The Model Book
Every AI model for biology, graded. Updated weekly.
Task
License
Grade
| Model | Org | Task | Params | Top Benchmark | Score | License | Cost | Grade ↑ | Updated |
|---|---|---|---|---|---|---|---|---|---|
| AlphaFold3 | Google DeepMind | Structure Prediction | ~600M | CASP15 | 0.85 GDT-TS (avg) | restricted | Free via AlphaFold Server (rate-limited), enterprise pricing undisclosed | A | Updated 1 week ago |
| ProteinMPNN | UW Baker Lab | Sequence Design | ~2M | PROTEINGYM | 52% recovery rate | open | Negligible — runs on laptop hardware | A | Updated 2 months ago |
| Boltz-2 | MIT | Structure Prediction | ~400M | POSEBUSTERS | 72% valid | open | Self-hosted — ~$0.03/prediction on cloud GPU | A- | Updated 2 weeks ago |
| Boltz-1 | MIT | Structure Prediction | ~300M | CASP15 | 0.82 GDT-TS (avg) | open | Self-hosted only — ~$0.02/prediction on cloud GPU | A- | Updated 3 weeks ago |
| RFdiffusion | UW Baker Lab | Protein Design | ~300M | PROTEINGYM | N/A (generative) | open | Self-hosted — ~$0.01/design on cloud GPU | A- | Updated 1 month ago |
| AlphaFold-Multimer | Google DeepMind | Complex Prediction | ~400M | DOCKQ | 0.65 DockQ | restricted | Self-hosted — moderate GPU cost, slower than single-chain AF2 | A- | Updated 1 month ago |
| ESM-3 | EvolutionaryScale (Meta origin) | Protein Language Model | ~98B | PROTEINGYM | 0.47 Spearman (avg) | open | Self-hosted or via EvolutionaryScale API (pricing varies) | B+ | Updated 3 weeks ago |
| Chai-1 | Chai Discovery | Structure Prediction | ~500M | CASP15 | 0.83 GDT-TS (avg) | non-commercial | Free via Chai Discovery platform (rate-limited), self-hosted for research | B+ | Updated 1 month ago |
| Evo-2 | Arc Institute | DNA Language Model | ~7B | PROTEINGYM | N/A | open | Self-hosted — moderate GPU requirements | B+ | Updated 1 month ago |
| RoseTTAFold All-Atom | UW Baker Lab | Structure Prediction | ~100M | CASP15 | 0.79 GDT-TS (avg) | open | Self-hosted — ~$0.02/prediction on cloud GPU | B+ | Updated 1 month ago |
| OmegaFold | HeliXon | Structure Prediction | ~100M | CAMEO | 0.72 lDDT (avg) | non-commercial | Self-hosted — fast inference, low compute cost | B | Updated 2 months ago |
| DiffDock | MIT | Molecular Docking | ~50M | POSEBUSTERS | 58% valid | open | Self-hosted — ~$0.005/docking on cloud GPU | B | Updated 3 months ago |