Author: OneAngstrom

When building compelling molecular presentations or demonstrating mechanisms in your chemical or biological models, static visuals often fall short in conveying dynamic behavior. Were you ever in a situation where highlighting part of your model felt like not enough—where you…

One of the frequent challenges in molecular modeling is effectively communicating 3D structures and interactions to colleagues, students, or collaborators. Screenshots and static views are often not enough, especially when trying to showcase binding pockets, active sites, or conformational changes.…

Long sessions of molecular modeling can be visually demanding, especially when working with bright user interfaces in low-light environments. If you’re using SAMSON, the integrative platform for molecular design, there’s a simple way to reduce eye fatigue: switching to Dark…

When visualizing complex molecular systems, clarity is essential. Often, parts of a structure temporarily obstruct your view of regions of interest, such as an active site or a particular interaction interface. While hiding parts of the model solves this problem,…

When creating molecular animations, it’s common to want certain parts of a molecule to stay still while others move—for example, when simulating flexible protein loops or visualizing ligand docking steps. Without a way to hold parts of a structure fixed,…

Molecular modelers often need to understand how small molecules (ligands) move in and out of binding pockets in proteins. Whether you’re studying unbinding mechanisms for drug design or analyzing ligand diffusion paths through protein tunnels, visualizing these motions helps make…

Molecular dynamics simulations often take time, especially when running production-scale simulations with thousands of atoms. One common frustration among molecular modelers is that running such simulations can lock up their software or prevent them from continuing to work, forcing them…

Covalent docking is an essential technique for drug discovery projects targeting enzymes and other proteins with reactive residues. However, setting up a covalent docking experiment can be time-consuming and error-prone, especially if you need to adjust bond orders, assign atom…