Author: OneAngstrom

Minimizing the energy of your protein structure is a key prerequisite for accurate conformational path planning — yet it’s commonly overlooked or misunderstood. Whether you’re visualizing transitions between functional states or exploring conformational flexibility, starting from a minimized structure can…

When comparing proteins across species or mutations, understanding the conserved and variable regions can be critical for tasks like predicting functional sites, studying evolution, or preparing templates for homology modeling. However, managing both sequence and structural alignments can be unwieldy,…

For molecular modelers, one of the first and most crucial steps in any workflow is importing data. Whether you’re working with crystal structures, electron densities, or simulation outputs, starting off with the correct file format is essential. But what happens…

When modeling nanoscale systems, one recurring challenge is replicating molecular units along a specific direction with precision. Whether building DNA-inspired nanostructures, polymer chains, or carbon nanotubes, manually duplicating and aligning units is both time-consuming and error-prone. The Linear Pattern Editor…

Understanding ligand unbinding pathways can be a complex process, but once you’ve spent time simulating this motion with SAMSON’s Ligand Path Finder, the next step is often just as important: exporting the results. If you’re a molecular modeler trying to…

Producing clear and informative molecular visuals can be challenging when you’re limited by dull or overly simplified representations. If you’re working on molecular simulations, drug discovery, or simply trying to better illustrate complex biomolecular interactions, having control over how your…

When creating molecular presentations, visual clarity contributes significantly to the understanding and impact of your work. One common challenge molecular modelers face is: how can I make my presentation visually coherent while transitioning between multiple views? This is especially relevant…

Designing molecules often starts with a good sketch. But many molecular modeling tools lack an intuitive way to draw molecules while simultaneously seeing their 3D structure evolve. If you’ve ever wished you could build and edit molecules directly in 2D…

When working on complex molecular models, it’s not uncommon to make an action you wish you could take back. Perhaps you moved an atom group the wrong way or applied a transformation prematurely. These situations are especially common during exploratory…

When working with complex molecular systems, molecular modelers often need to focus on specific types of atoms for visualization, simulation setup, or analysis. For example, you might be preparing a study on metalloproteins or need to isolate metal ions in…