One of the common challenges faced by molecular modelers is effectively analyzing and presenting molecular trajectories. Sometimes, you might want to replay a molecular simulation or transition path in reverse to gain additional insights or create visually engaging presentations. Thankfully,…

If you are a molecular modeler, you are likely all too familiar with the challenge of efficiently navigating and managing molecular sequences alongside their 3D structures. Switching back and forth between sequence information and structural representations can slow down workflows.…

Simulating protein motions with high precision requires well-defined parameters, and the sampling box plays a crucial role in determining the outcomes. If you’re a molecular modeler struggling to set up an accurate sampling region for As-Rigid-As-Possible (ARAP) methods in SAMSON’s…

For molecular modelers, defining the sampling box for finding ligand unbinding pathways can be a tricky process. A well-defined sampling region plays a crucial role in obtaining meaningful pathways and avoiding wasted computation on irrelevant regions. Luckily, SAMSON’s Ligand Path…

For molecular modelers, one of the most common challenges lies in efficiently setting up and running molecular simulations. The Universal Force Field (UFF) in SAMSON simplifies this process by automating key steps and offering an interactive simulation interface. Let’s break…

For molecular modelers, showcasing complex molecular systems in an intuitive and visually engaging way is crucial. But what if you need to focus on specific components by removing distractions, smoothly fading others into the background? The ‘Disappear’ animation in SAMSON…

Unlocking Precision with the Node Specification Language (NSL) in SAMSON For molecular modelers, the ability to efficiently navigate and identify specific molecular structures, atoms, or attributes within a large dataset can be a significant challenge. Selecting relevant nodes—such as ligands,…