OneAngstrom – Page 154

Avoiding a Common Mistake in GROMACS: Custom Index Groups for COM Pulling

Setting up center-of-mass (COM) pulling simulations in GROMACS can be a highly rewarding approach to explore molecular interactions and conformational changes. But there’s a frequent stumbling block that frustrates even experienced molecular modelers: missing index groups. When setting up a…

What to Do When SAMSON Can’t Open Your Molecular File

OneAngstrom

Importing molecular structure files is often the first step in every modeling project. Whether you’re working with proteins, small molecules, or large assemblies, you likely start by loading existing data from databases or experimental results. However, many researchers face a…

Why Only One Editor Can Be Active at a Time in SAMSON

OneAngstrom

When working with molecular models in SAMSON, many users eventually ask themselves: “Why can I only have one editor active at a time?” While it may initially seem like a limitation, this design decision plays a crucial role in ensuring…

Avoid Common Pitfalls Running SAMSON on Linux: Library and Driver Setup Explained

OneAngstrom

If you’re a molecular modeler working in a Linux environment, you’ve probably encountered a familiar frustration: you download an impressive-looking platform like SAMSON, excited to explore its powerful features—only to hit a wall because something doesn’t launch or render properly.…

Making Notes Work for You: Visibility, Selection, and More in SAMSON

OneAngstrom

For molecular modelers working on complex systems, clarity is everything. Whether you’re annotating molecular designs with notes, organizing structures, or filtering selected models, keeping track of visual and logical markers can become overwhelming. That’s where the note attributes in SAMSON’s…

Seeing Your Molecules Clearly: Organize and Navigate with SAMSON’s Document View

OneAngstrom

Working with complex molecular systems isn’t just about atom placements or energy calculations—it’s also about staying organized. When you’re managing multiple structures, simulations, and design components, locating and modifying specific parts of your system efficiently becomes a challenge. That’s where…

Managing Shared Molecular Files with Precision on SAMSON Connect

OneAngstrom

Collaborative molecular modeling often means sharing simulation results, structural models, and analysis documents with colleagues, collaborators, or students. But how do you ensure your work is shared securely, with the right level of access and control? SAMSON Connect offers a…

Struggling to Open Molecular Files? Here’s How to Import Them in SAMSON

OneAngstrom

Opening molecular structures from different file formats can be a challenge, especially when dealing with diverse data sources like PDBs, electron density maps, or proprietary modeling outputs. If you’ve ever received a structure file and SAMSON couldn’t open it, you’re…

Your Digital Lab Coat: Building a Scientific Profile with SAMSON Connect

OneAngstrom

In collaborative scientific environments, communication and visibility are key—not just among internal teams but across the broader research community. For molecular modelers, bioinformaticians, and computational chemists, your contributions often live in datasets, simulation files, and 3D models. Making those accessible…

Making Molecular Cinematics: How to Follow Atoms in Your Simulations

OneAngstrom

One of the most common challenges in molecular modeling is communicating dynamic molecular behavior effectively. Whether you’re analyzing conformational changes, studying interactions, or presenting your findings, static images rarely capture the full story. Animations help, but default camera motions can…