Mapping of possible prion protein self-interaction domains using peptide arrays

Background  

The common event in transmissible spongiform encephalopathies (TSEs) or prion diseases is the conversion of host-encoded protease sensitive cellular prion protein (PrP^C) into strain dependent isoforms of scrapie associated protease resistant isoform (PrP^Sc) of prion protein (PrP). These processes are determined by similarities as well as strain dependent variations in the PrP structure. Selective self-interaction between PrP molecules is the most probable basis for initiation of these processes, potentially influenced by chaperone molecules, however the mechanisms behind these processes are far from understood. We previously determined that polymorphisms do not affect initial PrP^C to PrP^Sc binding but rather modulate a subsequent step in the conversion process. Determining possible sites of self-interaction could elucidate which amino acid(s) or amino acid sequences contribute to binding and further conversion into other isoforms. To this end, ovine – and bovine PrP peptide-arrays consisting of 15-mer overlapping peptides were probed with recombinant sheep PrP^C fused to maltose binding protein (MBP-PrP).     

Spectral and electrochemical investigation of 1,8-diaminonaphthalene upon encapsulation of p-sulfonatocalix[4]arene

The ligand salt, Me₆[14]diene·2HClO₄ (L·2HClO₄) was prepared by condensation of acetone and ethylene diamine in the presence of perchloric acid. On reduction of this diene ligand salt, L·2HClO₄ with sodium borohydride, the two isomeric ligands, ‘tet-a’ and ‘tet-b’ were produced. The ligands, on reaction with ZnX₂ (X=Cl, ClO₄, NO₃ or CH₃COO) and ZnSO₄ produced the corresponding complexes. These complexes have been characterized on the basis of elemental analyses; IR, UV–Vis and ¹H-NMR spectroscopies; magnetic and conductance data. Based on these data, all of the complexes of the diene ligand L, as well as the perchlorate complexes of all of the ligands attained a square-pyramidal arrangement, whereas the complexes of ‘tet-a’ and ‘tet-b’, with X=NO₃, Cl or CH₃COO and with ZnSO₄ salt, were octahedral. Moreover, all complexes were monometallic except the nitrato complex, [(ZnL)₂(µ-NO₃)](ClO₄)₃ which is bimetallic. The structure of [(ZnL)₂(µ-NO₃)](ClO₄)₃ has been confirmed by X-ray crystallography. In this complex the zinc centres lie within a N₄O donor set, with the four nitrogen donors from L and one of the oxygen atom stemming from the bridging NO₃. The complexes show different electrolytic behavior in different solvents. The antibacterial activities of the ligands and complexes towards different phytopathogenic bacteria have been investigated.     

Studies on photoinduced effects in pulse-electrodeposited Ag/Hg-1212/CdSe hetero-nanostructures

Metal/superconductor/semiconductor (Ag/Hg-1212/CdSe) hetero-nanostructures have been fabricated using pulse-electrodeposition technique and are characterized by X-ray diffraction (XRD), full-width at half-maximum (FWHM) and scanning electron microscopy (SEM) studies. The junction capacitance of Ag/Hg-1212, Hg-1212/CdSe and Ag/Hg-1212/CdSe heterojunctions is measured in dark and under laser irradiation at room temperature. The nature of the junction formed and built-in-junction potentials were determined. The increase in carrier concentration across the junction due to photo-irradiation has been observed.     

Effect of laser irradiation of C-V characteristics of electrodeposited Ag/Tl-2223/CdSe hetero-nanostructures

One of the innovative technological directions for the high-temperature superconductors has been persued by fabricating the heteroepitaxial multilayer structures such as superconductor-semiconductor heterostructures. In the present investigation, metal/superconductor/semiconductor (Ag/Tl-2223/CdSe) hetero-nanostructures have successfully been fabricated using dc electrodeposition technique and were characterized by X-ray diffraction (XRD), full-width at half-maximum (FWHM) and scanning electron microscopy (SEM) studies. The measurement of junction capacitance as a function of biasing voltage was used for the estimation of junction built-in-potential (V _D) and to study the charge distribution in a heterojunction. The Mott-Schottky plots were measured for each junction in dark and under the photo-irradiation. The effect of laser irradiation on C-V characteristics of hetero-nanostructure has been studied.     

