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12 February 2010 Modeling of biological nanostructured surfaces
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The paper presents a methodology using atom or amino acid hydrophobicities to describe the surface properties of proteins in order to predict their interactions with other proteins and with artificial nanostructured surfaces. A standardized pattern is built around each surface atom of the protein for a radius depending on the molecule type and size. The atom neighborhood is characterized in terms of the hydrophobicity surface density. A clustering algorithm is used to classify the resulting patterns and to identify the possible interactions. The methodology has been implemented in a software package based on Java technology deployed in a Linux environment.
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P. D. Cristea, Rodica Tuduce, O. Arsene, Alina Dinca, F. Fulga, and D. V. Nicolau "Modeling of biological nanostructured surfaces", Proc. SPIE 7574, Nanoscale Imaging, Sensing, and Actuation for Biomedical Applications VII, 75740F (12 February 2010);

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