SADIC v2: A modern implementation of the Simple Atom Depth Index Calculator
Sara Marziali,
Giacomo Nunziati,
Alessia Lucia Prete,
Neri Niccolai,
Monica Bianchini
Affiliations
Sara Marziali
Department of Information Engineering and Mathematics (DIISM), University of Siena, Via Roma 56, 53100 Siena, Italy
Giacomo Nunziati
Department of Information Engineering and Mathematics (DIISM), University of Siena, Via Roma 56, 53100 Siena, Italy; Department of Information Engineering (DINFO), University of Florence, Via S. Marta 3, 50139 Florence, Italy; Correspondence to: University of Siena, Department of Information Engineering and Mathematics, Via Roma 56, 53100, Siena (SI), Italy.
Alessia Lucia Prete
Department of Information Engineering and Mathematics (DIISM), University of Siena, Via Roma 56, 53100 Siena, Italy; Fondazione Toscana Life Sciences, Via Fiorentina 1, 53100 Siena, Italy
Neri Niccolai
Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Via Aldo Moro 2, 53100 Siena, Italy
Monica Bianchini
Department of Information Engineering and Mathematics (DIISM), University of Siena, Via Roma 56, 53100 Siena, Italy
Protein structure analysis plays a primary role in understanding their biological functions. Being able to determine the atom depth index within the protein is crucial to gain insights into molecular interactions and structural stability. To address this need, the original version of Simple Atom Depth Index Calculator (SADIC) software was developed in 2006. However, with the rapid advancement of computational methodologies and the evolution of programming libraries, the original SADIC software has become obsolete and incompatible with modern computational environments. This is why we present SADIC v2, a modernized version of the software that is fully compatible and integrated with modern Python libraries.
