SADIC v2: A modern implementation of the Simple Atom Depth Index Calculator

Abstract

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.

Keywords

• Protein structure
• Atom depth
• Atom accessibility
• Molecular biology