Getting Started
Sign in, choose the right workspace and project, and explore your first molecular structure.
This guide takes you from signing in to confidently exploring a structure in the Nomosis Viewer. You will learn where your work belongs, how to load a structure, how to navigate the 3D scene, and how to save a state you can return to later.
What you will accomplish
In about ten minutes, you will:
- Sign in with your Nomosis account.
- Confirm the workspace and project you are working in.
- Load the example structure
1CBSfrom the Protein Data Bank. - Rotate, zoom, focus, and select parts of the structure.
- Give the protein and ligand clear, independent visual styles.
- Save the complete viewer state as a viewer session.
Before you begin
You need an active Nomosis account and access to at least one project. Most users receive an invitation email from their organization's administrator.
If your invitation has not arrived, ask your administrator to confirm the email address and resend it. Invitation links expire after seven days.
Understand where your work lives
Nomosis uses three related levels of organization:
| Level | What it means | Example |
|---|---|---|
| Workspace | The company, laboratory, or personal context you belong to | Nomosis |
| Project | A collection of related structures, trajectories, sessions, and stories inside a workspace | test-1 |
| Viewer session | A saved viewer state, including the camera and visual choices | 1CBS first review |
Choose the workspace first, then the project. The active project determines where project-scoped items are listed and saved.
Complete your first session
Sign in. Open your Nomosis address and enter your email and password, or choose Sign in with Google. Nomosis uses single sign-on, so the same authenticated session works across the platform.
Confirm your workspace. In the account area, open the workspace switcher and select the company, laboratory, or personal workspace you intend to use.
Open the Nomosis Viewer. Use the application navigation to open Viewer. In the viewer's
top bar, confirm that the project selector shows the expected project, such as test-1.
Load a structure. Enter 1CBS in the PDB ID field and choose Load. Wait until the
structure appears in the center and 1CBS appears under Structures on the left.
Frame the complete model. Choose Fit → All (reset). This centers the structure and gives you a reliable starting view.
Explore the scene. Left-drag to rotate, scroll to zoom, and middle-drag to pan. Click a residue to select it. Use the granularity selector in the top bar if you want clicks to target an atom, residue, chain, or entity.
Make the binding partners easy to read. In Display, set the protein to Cartoon / Ribbon and color it by Secondary Structure. Set the ligand to Spacefill (CPK) or Ball & Stick and keep it colored by element.
Save your work. Open File → Save as…, enter a meaningful name, and save the viewer session.
After the first save, use File → Save or Ctrl/Cmd+S to update it.
Check your result
You are ready to continue when all of the following are true:
- The top bar shows the intended project.
1CBSis listed and active under Structures.- The entire structure fits in the viewport without being clipped.
- The protein fold and ligand are visually distinct.
- Your named viewer session appears under File → Open session….
Before loading or saving customer data, always verify the active workspace and project. Changing the project changes the context for project-scoped items; it does not simply rename the current view.
If something does not look right
| What you see | What to do |
|---|---|
| The viewer opens but the expected data is missing | Check the project selector in the top bar. |
| A structure loads outside the visible area | Choose Fit → All (reset). |
| A menu option is disabled | Load the required context first; for example, MD tools require a trajectory and ligand tools require a detected ligand. |
| You changed several visual settings by mistake | Use History to step back, or reopen the last saved viewer session. |
| You cannot save or open a project item | Confirm that you have access to the project, then contact your workspace administrator. |
Continue learning
Your First Structure
Follow the complete 1CBS walkthrough with checkpoints and visual decisions.
Workspaces & Projects
Understand context, access, and switching before you work with customer data.
A Tour of the Interface
Learn the purpose of every major viewer area.
The Nomosis Viewer
Choose a workflow for structures, trajectories, analysis, and presentation.