Author: OneAngstrom

Constructing carbon nanotubes manually is a common yet time-consuming task in nanoscale modeling. Molecular modelers often spend significant time aligning repeating subunits, ensuring correct bonding distances, and stacking rings into tubular shapes — and that’s before even getting to energy…

Dragging atoms to explore structural rearrangements is a common task in molecular modeling, yet it often leads to frustration when the topology inconsistencies break your simulation or generate unphysical structures. If you’ve ever attempted to manually tweak a molecular structure…

If you’ve ever worked with multiple PDB structures, you already know how tedious the data cleaning process can become. Water molecules, ions, alternate locations, missing atoms—they all add up. Multiply that by 20, 100, or even 1,000 structures, and suddenly…

Modeling carbon nanotubes (CNTs) manually can be challenging if you don’t want to rely on presets or black-box generators. You might want full control over the structure: the number of repetitions, radius, atomic alignment, or even twist between rings. But…

Whether you’re preparing a presentation for a paper, teaching structural biology, or simply clarifying a dense molecular system to collaborators, one challenge often arises: how do you remove visual clutter from complex molecular structures without completely deleting parts of your…

In molecular modeling, clarity is essential. Whether you’re preparing a presentation, building an educational video, or comparing structural conformations, the ability to highlight changes in your models can make a major difference. A frequently encountered challenge among modelers and educators…

When presenting molecular systems and simulations, timing is everything. Whether you’re building educational content, preparing a presentation for a research group, or creating a guided molecular animation, there’s always one recurring challenge: how to draw attention to a specific part…

Protein docking is a powerful tool in structural biology, but one frustrating aspect many molecular modelers share is this: you set up your system, launch a docking calculation, and… the results are off. 🧬 They aren’t necessarily bad, but the…

Molecular modelers often need to inspect and modify properties of atoms or groups of atoms when preparing systems or analyzing simulations. However, editing atomic attributes can be risky: one wrong click and your structure may no longer make sense. Fortunately,…