Adding lipid bilayers around membrane proteins is often a crucial step in setting up biologically relevant molecular dynamics simulations. But manually constructing these bilayers can be a tedious and error-prone task, especially when trying to avoid overlaps or ensure correct…

When studying complex molecular systems, clarity is key. Whether presenting research, teaching, or navigating your own data-rich models, the ability to differentiate components visually can make all the difference. This is where color palettes play a crucial role. SAMSON provides…

When designing new molecules, small changes can make a big difference. Medicinal chemists often tweak functional groups or atoms to study how modifications affect binding properties, solubility, or selectivity. But making these changes manually — especially across multiple sites in…

One common challenge in protein-protein docking is the overwhelming number of false positives generated during the search phase. These incorrect poses can significantly slow down interpretation and reduce confidence in your results. A practical strategy to minimize this issue is…

Communicating the subtle motion of molecular systems over time can be a challenge. Whether you’re refining a drug candidate through conformational sampling or analyzing a simulation trajectory frame by frame, one of the key difficulties for molecular modelers is presenting…

Membrane proteins are notoriously tricky to simulate, in part because preparing a realistic environment around them can be a frustrating and time-consuming process. Modeling a lipid bilayer around a transmembrane protein usually requires specialized tools, scripting skills, and plenty of…