Spectral,electrochemical and computational investigations on the host–guest interaction of Coumarin-460 with <Emphasis Type="Italic">p</Emphasis>-sulfonatocalix[4]arene

The supramolecular host–guest investigation of Coumarin 460 (C460), a salient coumarin family dye molecule is studied with a noteworthy host molecule, p-sulfonatocalix[4]arene (p-SC4). The investigation is carried out by both experimental and theoretical approach. The binding affinity of C460 with p-SC4 is experimentally studied using absorption, emission, excited state lifetime and Cyclic Voltammetry methods. The binding constant is around 10³ M^??1, which shows potent binding. The binding stoichiometry is 1:1. The binding orientations and binding energies are studied using computational simulations. The mode of binding is also established using NMR spectral techniques.     

Electron Transfer Studies of Ruthenium(II) Complexes with Biologically Important Phenolic Acids and Tyrosine

The ruthenium(II) complexes having 2,2′-bipyridine and phenanthroline derivatives are synthesized and characterized. The photophysical properties of these complexes at pH 12.5 are studied. The electron transfer reaction of biologically important phenolic acids and tyrosine are studied using absorption, emission and transient absorption spectral techniques. Semiclassical theory is applied to calculate the rate of electron transfer between ruthenium(II) complexes and biologically important phenolic acids.     

Investigation of the upper rim binding of triphenylpyrylium cation with p-sulfonatocalix[4]arene

The interaction of 2,4,6-triphenylpyrylium cation with p-sulfonatocalix[4]arene is studied using absorption, emission, NMR and electrochemical techniques. The increase in the absorption is observed with the increase in the concentration of p-sulfonatocalix[4]arene. The emission intensity of 2,4,6-triphenylpyrylium cation is also enhanced in the presence of p-sulfonatocalix[4]arene. The electrochemical titration reveals the presence of host–guest interaction. The NMR analysis explains the upper rim interaction of 2,4,6-triphenypyrylium cation with p-sulfonatocalix[4]arene. The mode of binding is studied using computational methods. The quantum chemical simulations reveal the binding orientation of cationic TPP with p-SC4. The calculated complexation energy (??33.19 kcal mol^?1) indicates the strong binding nature of 2,4,6-triphenylpyrylium cation with p-sulfonatocalix[4]arene.     

Glycopeptide and Oligosaccharide Libraries

Despite the burgeoning interest in the various biological functions and consequent therapeutic potential of the vast number of oligosaccharides found in nature on glycoproteins and cell surfaces, the development of combinatorial carbohydrate chemistry has not progressed as rapidly as expected. The reason for this imbalance is rooted in the difficulty of oligosaccharide assembly and analysis that renders synthesis a rather cumbersome endeavor. Parallel approaches that generate series of analogous compounds rather than real libraries have therefore typically been used. Since generally low affinity is obtained for interactions between carbohydrate receptors and modified oligosaccharides designed as mimetics of natural carbohydrate ligands, glycopeptides have been explored as alternative mimics. Glycopeptides have been proven in many cases to be superior ligands with higher affinity for a receptor than the natural carbohydrate ligand. High-affinity glycopeptide ligands have been found for several types of receptors including the E-, P-, and L-selectins, toxins, glycohydrolases, bacterial adhesins, and the mannose-6-phosphate receptor. Furthermore, the assembly of glycopeptides is considerably more facile than that of oligosaccharides and the process can be adapted to combinatorial synthesis with either glycosylated amino acid building blocks or by direct glycosylation of peptide templates. The application of the split and combine approach using ladder synthesis has allowed the generation of very large numbers of compounds which could be analyzed and screened for binding of receptors on solid phase. This powerful technique can be used generally for the identification and analysis of the complex interaction between the carbohydrates and their receptors.     

Photoinduced Electron Transfer Reactions of Ruthenium(II)-Complexes Containing Amino Acid with Quinones

With the aim of mimicking, at basic level the photoinduced electron transfer process in the reaction center of photosystem II, ruthenium(II)-polypyridyl complexes, carrying amino acids were synthesized and studied their photoinduced electron transfer reactions with quinones by steady state and time resolved measurements. The reaction of quinones with excited state of ruthenium(II)-complexes, I–V in acetonitrile has been studied by luminescence quenching technique and the rate constant, k_q, values are close to the diffusion controlled rate. The detection of the semiquinone anion radical in this system using time-resolved transient absorption spectroscopy confirms the electron transfer nature of the reaction. The semiclassical theory of electron transfer has been successfully applied to the photoluminescence quenching of Ru(II)-complexes with quinones.