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Proceedings Paper

Hydrophobicity and charge nanoscale imaging of protein surfaces
Author(s): Paul Dan Cristea; Octavian Arsene; Rodica Tuduce; Dan V. Nicolau
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Paper Abstract

The paper presents an image-oriented modality to functionally describe articially and biologically nanostruc- tured surfaces, which can be used for the characterization of the atom neighborhoods on the surface of proteins. The both properties,hydrophobicity and charge distribution on protein surface, are analyzed in this paper. The actual discrete hydrophobicity and charge distribution attached to the atoms that form a surface atom's vicinity is replaced by an approximately equivalent density distribution, computed in a standardized octagonal pattern around each atom. These representations of hydrophobicities and charges are used to compute the resemblance of surface atom neighborhoods belonging to a protein, dened as the sum of the products of hydrophobicity densities of the corresponding patches (the pattern's central circles or angular sectors having the same position). The similitude and the interaction of a pair of atom neighborhoods are dened as their resemblance for parallel, respectively, anti-parallel orientations of the normals on the molecular surfaces in the points where the central atoms are located. Surface atom neighborhoods have been classied in terms of both resemblance and vector description.

Paper Details

Date Published: 2 February 2012
PDF: 9 pages
Proc. SPIE 8231, Nanoscale Imaging, Sensing, and Actuation for Biomedical Applications VIII, 82310D (2 February 2012); doi: 10.1117/12.928342
Show Author Affiliations
Paul Dan Cristea, Polytechnical Univ. of Bucharest (Romania)
Octavian Arsene, Polytechnical Univ. of Bucharest (Romania)
Rodica Tuduce, Polytechnical Univ. of Bucharest (Romania)
Dan V. Nicolau, Univ. of Liverpool (United Kingdom)

Published in SPIE Proceedings Vol. 8231:
Nanoscale Imaging, Sensing, and Actuation for Biomedical Applications VIII
Alexander N. Cartwright; Dan V. Nicolau, Editor(s)

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