Measuring proteins and voids in proteins
نویسندگان
چکیده
Common geometric models for proteins and other molecules are the space filling diagram, the solvent accessible surface, and the molecular surface. We descnbe software that compules metric properties of these models, including volume and surface area. It also measures voids or empty space enclosed by the protein, and it keeps track of surface area contributions of individual atoms. The software is based on J-dimensional alpha complexes and on inclusion-exclusion formulas with terms derived from the simplices in this complex. The so,ftware is available via anonymous ftp at
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