Molecular modelers often face the challenge of managing vast amounts of structural data, especially when analyzing multiple residues or chains. Navigating seamlessly through different views without losing focus can improve efficiency significantly. That's where SAMSON's Sequence View comes in – an integrative feature designed to connect sequence selections with 3D structure visualizations effortlessly.
Imagine selecting residues in the sequence that immediately synchronize across multiple views – the Sequence View, the Document View, and the 3D Viewport. With this feature, you can work on residues in a completely interactive way, saving time and boosting productivity.
Interactive Selection Made Easy
The Sequence View in SAMSON enables you to intuitively select residues in the sequence and directly see the corresponding parts highlighted in the 3D structure. This functionality works in reverse too: selecting residues in the 3D Viewport automatically highlights them in the Sequence View. This synchronization ensures you stay fully aware of the spatial and sequence context simultaneously.
For example, if you're exploring binding sites, you can easily select residues in the sequence interface and immediately visualize their 3D counterparts. This is especially useful when dealing with complex macromolecules where 3D visualization alone can get overwhelming.
Colorization: Enhance Your Workflow
Another powerful aspect of the Sequence View is the ability to colorize residues based on biophysical properties. Whether you're focusing on hydrophobicity, charge, or other properties, this colorization can be applied directly to the 3D Viewport. Visualizing these properties through colors across both the sequence and structure can provide valuable insights into a molecule's behavior and interactions.
Simple Access with Multiple Options
Accessing the Sequence View is straightforward and customizable. You can choose from the following methods:
- Click the View sequence command from the Home menu:
- Right-click on a structure, then choose Structural model > View sequence from the Context menu:
If you're working with structures comprising multiple chains, a pop-up lets you select which chain's sequence to view, adding flexibility to your workflows:
Conclusion
These features make SAMSON's Sequence View a valuable tool for any molecular modeler working on structural studies. Synchronizing selections, customizing colorizations, and quickly accessing sequences allow for a more efficient and intuitive modeling process.
To explore these features in more detail, visit the official documentation: Sequence View Documentation.
SAMSON and all SAMSON Extensions are free for non-commercial use. Get started today by downloading SAMSON from the official SAMSON website.