Sridharamurthy, RaghavendraDoraiswamy, HarishPatel, SiddharthVaradarajan, RaghavanNatarajan, VijayMario Hlawitschka and Tino Weinkauf2014-01-262014-01-262013978-3-905673-99-9https://doi.org/10.2312/PE.EuroVisShort.EuroVisShort2013.067-071Voids and pockets in a protein refer to empty spaces that are enclosed by the protein molecule. Existing methods to compute, measure, and visualize the voids and pockets in a protein molecule are sensitive to inaccuracies in the empirically determined atomic radii. This paper presents a topological framework that enables robust computation and visualization of these structures. Given a fixed set of atoms, voids and pockets are represented as subsets of the weighted Delaunay triangulation of atom centers. A novel notion of (e;p)-stable voids helps identify voids that are stable even after perturbing the atom radii by a small value. An efficient method is described to compute these stable voids for a given input pair of values (e;p).I.3.6 [Computer Graphics]Computer GraphicsMethodology and Techniques