Author: OneAngstrom

Visualizing atom motion is one of the most informative aspects of molecular modeling, but accurately keeping track of atomic positions across a custom animation or simulation can be tedious or error-prone. If you’ve ever tried to illustrate a docking process,…

Creating engaging molecular animations often means going beyond static visuals and tapping into smooth, precise camera movements. For molecular modelers preparing presentations, visualizations, or educational content, one constant challenge is showing structural complexity—such as layers of biomolecular assemblies or vertical…

For many molecular modelers, running heavy simulations locally can be time-consuming and computationally expensive. That’s why cloud-based services like AlphaFold, NVIDIA BioNeMo, or GROMACS, integrated into SAMSON, have become increasingly popular. However, once your job finishes running in the cloud,…

If you’ve ever clicked a button in your molecular modeling process and instantly regretted it, you’re not alone. Trial and error is part of any design process, but in molecular modeling, mistakes can be costly—in time, in effort, and in…

When working on complex molecular models, visual clarity can make all the difference. If your structures are crowded with overlapping labels and measurements, it becomes harder to analyze your data, communicate your findings, or even stay focused. Fortunately, SAMSON provides…

When working with large biomolecular systems using GROMACS, it’s often necessary to define custom index groups—for example, to specify pull groups for umbrella sampling, analyze specific subsets of atoms, or apply restraints. But creating these groups manually using gmx make_ndx…

When visualizing molecular systems and presenting dynamics to collaborators, students, or in publications, clarity and focus matter. One subtle yet powerful tool in the molecular modeler’s toolkit is the ability to rotate a selected group of particles around its geometric…