Author: OneAngstrom

When creating molecular animations in SAMSON, it’s common to spend time carefully orienting the scene to show a particular structure or interaction. But if you don’t explicitly control the camera during all frames, SAMSON might change the viewpoint midway as…

Creating compelling molecular animations can be surprisingly tedious, especially when presenting multi-component systems. A common challenge in structural bioinformatics and molecular modeling is illustrating how different components relate spatially in a complex supramolecular assembly. Whether it’s for teaching, a publication,…

When performing protein-protein docking, modelers often face a critical tradeoff: how to balance docking accuracy with efficient computation. Complex systems can take hours to dock, especially if you’re exploring the full 3D orientation space of the ligand relative to the…

If you’ve ever had to prepare multiple protein structures for docking, simulations, or other modeling tasks, you know how tedious and error-prone it can become. Opening each file, fixing alternate atom locations, removing waters or cofactors, checking for missing atoms—it’s…

When working with complex molecular systems, it can be challenging to keep track of atoms, residues, and structural regions – especially when they’re rendered as a sea of spheres and sticks. If you’ve ever found yourself squinting at your molecular…

When building molecular models, clarity is crucial—especially when you’re sharing your work or presenting your findings. Labels help identify key parts of your structures, from atoms to entire molecules. But default label placements can sometimes overlap with important areas or…

Molecular modelers often find themselves bottlenecked by simulation runtimes, especially when running locally. You might be using powerful hardware, but your jobs are still dragging—and it’s not always clear why. If you’ve ever wondered whether GROMACS is making full use…