SAMSON Blog – Page 139

Making Molecules Vanish: A Simple Way to Build Cleaner Molecular Animations

When creating molecular animations, clarity is everything. Whether you’re preparing a presentation, designing teaching materials, or just trying to isolate a part of your model, hiding atomic structures at the right frame can make a big difference in storytelling and…

Stuck on a task? SAMSON’s built-in tutorials walk you through it

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Whether you’re studying molecular dynamics, designing new molecules, or just trying to get your bearings in a powerful modeling environment, the learning curve of a molecular modeling platform can sometimes feel steep. That’s why SAMSON includes a helpful feature that…

A Direct Way to Find Motions That Open Binding Sites in Molecular Structures

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Molecular modelers often face the challenge of understanding how proteins or macromolecular complexes open up to allow small molecules to bind. Deciphering this process is key in fields like drug discovery and biomolecular engineering—but simulating these motions can be time-consuming…

A Quick Way to Animate Molecular Presentations with SAMSON

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If you prepare molecular presentations or videos, you’ve probably faced the challenge of showing complex movements clearly. Key questions often arise: How do I highlight a particular molecule entering a system? Can I create paths for camera motion? How do…

Choosing Initial Conformations for Umbrella Sampling Without the Guesswork

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For molecular modelers performing Umbrella Sampling, one of the early and often time-consuming hurdles is selecting the right set of initial conformations. This step significantly influences simulation efficiency and accuracy. If you’ve ever found yourself wondering how best to extract…

Precise Atom Selection Made Easy: Exploring NSL’s Symbol and Element Attributes

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When working on molecular models, whether you’re preparing structures for simulation, visualizing proteins, or analyzing large molecular systems, being able to select specific atoms quickly is essential. For SAMSON users, the Node Specification Language (NSL) provides a powerful and flexible…

Why You Don’t Need to Reinvent the Wheel in Molecular Modeling

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Molecular modeling is an exciting but challenging field, especially when it comes to integrating different tools into a cohesive workflow. Many researchers spend a significant amount of time connecting existing software, writing wrappers, or just manually transferring data between tools.…

Opening molecular files in SAMSON: What you need to know

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One common challenge for molecular modelers is handling the wide array of data formats used in structural biology, materials science, and chemistry. Whether it’s PDB, MOL, CIF, or dozens of others, molecular data often comes in different shapes and storage…

How to Quickly Access Editors in SAMSON Without Getting Lost

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When working on complex molecular systems, every second spent navigating software is a second not spent modeling. If you’re using SAMSON for integrative molecular design, you might find yourself wondering: where do I find the tools I need to build,…

Synchronizing Multiple Molecular Paths in SAMSON Animations

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Visualizing molecular dynamics or conformational transitions often involves analyzing and comparing several trajectory paths. Whether you are inspecting a ligand binding pathway, protein folding steps, or exploring alternative conformations, understanding how molecules move over time is key. But how can…