SAMSON Blog – Page 137

Getting Academic Access in SAMSON: What You Need to Know

For students, researchers, and educators who are exploring molecular modeling, SAMSON can be a powerful partner in your work. But did you know that SAMSON offers academic access that unlocks additional features and discounts? If you’re affiliated with an academic…

A cleaner way to show and hide molecules in animations

OneAngstrom

Creating molecular animations is a powerful way to communicate structural changes, reaction mechanisms, or simply highlight important features in a model. But if you’ve ever tried synchronizing object appearances in time during an animation, you know it can get messy.…

Animating Molecular Docking with Clarity and Control

OneAngstrom

Molecular docking is a fundamental part of computational chemistry and drug design workflows. But when you want to visualize docking events—whether for a presentation, teaching, or analysis—it can feel surprisingly tedious to make atoms move smoothly and meaningfully in 3D…

Choosing the Right Symmetry Group in Molecular Assemblies

OneAngstrom

When working with large molecular assemblies like protein complexes or viral capsids, symmetry can act as a powerful ally. Recognizing repeating patterns through symmetry detection can simplify analyses, reduce computational demands, and enhance interpretation of experimental data. But what happens…

Exporting Molecular Data Doesn’t Have to Be a Hassle

OneAngstrom

Exporting molecular structures and visualizations is a common task for molecular modelers—whether to share simulation results, create publication-ready images, or prepare input files for other tools. Yet, dealing with incompatible formats and clunky export pipelines can easily become frustrating. SAMSON,…

Quickly Find Conformations with Over 100 Atoms Using NSL

OneAngstrom

When working with large molecular systems or ensembles of conformations, it’s common to face the challenge of filtering specific structures based on their size. For example, a modeler might want to isolate conformations with more than 100 atoms, or those…

Choosing the Right Unit Cell Shape Can Significantly Speed Up Your Simulations

OneAngstrom

Periodic boundary conditions are fundamental for molecular dynamics simulations. They let us simulate a small region of a much larger system, avoiding edge effects. But here’s something that often gets overlooked: the shape of the unit cell you choose matters—a…

Control Visibility in Molecular Videos with the ‘Shown’ Animation in SAMSON

OneAngstrom

Creating effective molecular animations often means more than just spinning a molecule or changing its size. Communicating a precise scientific idea might require revealing specific structures at key moments. But how do you do this without compromising visual clarity or…

Making Sense of Molecules: A Guide to Visual Models in SAMSON

OneAngstrom

When working with complex nanosystems, one of the biggest challenges scientists and engineers face is how to efficiently visualize and interact with molecular structures. It’s not just about seeing atoms and bonds — we need to understand higher-level organization, surface…

Bringing Order to Molecules: Aligning Structures in the Global Frame with SAMSON

OneAngstrom

When loading molecular structures into SAMSON, you may find yourself dealing with scattered orientations or off-center models. This seemingly minor layout issue can become an obstacle when you want to build larger systems, compare multiple conformations, or prepare your scene…