104 research outputs found

    Determination of the association constant between the B domain of protein A and the Fc region of IgG

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    The aim of this work is the numerical modelling of the binding mechanism between the Fc region of human IgG interacting with the B domain of Staphylococcal protein A (SpA). The comprehension of the involved kinetics is of noticeable impact for immunosensor diagnostic applications and consequently contributes to increase the sensitivity and efficiency of such devices based on the immobilization of antibodies on biosensor surface. Brownian dynamics methodology is applied to simulate the Fc-SpA encounter. Then, the association rates k(on) and k(off) are estimated from the analysis of the diffusional motion between the Fc region and the B domain of SpA combined with continuum electrostatic calculations. Therefore, the association constant K-a between Fc and SpA is calculated. The behaviour of K-a is analysed taking into account the relative distance between SpA and the Fc fragments. The analyses also include the effects on the binding affinity between SpA and Fc due to the variation of the solvent ionic strength and pH values. The association rates and their analyses are presented and discussed showing that the binding mechanism between the SpA and the Fc fragments is enhanced by the nonpolar interaction, while dissociation is driven by the electrostatic repulsion that occurs at relatively low pH. The numerical estimation of the association constant will support the definition of robust protocols for the detection of antibodies via protein A. Copyright (C) 2014 John Wiley & Sons, Ltd

    recensione a P. Ricciulli, Rimbaud. Paesaggi oltre la memoria

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    "Il confronto letterario". Quaderni del Dpt. di Lingue e Letterature Straniere Moderne dell'Univ. di Pavia", Schena ed. ISSN 0985-7826-

    Driven diffusion against electrostatic or effective energy barrier across α-hemolysin

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    We analyze the translocation of a charged particle across an α-Hemolysin (αHL) pore in the framework of a driven diffusion over an extended energy barrier generated by the electrical charges of the αHL. A one-dimensional electrostatic potential is extracted from the full 3D solution of the Poisson's equation. We characterize the particle transport under the action of a constant forcing by studying the statistics of the translocation time. We derive an analytical expression of translocation time average that compares well with the results from Brownian dynamic simulations of driven particles over the electrostatic potential. Moreover, we show that the translocation time distributions can be perfectly described by a simple theory which replaces the true barrier by an equivalent structureless square barrier. Remarkably, our approach maintains its accuracy also for low-applied voltage regimes where the usual inverse-Gaussian approximation fails. Finally, we discuss how the comparison between the simulated time distributions and their theoretical prediction results to be greatly simplified when using the notion of the empirical Laplace transform technique
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