Running molecular dynamics (MD) simulations is a key task in computational biology, but not everyone has the local computing power to handle them efficiently—especially when dealing with complex systems or long timescales. This is where cloud computing can make a…

One of the most common challenges molecular modelers face when preparing docking simulations is the correct definition of the binding site. Whether you’re performing traditional ligand docking or exploring covalent inhibitors, inaccuracies in binding site selection can significantly affect your…

Science communication and molecular modeling often meet at the intersection of clarity and visual storytelling. If you’ve ever prepared an animation to present a molecular assembly or a binding process, you may have faced the challenge of drawing attention to…

One common challenge in molecular modeling is building large repetitive structures — polymer chains, nanotubes, supramolecular assemblies — without spending hours duplicating and aligning fragments manually. If you’ve ever zoomed in and out hundreds of times just to place identical…

Monitoring how ligands move through complex molecular structures is a common yet challenging task in computational chemistry and structural biology. Whether you’re analyzing unbinding events, comparing pathways, or preparing visual reports, the ability to track the motion of a molecule…

In molecular modeling, clarity is everything. When working with complex molecular systems, it’s often necessary to focus your audience’s attention on specific regions or simplify the visual burden by removing certain atoms or bonds from view. However, simply hiding atoms…

Researchers and modelers often face a common challenge: compatibility. Whether you’re working with a specific SAMSON Extension, following a reproducible workflow, or using a system with legacy software constraints, sometimes the latest version of SAMSON is not the best fit.…