If you’re involved in molecular modeling, you’ve likely faced this common issue: figuring out how to carry out unfamiliar tasks in a new software tool while staying focused on your research goals. From molecule editing to simulation setup, the learning…

Ever added a label in SAMSON, only to find it mysteriously vanish as you zoom in or out? You’re not alone. Label visibility in SAMSON is a common point of confusion for molecular modelers, especially when preparing clear, informative visualizations…

Creating smooth animations of complex molecular systems can be both powerful and time-consuming. One common challenge molecular modelers face is how to create clean, precise vertical camera motions—especially when communicating structural changes or navigating vertically extended biomolecular assemblies. Whether exploring…

Running molecular simulations with GROMACS requires precision, but it also demands patience—especially when you’re waiting for a system to equilibrate. One of the common challenges researchers face is tracking their simulations while continuing other work. If you’ve ever found yourself…

When working with force fields in molecular modeling, one common challenge is handling systems where automatic perception of atom types and bond orders fails. This can happen during the modeling of new compounds, structures with unconventional bonding, or even systems…

Visualizing molecular systems isn’t just about making things look good. It’s about clarity, insight, and helping you make the right decisions for your research. If you’ve used tools where atoms and bonds are shown as 3D sticks and spheres by…

When working on complex DNA nanostructures, molecular modelers often need to reuse specific design elements across multiple projects. Rebuilding frequently used motifs from scratch wastes time and increases the risk of error. Adenita, the DNA nanostructure editor in SAMSON, provides…

Designing nanostructures from atomic rings can be a time-consuming process if done purely manually, especially when building repeated patterns such as carbon nanotubes. Molecular modelers often need to carefully position and rotate molecules using fine controls, which can be tedious…

When comparing protein structures, sometimes the focus isn’t on the whole protein — but rather on a specific region: an active site, a conserved domain, or just a few residues that differ between species. In these cases, global alignment can…