SAMSON Blog – Page 95

Installing SAMSON Without Admin Rights: What You Need to Know

If you’ve ever had to install complex software in a shared or tightly managed computing environment, you’ve likely run into a common problem: needing administrator rights. For many molecular modelers—especially students, researchers in government labs, or users of institution-managed systems—this…

Choosing Initial Conformations for Umbrella Sampling in SAMSON

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One of the common challenges in setting up Umbrella Sampling simulations is selecting the right initial conformations. For many molecular modelers, this step requires scripting, plotting distances manually, or running external tools—often a time-consuming process. Fortunately, SAMSON’s GROMACS Wizard streamlines…

Easily Reposition Views in Molecular Animations Using Keyframes

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Creating smooth and informative molecular animations often means guiding your audience’s eyes exactly where you want them to look. Whether you’re rotating around a binding site or zooming through a channel, camera movement is critical. However, many molecular modelers find…

Quickly Find and Control Labels in Molecular Models

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When working with complex molecular models, labeling atoms, groups, or other elements is often essential to communicate ideas, track changes, or set up simulations. However, once those labels start to accumulate in a scene, managing them can become difficult: Which…

Identify Molecular Models with Specific Atom Counts: A Practical Guide for Structural Filtering

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When working with large molecular systems, selecting or filtering models based on specific structural criteria can be extremely useful. Whether you need to analyze models with fewer than 100 atoms for performance reasons, or zoom in on structures with a…

Not Just a Movie: Capturing Atom Trajectories with the Record Path Animation in SAMSON

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When working with molecular models, visualizing motion is not only helpful—it’s often essential. Whether you’re simulating a docking process, building a molecular assembly, or simply illustrating atomic movements for a presentation, being able to capture trajectories of atoms over time…

Reclaim Your Screen: Customizing the SAMSON Interface for Efficient Molecular Modeling

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As a molecular modeler, your productivity often hinges on how quickly you can access the tools you need and how comfortable you are navigating software interfaces. It’s easy to underestimate how much time is lost hunting through menus, minimizing and…

Making Time Stand Still: Using the Pause Animation in Your Scientific Presentations

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Communicating molecular models effectively often comes down to timing. Whether you’re presenting protein-ligand interactions or simulating molecular dynamics, a well-timed pause in your animation can direct your audience’s attention right where it needs to be. In SAMSON, the Pause animation…

Choosing the Right Symmetry Group for Protein Assemblies

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When modeling large protein complexes or viral capsids, symmetry is often more than just a structural curiosity—it is a way to save time, improve results, and better understand molecular function. But what happens when your structure exhibits multiple plausible symmetries?…

Changing Atom Attributes Without Losing Context

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If you’ve ever needed to modify molecular models manually, you know how frustrating it can be to make consistent changes across multiple atoms—especially when you can’t quite remember what you’ve changed or which attributes are editable at all. The Inspector…