Creating effective and visually engaging molecular animations can often be a daunting task for molecular modelers. Whether illustrating chemical transformations for presentations or facilitating a better understanding of molecular processes, getting individual atoms and bonds to appear at the right…

Molecular modelers often face the challenge of analyzing the energy profiles of molecular paths or trajectories. Understanding energy variations is crucial for evaluating molecular stability, reaction pathways, and interactions. However, comparing energy components, switching views, or adapting units often involves…

Center-of-mass (COM) pulling has become a practical tool for molecular modeling, especially for simulating molecular motion and generating valuable data for umbrella sampling. However, when setting up a pulling simulation, many modelers struggle with configuring an appropriately sized simulation box.…

For molecular modelers aiming to study shape dynamics, understanding how a molecular structure deviates from spherical symmetry along a path or trajectory can be an essential component of analysis. This is where the asphericity metric in SAMSON’s Path Analyzer becomes…

Protein preparation can be a meticulous and time-consuming process, especially when setting up docking workflows for structural modeling. Ensuring clean, well-optimized protein inputs is a crucial step for successful, accurate docking results. Fortunately, the FITTED Suite SAMSON Extension offers tools…

Installing SAMSON, the integrative molecular design platform, can be a seamless process. However, network setups requiring a proxy can introduce some complexities for molecular modelers eager to explore SAMSON’s advanced tools. If you’re behind a proxy and struggling to set…