When working on complex molecular modeling projects, one common challenge is efficiently analyzing and manipulating sequences while keeping everything synchronized across views. If you’ve ever wished for a more interactive and integrated approach, SAMSON’s Sequence View might be the solution you’ve been looking for.
The Sequence View in SAMSON is designed to provide seamless integration between different molecular representations. This interactive feature allows you to select residues in the sequence and instantly see those selections reflected in the Document View and the 3D Viewport — and vice versa. By using the Sequence View, molecular modelers can drastically reduce the amount of back-and-forth labor when pinpointing specific residues or regions of interest.
Key Features of Sequence Views
The Sequence View is more than just a simple sequence tracker. Features include:
- Color Coding Residues: You can easily apply color schemes to residues based on biophysical properties, such as hydrophobicity or charge. The colors can be propagated to the 3D structure in the viewport, offering a richer visualization and a better understanding of the molecular properties being studied.
- Interactive Selection: Selections made in the Sequence View are automatically highlighted in the 3D Viewport and Document View, ensuring consistency across all your workflows.
Accessing and Using Sequence Views
Getting started with Sequence Views is easy and flexible. Here are two main ways to access this feature:
- From the Home Menu: Click on the View sequence command in the Home menu.
- From the Context Menu: Right-click on a structure in your workspace, then navigate to Structural model > View sequence.
Working with multi-chain structures? SAMSON has you covered. When accessing the Sequence View, a convenient pop-up will appear, letting you choose which chain(s) to display. This ensures you can focus on the parts of the structure most relevant to your current task.
Why Sequence Views Matter
Efficient molecular modeling is all about bridging the gap between data and visualization. Statically analyzing sequences or structures often leads to inefficiency and oversights. Sequence Views simplify workflows, providing modelers with an intuitive way to navigate complex structures, optimize structural visualization, and make informed decisions.
Whether you’re performing detailed coloring for presentation purposes or isolating residues for advanced computational setups, the Sequence View empowers you to keep your models connected across the sequence, document, and 3D perspectives.
Would you like to see this feature in action? Visit the official documentation at https://documentation.samson-connect.net/users/latest/sequence-view/ to learn more.
SAMSON and all SAMSON Extensions are free for non-commercial use. You can get SAMSON here: https://www.samson-connect.net.