Protein Sequence Design on RFDiffusion de novo backbones
1.78RMSDRosettaSearch
Evaluation Results
| Method | Links | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| RosettaSearchoptimization_type=multi-objective, reference_sequence_context=none2026.04 | 1.78 | 0.96 | 85 | — | — | — | 89.5 | 67.3 | |
| ProteinMPNNrole=candidate sequence generator2026.04 | 3.32 | 0.9 | 81 | — | — | — | 72.4 | 45.5 | |
| MoMPNNOptimization Objectives=Thermo+IG2026.03 | 6.14 | 0.748 | 71.1 | 7.32 | 0.684 | 0.998 | — | — | |
| MoMPNNOptimization Objectives=Sol+IG+EP2026.03 | 6.17 | 0.751 | 72 | 7.34 | 0.843 | 0.993 | — | — | |
| GuidanceOptimization Objective=Sol2026.03 | 6.2 | 0.748 | 71.8 | 8.14 | 0.774 | 0.989 | — | — | |
| MoMPNNOptimization Objectives=Thermo+IG+EP2026.03 | 6.2 | 0.748 | 71.2 | 7.44 | 0.723 | 0.998 | — | — | |
| MoMPNNOptimization Objectives=Thermo+TM2026.03 | 6.29 | 0.744 | 70.8 | 7.75 | 0.704 | 0.997 | — | — | |
| GuidanceOptimization Objective=Thermo2026.03 | 6.34 | 0.743 | 71.5 | 7.88 | 0.757 | 0.993 | — | — | |
| MoMPNNOptimization Objectives=Sol+IG2026.03 | 6.37 | 0.742 | 71.5 | 7.21 | 0.867 | 0.983 | — | — | |
| MoMPNNOptimization Objectives=Sol+TM+EP2026.03 | 6.4 | 0.742 | 71.3 | 7.47 | 0.843 | 0.993 | — | — | |
| MoMPNNOptimization Objectives=Thermo+TM+EP2026.03 | 6.48 | 0.737 | 70.5 | 7.64 | 0.736 | 0.999 | — | — | |
| MoMPNNOptimization Objectives=Sol+TM2026.03 | 6.59 | 0.734 | 70.9 | 7.42 | 0.869 | 0.987 | — | — | |
| SolubleMPNN2026.03 | 6.61 | 0.733 | 70.5 | 8.36 | 0.799 | 0.992 | — | — | |
| ProteinMPNN2026.03 | 6.86 | 0.718 | 70 | 8.32 | 0.731 | 0.978 | — | — | |
| HyperMPNN2026.03 | 7.51 | 0.693 | 68 | 8.25 | 0.727 | 0.992 | — | — | |
| ESM-IF2026.03 | 13.51 | 0.461 | 57.6 | 7.27 | 0.616 | 0.806 | — | — | |
| ProteinDPO2026.03 | 16.77 | 0.296 | 43.5 | 14.7 | 0.596 | 0.145 | — | — | |
| InstructPLMMode=default2026.03 | 22.44 | 0.134 | 32.6 | 3.33 | 0.539 | 0.278 | — | — | |
| InstructPLMTemperature=0.12026.03 | 22.58 | 0.132 | 33.5 | 2.73 | 0.538 | 0.367 | — | — |