For molecular modelers, achieving a clear and accurate representation of nanosystems is often a central challenge. Whether visualizing secondary structures of proteins or examining complex electron density maps, graphical clarity aids in understanding molecular mechanisms and communicating discoveries effectively. SAMSON offers a versatile solution via its visual models, designed to provide diverse and customizable graphical representations of nanosystems.
What are Visual Models in SAMSON?
Visual models in SAMSON are graphical representations that help you see and interpret molecular systems with greater ease. These models can depict anything from the secondary structure of a protein to volumetric representations of electrostatic fields. This flexibility ensures that visual models can be aligned with the type of task you’re performing, be it structural analysis, field interpretation, or comparative studies.
Applying Visual Models
Using visual models in SAMSON is highly intuitive. You can apply them to selected structures or the entirety of your document by:
- Accessing the context toolbar menu of your selection,
- Navigating to Visualization > Add > Visual model in the menu,
- Using the shortcut: Ctrl/Cmd + Shift + V.
This simplicity ensures that you can switch between or layer different visual representations to explore various aspects of your nanosystem seamlessly.
Customizing Visual Parameters
Many visual models in SAMSON come with customizable parameters that allow you to fine-tune your visualizations. For instance, you can adjust parameters for a secondary structure graphical representation directly from the Inspector by:
- Selecting the visual model from the Document view,
- Clicking on Inspect in the context menu.
With these controls, you can adapt visual properties to better match your analytical needs and preferences.
Highlights and Interaction
Visual models in SAMSON don’t just provide passive representation—they’re highly interactive. For example, default visual models allow you to:
- Highlight and select atoms, residues, or chains directly through surfaces,
- Adapt displays dynamically based on the selection filter you’re using.
Imagine using a solvent-excluded surface and instantly highlighting specific residues for focused analysis!
Expanding Your Visual Options
While SAMSON provides a rich set of built-in visual models, you’re not limited to them. Additional models can be accessed via SAMSON Connect, and developers can even contribute their own through SAMSON Extensions. This extensibility ensures that you’re equipped with the latest tools for your molecular modeling tasks.
Learn More
To get comprehensive guidance on visual models, explore SAMSON’s official documentation page on Models.
SAMSON and all SAMSON Extensions are free for non-commercial use. Download SAMSON for free at https://www.samson-connect.net.