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When working with complex molecular systems, it’s common to want to optimize the geometry of only a specific part of a molecule—without disturbing the rest of the structure. This can be especially useful during refinement workflows, local repairs in crystal…

When visualizing complex molecular systems, even small movements in camera angles or target positions can create confusion. You may want to zoom in on a receptor-binding pocket, for instance, without altering the perspective or the background. Maintaining a fixed target…

One common challenge in molecular modeling is visualizing conformational changes between known states of a complex biomolecule—especially when those changes reveal key biological functions, such as viral infection mechanisms. If you’ve ever worked with large protein structures that undergo dramatic…

When preparing molecular animations and presentations, many researchers and students struggle to create clear and engaging visual sequences that effectively communicate structural features and motions. A recurring challenge is how to rotate parts of a molecular system smoothly and precisely,…

When building molecular structures, one of the recurring challenges for molecular modelers is precisely controlling how fragments connect — especially when assembling complex molecules. Poorly oriented fragments can lead to atomic clashes, unrealistic geometries, or tedious manual corrections. Fortunately, SAMSON…

Long hours in front of glowing molecules can take their toll. If you’re a molecular modeler working late into the night, or simply prefer a more comfortable visual environment, SAMSON’s Dark mode preferences may help reduce eye strain and give…

When preparing molecular animations, every detail can affect clarity and impact. If you’ve ever wanted to make a model gradually appear—rather than just pop into view—the Appear animation in SAMSON can help you do just that. This subtle visual effect…

When working with proteins in PDB format, one of the recurring challenges is understanding how a structure fits into its larger biological context. Many deposition files contain only an asymmetric unit—just a fragment of the full biological assembly. This often…

Understanding molecular motion is crucial in structural biology and molecular design, especially when studying protein-ligand interactions or conformational transitions. But modeling flexible structures like the SARS-CoV-2 spike protein can be technically challenging and time-consuming. Knowing how to simulate such motions…