OneAngstrom – Page 9

Quickly Find the Right Molecular Segments with NSL Attribute Filters

When working with large biomolecular systems—protein complexes, nucleic acid assemblies, or supramolecular structures—molecular modelers often need to focus on specific subsets of the system. For example, isolating segments with particular properties like a number of residues, specific atomic compositions, or…

Tips for Managing Label Visibility Effectively in Molecular Models

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Clarity is key when working with complex molecular models. Whether you’re presenting your work, preparing publication-ready visuals, or simply analyzing your system, labels can provide valuable contextual information—but only when they’re visible at the right time, and not contributing to…

Easily Select Conformations by Atom Count with NSL in SAMSON

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When working on molecular models, it’s common to deal with large ensembles of structural conformations. Whether you’re sampling protein flexibility, filtering through docking poses, or analyzing simulation snapshots, chances are you’ve needed to quickly isolate conformations with a specific number…

Organize Molecular Projects with Folders in SAMSON

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Working with complex molecular models often leads to cluttered workspaces full of multiple molecules, scripts, visualizations, and data files. Over time, it becomes harder to keep track of what’s relevant, what belongs together, and how to perform operations on multiple…

Why Only One Editor Can Be Active in SAMSON

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When working on complex molecular structures, selecting the right tool for the task is crucial. In SAMSON, one of the key concepts that helps streamline molecular design workflows is the use of Editors. Editors in SAMSON are interactive tools designed…

Making Molecules Move: A Simple Way to Animate Atoms in SAMSON

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Creating dynamic molecular presentations can often feel overwhelming—especially for researchers who want to communicate complex transitions in a molecule over time. Whether you’re teaching, presenting a concept, or showcasing a simulation result, having the ability to animate atom positions clearly…

Working with Render Presets in SAMSON to Manage Molecular Visual Styles

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Controlling how molecular models are shown can greatly impact both understanding and communication of structural details. Whether you’re preparing figures for publications, adjusting scenes for presentations, or simply organizing complex systems, render presets in SAMSON offer a helpful way to…

Easily Spot Misplaced Residues Using an Interactive Ramachandran Plot

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When preparing protein structures for simulation or modeling, one frequent challenge is identifying residues that adopt energetically unfavorable conformations. Even a few outliers in backbone dihedral angles can introduce strain, reduce model quality, or degrade simulation stability. That’s where the…

Exporting Just What You Need: How to Export a Subset of Atoms Along a Path in SAMSON

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When studying molecular mechanisms such as ligand unbinding, full atomic trajectories are often unnecessary. Many molecular modelers prefer to focus only on a specific subset of atoms—like a ligand or a binding site—when running free energy calculations, visualizing reaction coordinates,…

Simplifying Comparative Binding Studies with Dock Animations in SAMSON

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Designing compelling molecular animations often becomes a bottleneck in structural biology and molecular modeling—especially when trying to clearly present docking events or compare bound and unbound states. In many cases, modelers want to show how ligands or components fit with…