SAMSON Blog – Page 500

Quickly Filter Side Chains by Elemental Composition with NSL

When working with complex biomolecular structures, identifying specific subgroups—like side chains with a particular number of atoms or elements—can be time-consuming. Whether you’re analyzing reactive sites, searching for hydrophobic residues, or customizing visual representations, targeted selection is essential for efficient…

Quickly Find and Edit Render Presets Using NSL Filters in SAMSON

OneAngstrom

When working with complex molecular systems, visual clarity is essential. Render presets in SAMSON—the integrative molecular design platform—help users control how molecular objects are displayed. Whether you’re comparing different visual styles or identifying specific render setups in a large workspace,…

Keeping Track of Molecular Geometry with Measurement Labels in SAMSON

OneAngstrom

One challenge molecular modelers face regularly is documenting and tracking geometrical parameters—bond lengths, angles, and torsion angles—during interactive modeling sessions. Whether you’re refining structures manually, running minimizations, or preparing presentations, keeping these measurements visible and editable can be essential. In…

Making Molecular Models Fade In Gradually

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Scientific visualizations are essential to communicating complex molecular structures clearly. But for molecular modelers, a common challenge appears when presenting structures: how to smoothly make elements appear in a scene to emphasize specific spatial or temporal relationships? Sudden pop-ins can…

A Simple Way to Show Molecular Motion: Rotating Atom Groups Around Their Center

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One of the most common needs in molecular modeling is to convey motion. Whether you’re presenting a molecular mechanism, visually inspecting orientation-dependent properties, or simply building educational or outreach material, showing the movement of molecular structures often works better than…

Building Your Own SAMSON Extension: A Practical Starting Point

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For molecular modelers who use SAMSON and find themselves limited by off-the-shelf tools, developing a custom extension can be a logical and effective next step. Whether your goal is to integrate a specialized simulation method, automate a workflow, or visualize…

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

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Have you ever built a useful SAMSON Extension, only to find it doesn’t load when you or others start SAMSON? If you’re a molecular modeler depending on custom tools or collaborating with developers who build SAMSON Extensions, this scenario might…

Freezing Atoms: A Simple Way to Minimize Only Part of a Molecule in SAMSON

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When working with complex molecular structures in SAMSON, one common challenge is how to optimize just a specific region of a molecule without affecting the rest. This need arises frequently—whether you’re focusing on docking sites, local defects, or studying the…

When Your Molecules Rock—Literally

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Presenting complex molecular mechanisms through visual animations can be a powerful way to communicate scientific insights. But sometimes, it’s not easy to find the right kind of motion to emphasize specific spatial relationships or draw attention to molecular groups. In…

Interactive Carbon Nanotube Building Without Guesswork

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Modeling carbon nanotubes (CNTs) is a common yet often tedious task in molecular design and materials science. Whether used for simulations in electronic properties, nanodevices, or biomolecular systems, building precise CNT structures can be surprisingly error-prone and time-consuming—especially if done…