SAMSON Blog

Master Precise Molecular Movement with SAMSON’s Move Editors

In molecular modeling, achieving precise control over the manipulation of structures is an essential task. Whether you are aligning molecules, adjusting fragments, or rotating structures, having the right tools at your disposal can make a significant difference. SAMSON provides intuitive…

Mastering Atom Selection for Molecular Modeling with NSL

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Molecular modelers often face the challenge of efficiently selecting specific atoms within vast and complex molecular systems. Whether it’s identifying specific atomic types in proteins or isolating specific chemical environments, such tasks can become a bottleneck in the workflow. If…

Mastering Node Attributes in SAMSON’s Node Specification Language

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Molecular modelers often need precise control over their data graphs when working with large and complex molecular systems. The Node Specification Language (NSL) in SAMSON provides an intuitive way to handle this complexity via node attributes. In this post, we…

Effortlessly Explore Protein Residues with the Ramachandran Plot App

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For molecular modelers, understanding and fine-tuning protein structures is essential, especially when working on simulations or refining homology models. Yet, identifying strained residues or understanding backbone conformations can be a challenging task. This is where the Interactive Ramachandran Plot in…

Effortless Filtering with Atom Attributes in SAMSON

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For molecular modelers, quickly isolating specific atoms from a complex structure can be an everyday yet time-consuming challenge. Whether you’re pinpointing elements, identifying charged atoms, or working out chain IDs, the good news is that SAMSON’s Node Specification Language (NSL)…

A Beginner’s Guide to Setting Up Universal Force Field (UFF) Simulations in SAMSON

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For molecular modelers working with the Universal Force Field (UFF) to simulate molecular interactions, SAMSON offers straightforward and user-friendly tools to get started. This guide will walk you through setting up and configuring UFF simulations within SAMSON efficiently. From perceiving…

Enhancing Molecular Modeling with SAMSON Extensions

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Molecular modelers often face the challenge of finding software that adapts to their specific needs, whether it’s running complex simulations, building detailed models, or visualizing intricate molecular interactions. The good news is that SAMSON provides a flexible solution through its…

Choosing the Right Unit Cell for Efficient Molecular Simulations

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Properly setting up periodic boundary conditions and selecting the right unit cell are key to conducting efficient molecular simulations. For molecular modelers using GROMACS, understanding how to choose the most appropriate space-filling unit cell not only improves simulation accuracy but…

Create Smooth Protein Conformational Transitions with ARAP Interpolation

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Protein structures can adopt multiple conformations, critical for understanding their function in biological systems. Modeling a smooth, realistic transition path between two such conformations can be a challenge for molecular modelers, especially under time constraints or when aiming for high…

Effortlessly Hide Molecular Nodes in SAMSON Animations

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When working on molecular models, conveying complex information often requires dynamic visual presentations. Yet, managing what should be visible and when during animations can be a source of frustration. This is where SAMSON’s Hidden animation effect steps in, offering a…