12 February 2010 Modeling of biological nanostructured surfaces
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Abstract
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, P. D. Cristea, Rodica Tuduce, Rodica Tuduce, O. Arsene, O. Arsene, Alina Dinca, Alina Dinca, F. Fulga, F. Fulga, D. V. Nicolau, D. V. Nicolau, } "Modeling of biological nanostructured surfaces", Proc. SPIE 7574, Nanoscale Imaging, Sensing, and Actuation for Biomedical Applications VII, 75740F (12 February 2010); doi: 10.1117/12.839480; https://doi.org/10.1117/12.839480
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