RFdiffusion binder diversification step by step

This workflow enables starting from an existing binder-target complex, generating similar binder backbones and designing their sequences. It implements the end-to-end RFdiffusion partial diffusion protocol where noise is added to the backbone of an existing binder chain.

Use cases:

• Generate binders with improved computational success rate, starting from a computationally successful design.

• Generate binders with improved specificity and affinity for a target protein, using an existing binder as starting point.

• Generate binders with altered specificity by starting from a binder–homolog complex (same family) with the target swapped for homolog.

1. Prerequisites

Before you proceed, make sure to install OVO by following OVO Installation and set up RFdiffusion as described in RFdiffusion Quickstart.

2. Input structure

TODO

Next: ProteinQC Quickstart