Author: OneAngstrom

For molecular modelers, ensuring that protein structures conform to energetically favorable backbone angles is a crucial step in refining models. Strained residues in inappropriate conformations lead to instability, limit simulation success, or even produce inaccurate results. The Ramachandran Plot, integrated…

Working with molecular systems often involves creating dynamic presentations that demonstrate structural changes and mechanisms. But what happens when you need to break complex assemblies into manageable components or showcase disassembly processes in an engaging and illustrative way? This is…

For molecular modelers, achieving precise camera movements can significantly impact the clarity of presentations and the understanding of molecular interactions. If you’ve ever struggled to smoothly reframe complex systems in a horizontal direction during an animation, then the Truck camera…

Did you know that understanding symmetry in biological assemblies can significantly enhance your molecular modeling workflows? For molecular modelers working on protein complexes, viral capsids, or other large assemblies, symmetry detection is more than just a cool visualization tool—it’s an…

For molecular modelers, selecting the right sets of atoms, residues, or nodes is a frequent and crucial task. Whether you’re isolating ligand-receptor complexes, homing in on specific residue types, or filtering structures within a defined distance, efficient node selection can…

For molecular modelers, creating realistic and biologically meaningful transition paths between protein conformations can be challenging and time-consuming. Whether you’re working on conformational analysis, transition state modeling, or setting up an umbrella sampling workflow, an efficient and precise interpolation method…

When working on complex molecular modeling projects, achieving the perfect camera angle is often a crucial aspect of effectively presenting your work. But dealing with constant manual adjustments can become time-consuming and frustrating. This is where the Pedestal camera animation…

For molecular modelers, stabilizing a molecular system before equilibration or simulation can be a stumbling block. Unexpected steric clashes and poor local geometry might pose a real challenge, making the process unpredictable and error-prone. Fortunately, SAMSON’s GROMACS Wizard offers a…

For molecular modelers working with polymers, one of the most frustrating challenges can be accurately representing repeating sequence patterns while maintaining control over chemical bonds and structure. SAMSON’s Polymer Builder not only addresses this but makes the process intuitive and…