Proteins are large organic compounds made of amino acids arranged in a linear chain (primary structure). Most proteins fold into unique threedimensional (3D) structures called inte...
Marco Vassura, Luciano Margara, Filippo Medri, Pie...
Motivation: Evaluating the accuracy of predicted models is critical for assessing structure prediction methods. Because this problem is not trivial, a large number of different as...
Naomi Siew, Arne Elofsson, Leszek Rychlewski, Dani...
In this paper, we propose a simple genetic algorithm for finding the optimal conformation of a protein using the three-dimensional square HP model. A backtracking procedure is use...
Background: Experimentally determined protein structures may contain errors and require validation. Conformational criteria based on the Ramachandran plot are mainly used to disti...
Background: The PD-(D/E)XK nuclease superfamily, initially identified in type II restriction endonucleases and later in many enzymes involved in DNA recombination and repair, is o...