OneAngstrom – Page 11

How to Visualize Ligand Binding Sites with SAMSON in Minutes

Understanding how your ligand interacts with a receptor at the atomic level is key to rational drug design. However, many molecular modelers spend a surprising amount of time just trying to generate clear, informative visuals of binding sites. If you’re…

Make Your Molecules Pop: Improving Depth with Ambient Occlusion in SAMSON

OneAngstrom

When visualizing complex molecular systems, spatial perception plays a crucial role. You need to know what atom is behind or in front, how close molecular structures are to each other, and how everything fits together in 3D space. But sometimes,…

Juggling Multiple Molecular Selections? Try Quick Groups in SAMSON

OneAngstrom

When working on complex molecular systems, navigating between multiple regions of interest can feel like a never-ending exercise in reselecting atoms, residues, or molecules. Whether you’re switching between a ligand, several candidate binding sites, or parts of a large biomolecular…

A simple way to control what you see in your molecular model

OneAngstrom

When working with complex molecular systems, visualization quickly becomes one of the biggest challenges. With hundreds or thousands of nodes representing atoms, molecules, and structures, how can you isolate what truly matters? The Node Specification Language (NSL) in SAMSON offers…

Bring Molecules to Life with Camera Animations in SAMSON

OneAngstrom

If you’ve ever tried to present complex molecular structures or chemical processes in a clear and engaging way, you probably know how difficult it can be to explain spatial relationships or dynamic transformations with just static images. Whether you’re preparing…

Control What You See: Filtering Molecular Models by Visibility in SAMSON

OneAngstrom

In complex molecular design projects, efficient navigation and structure analysis often come down to one simple question: What am I looking at? When working with dense molecular systems, being able to filter and select only the parts of the model…

Running GROMACS Simulations in the Cloud, Without Command-Line Headaches

OneAngstrom

One of the most common challenges in molecular dynamics is getting simulations up and running across different computing environments. If you’ve ever struggled to compile GROMACS, wrestled with queuing systems, or managed large sets of input files on remote machines,…

What to Do When Your Molecular File Format Isn’t Supported

OneAngstrom

One of the first challenges many molecular modelers face when starting a new project is simply getting their data into the software. Whether you are working with molecules from a public database or simulation results from another tool, the reality…

Why Your SAMSON Extension Might Not Load (and How to Fix It)

OneAngstrom

Molecular modelers who extend SAMSON with custom tools and scripts often face a frustrating situation: an extension that worked yesterday suddenly refuses to load after an update. This issue typically stems from version incompatibilities between SAMSON and the Software Development…

A Smoother Zoom Experience with the Dolly Camera in SAMSON

OneAngstrom

Zooming into specific regions of molecular systems is a routine task for many modelers. Whether it’s to highlight a binding site, a mutation zone, or explore conformational states, the ability to intuitively navigate molecular scenes is crucial. However, standard zoom…