RFdiffusion3
All-atom generative diffusion model for designing proteins, nucleic acid binders, and enzymes with precise non-protein interaction conditioning.
RFdiffusion3 (RFD3) is a fully atom-based diffusion model that generates protein structures—including explicit side chains—in the context of nucleic acids, small molecules, and other non-protein atoms. By modeling all polymer atoms explicitly, RFD3 enables precise conditioning on complex atom-level constraints, such as hydrogen bond donor/acceptor status and solvent accessibility. The model utilizes a streamlined architecture to achieve state-of-the-art performance on protein, ligand, and DNA binder design benchmarks while operating at approximately one-tenth the computational cost of RFdiffusion2.
Estimated resource cost: 0.000527
Categories: Protein Design
Key Capabilities
- Fully atomistic generation creates protein backbones and side chains simultaneously, enabling precise modeling of interactions.
- Advanced atom-level conditioning allows direct control over hydrogen bonding, solvent accessibility (RASA), and center-of-mass positioning.
- Streamlined architecture (approx. 168M parameters) delivers a 10-fold speed increase over RFdiffusion2 without sacrificing performance.
- Demonstrated success in designing high-affinity binders, symmetric oligomers, and enzymes with complex active site scaffolding.
Runtime Statistics
| Metric | Value |
|---|---|
| runtime_mean | 107 |
| runtime_median | 109 |
| runtime_std | 102 |
| runtime_90th_percentile | 126 |
| runtime_max | 990 |
Similar Tools
- AfCycDesign
- BindCraft
- BindFilter
- BioBind
Ready to submit your job?
Review your configuration, then confirm the estimated credit cost before you run the job. Note that credit estimates are not guaranteed and runtime can vary depending on inputs and settings.
Estimated Credits: 0.000527
Invite-only, limited-time access. Please contact ztang@getantibody.com.
Invite-only, limited-time access. Please contact ztang@getantibody.com.