towards the N- or C-terminus. His imidazole acts as an anchoring site for Cu(2+) and then binding to ionized amide nitrogens follows. When it is directed towards the C-terminus the formation of a less stable seven-membered chelate ring with a {N(im), N(-)} binding mode occurs. When coordination goes towards the N-terminus the thermodynamically more stable six-membered chelate ring is formed. NMR data suggest that both the coordination modes are possible for the model peptides; however, the thermodynamic measurements show that they only slightly differ in energy and the influence of the adjacent amino acid residues can address the coordination toward the C- or the N-terminus.     

Adsorption of benzene, fluorobenzene and meta-di-fluorobenzene on Cu(110): a computational study

We modelled the adsorption of benzene, fluorobenzene and meta-di-fluorobenzene on Cu(110) by Density Functional Theory. We found that the adsorption configuration depends on the coverage. At high coverage, benzene assumes a tilted position, while at low coverage a horizontal slightly distorted geometry is favoured. Functionalizing the benzene ring with one or two fluorine atoms weakens the bonding to the surface. A rotation is induced, which decreases the distance of the fluorine atom from the surface. STM simulations reveal that details about both, benzene adsorption geometry and fluorine position, can be only detected at short tip-surface distances.     

Synthesis and complete assignment of the 1H and 13C NMR signals of some oxopyrancoumarin and oxofuropyrancoumarin derivatives

The synthesis of four pyranocoumarins starting from phloroglucinol and the complete (1)H and (13)C NMR assignment of seven pyranocoumarins has been performed using 1D and 2D NMR techniques including COSY, HMQC and HMBC experiments.     

Asymptotic decay under nonlinear and noncoercive dissipative effects for electrical conduction in biological tissues

We consider a nonlinear model for electrical conduction in biological tissues. The nonlinearity appears in the interface condition prescribed on the cell membrane. The purpose of this paper is proving asymptotic convergence for large times to a periodic solution when time-periodic boundary data are assigned. The novelty here is that we allow the nonlinearity to be noncoercive. We consider both the homogenized and the non-homogenized version of the problem.     

Free volume from molecular dynamics simulations and its relationships to the positron annihilation lifetime spectroscopy

The free volume micro-structural properties of propylene glycol obtained by means of molecular dynamics simulations have been investigated and compared with the experimental data from positron annihilation lifetime spectroscopy (PALS). The results are also compared to those recently obtained on glycerol. The bulk microstructures of the samples have been analyzed in the temperature range 100–350 K with a probe-based procedure for exploring the free volume cavities of the microstructures. The basic free volume property, i.e., mean cavity volume, is compared with the hole volume data from PALS. A comparison between calculated and experimental data suggests the existence of a threshold volume for the smallest cavity detectable by PALS, which may be ascribed to fast local motions of the matrix constituents. At high temperatures the cavity analysis reveals the formation of an infinite cavity, i.e., percolation phenomenon. The onset temperatures of the percolation process in propylene glycol and glycerol are found to be close to the characteristic PALS temperature \(T^{\rm L}_{\rm b2}\) , where a pronounced change in the PALS response occurs, as well as to the characteristic dynamic Schönhals temperature \(T^{\rm SCH}_{\rm B}\) , and Stickel’s temperature \(T^{\rm ST}_{\rm B}\) , marking a dramatic change in the primary α properties.     

Full-fledged proteomic analysis of bioactive wheat amylase inhibitors by a 3-D analytical technique: Identification of new heterodimeric aggregation states

Wheat proteinaceous alpha-amylase inhibitors (alpha-AIs) are increasingly investigated for their agronomical role as natural defence molecules of plants against the attack of insects and pests, but also for their effects on human health. The wheat genomes code for several bioactive alpha-AIs that share sequence homology, but differ in their specificity against alpha-amylases from different species and for their aggregation states. Wheat alpha-AIs are traditionally classified as belonging to the three classes of tetrameric, homodimeric and monomeric forms, each class being constituted by a number of polypeptides that display different electrophoretic mobilities. Here we describe a proteomic approach for the identification of bioactive alpha-AIs from wheat and, in particular, a 3-D technique that allows to best identify and characterize the dimeric fraction. The technique takes advantage of the thermal resistance of alpha-AIs (resistant to T > 70 degrees C) and consists in the separation of protein mixtures by 2-D polyacrylamide/starch electrophoresis under nondissociating PAGE (ND-PAGE, first dimension) and dissociating (urea-PAGE or U-PAGE second dimension) conditions, followed by in-gel spontaneous reaggregation of protein complexes and identification of the alpha-amylase inhibitory activity (antizymogram, third dimension) using enzymes from human salivary glands and from the larvae of Tenebrio molitor coleopter (yellow mealworm). Dimeric alpha-AIs from Triticum aestivum (bread wheat) were observed to exist as heterodimers. The formation of heterodimeric complexes was also confirmed by in vitro reaggregation assays carried out on RP-HPLC purified wheat dimeric alpha-AIs, and their bioactivity assayed by antizymogram analysis. The present 3-D analytical technique can be exploited for fast, full-fledged identification and characterization of wheat alpha-AIs.     

