TL;DR
Interactive residue-patch selection and visualization for target structures.
Use it / Skip it
It converts a structural intuition into explicit chain:residue tokens that design and scoring modules can consume.
Use when
You need to define or verify the antigen patch before RFantibody, older pipeline flows, or manual review.
Don't use for
Do not use it when you only need to view a PDB; use Viewer.
Inputs
- PDB
- PDB code or uploaded structure.
- Residues
- chain:residue tokens or preset choices where available.
Outputs
- Highlighted patch
- Mol* visualization of selected residues.
- Residue string
- Copyable token list for downstream tools.
Walkthrough
1. Load the target structure
Load the target structure.
2. Enter or adjust residue tokens
Enter or adjust residue tokens.
3. Rotate the model and confirm the patch is contiguous and biologically plausible
Rotate the model and confirm the patch is contiguous and biologically plausible.
4. Copy the token list into the downstream module
Copy the token list into the downstream module.
Under the hood
- Primarily client-side structure viewing and residue selection.
Worked example
Pitfalls
- Wrong residue numbering is common when switching structures.
- A selected patch is a hypothesis, not an epitope measurement.