Make Molecules Fade Away: When ‘Disappear’ Is Better Than Hide

When creating molecular animations for presentations or publications, molecular modelers often face the challenge of showing molecular structures gradually vanish—without making it look abrupt or confusing for the audience. While the classic ‘Hide’ effect can switch off visibility instantly, sometimes…

Quickly Align Protein Structures Based on Specific Residue Regions

When exploring protein function or designing ligands, it’s often essential to compare specific functional regions, rather than entire protein structures. This is especially true in structure-based drug discovery, homology modeling, and evolutionary studies, where conserved motifs might be hidden among…

Precise Bond Filtering in Molecular Models Using Bond Types

When working on large molecular systems, it’s often helpful to focus only on specific types of bonds—such as single, double, or aromatic bonds—especially when analyzing or modifying chemical structures. Whether you’re identifying functional groups or cleaning up imported models, being…

A Simple Way to Align Molecular Structures in SAMSON

When working on multi-component molecular systems—such as protein-ligand complexes, nanostructures, or assembling ligand libraries—being able to precisely align and position structures is essential. But manual alignment can be both time-consuming and error-prone, especially when scaling operations or ensuring consistency across…

Smart Importing of Molecular Dynamics Results: A Quick Guide

Running molecular dynamics (MD) simulations is only half the work—the other half is interpreting and importing your results correctly. Many molecular modelers face the recurring challenge of efficiently handling large MD simulation data, especially with regards to choosing what to…