Evaluation of different polymerase chain reaction methods for the identification of Vibrio parahaemolyticus strains isolated by cultural methods

Control of contamination by Vibrio parahaemolyticus in fishery products is often hampered by the lack of standardized methods and by the uncertainty associated with biochemical identification of the isolates. In this study, 5 polymerase chain reaction (PCR) methods for the identification of V. parahaemolyticus to the species level were evaluated by using 25 Vibrio reference strains and 163 isolates from fishery products, environmental sources, and clinical samples. Sequence targets of the methods were toxR, gyrB, and tlh genes (tested with 2 protocols), and the fragment pR72H. Isolate identification was confirmed by sequencing of the 16S rRNA gene and by PCR protocols for the identification of other Vibrio species. The PCR assay targeting the toxR gene achieved the highest performance (100% inclusivity and exclusivity). The 2 PCR protocols based on tlh gene detection, although showing the same inclusivity (100%), differed in the exclusivity (50 and 91%, respectively). Finally, the results provided by the PCR assays targeting the gyrB gene and pR72H fragment were less reliable and, in some cases, difficult to assess. According to the results of this study, the characteristics of accuracy expressed by the toxR identification method make it a suitable candidate as a reference method for the molecular identification of V. parahaemolyticus strains.     

2-substituted benzofuran fragment ion formation in the electron ionization mass spectra of 6-alkyl- and 6-aryldibenzo(d,f)(1,3)dioxepine derivatives. 1. Spirocyclization of the molecular ions in the gas phase

The formation of 2-substituted benzo[b]furan ions in the electron ionization (EI) mass spectra of a series of 6-alkyl- and 6-aryldibenzo(d,f)(1,3)dioxepines has been studied by means of exact mass measurements and multiple-stage mass spectrometry conditions using an ion trap mass spectrometer. The proposed mechanism of formation of benzo[b]furan ions requires the formation of a spirocyclic cyclohexadienone system, which undergoes elimination of a cyclopentadienone molecule. A parallel with the chemical conversion of arylmethyl-substituted dibenzo(d,f)(1,3)dioxepines into an analogous spirocyclic system was also underlined.     

Hysteresis in phase‐field models with thermal memory

Phase‐field systems as mathematical models for phase transitions have drawn increasing attention in recent years. However, while capable of capturing many of the experimentally observed phenomena, they are only of restricted value in modelling hysteresis effects occurring during phase transition processes. To overcome this shortcoming, a new approach has recently been proposed by the last two authors which is based on the mathematical theory of hysteresis operators developed in the past fifteen years. In this paper this approach is extended to cases where the material exhibits an additional thermal memory, i.e. where the heat flux contains a time convolution of the spatial gradient of temperature. It is shown that the corresponding system of field equations admits a unique strong solution that depends continuously on the data of the system. Copyright © 2000 John Wiley & Sons, Ltd.     

Self‐assembly of mono‐ and multilayers of polyconjugated conducting polymers

To obtain organised mono‐ and multilayers of policonjugated polymers or oligomers by self assembly techniques has recently attracted much attention. This is due to the simplicity of the method and to the fact that no sophisticated apparatus is required. In the present feature the state of the art in this field is discussed including our own research results. A survey on self assembly of thiols, disulfides, and alkylsilanes on gold or glass surfaces is presented as well as self assembly of ferrocenylalkyl‐substituted heterocycle adsorbates on ITO surfaces. Carboxyalkyl bithiophenes and terthiophenes, in which the oligothiophene tail is either perpendicularly or linearly linked to the tethering carboxyalkyl chain form stable monolayers on ITO electrodes and are anodically oxidised to produce polymer layers or to couple with oligothiophenes in solution, depending on the structure. As for multilayers, an introductory survey on the self assembly technique usually employed is given. Several examples of multilayers constituted of electroconductive polymers are discussed. Finally our recent results concerning different multilayers from polythiophenes bearing anionic and cationic moieties are discussed.