Unconditional Protein Structure Generation on PDB
87.5Fraction (scRMSD <= 2.0 A)FrameDiff
Evaluation results
| Method | Links | ||||||
|---|---|---|---|---|---|---|---|
| FrameDiffPretraining=RigidSSL-Perturb2026.03 | 87.5 | 0.494 | 0.534 | 0.033 | — | — | |
| FrameDiffPretraining=None2026.03 | 77.5 | 0.555 | 0.565 | 0.033 | — | — | |
| FoldFlow-2Pretraining=RigidSSL-Perturb2026.03 | 75.8 | 0.77 | 0.65 | 0.252 | — | — | |
| FrameDiffPretraining=GeoSSL-EBM-NCE2026.03 | 72.5 | 0.615 | 0.597 | 0.033 | — | — | |
| FrameDiffPretraining=GeoSSL-RR2026.03 | 70 | 0.579 | 0.604 | 0.089 | — | — | |
| FrameDiffPretraining=RigidSSL-MD2026.03 | 70 | 0.657 | 0.471 | 0.156 | — | — | |
| FrameDiffPretraining=GeoSSL-InfoNCE2026.03 | 65 | 0.613 | 0.568 | 0.033 | — | — | |
| FoldFlow-2Pretraining=RigidSSL-MD2026.03 | 58.4 | 0.782 | 0.613 | 0.318 | — | — | |
| FoldFlow-2Pretraining=GeoSSL-EBM-NCE2026.03 | 42.4 | 0.79 | 0.626 | 0.225 | — | — | |
| FoldFlow-2Pretraining=GeoSSL-RR2026.03 | 34.4 | 0.787 | 0.601 | 0.137 | — | — | |
| FoldFlow-2Pretraining=GeoSSL-InfoNCE2026.03 | 33.3 | 0.786 | 0.631 | 0.052 | — | — | |
| FoldFlow-2Pretraining=None2026.03 | 32.9 | 0.81 | 0.62 | 0.183 | — | — | |
| BioMatrix-1.7BSequence prediction protocol=ProteinMPNN, Model Scale=1.7B2026.06 | — | — | — | — | 0.956 | 2.986 | |
| BioMatrix-4BSequence prediction protocol=ProteinMPNN, Model Scale=4B2026.06 | — | — | — | — | 0.963 | 3.067 | |
| DPLM-2-650MSequence prediction protocol=ProteinMPNN, Model Scale=650M2026.06 | — | — | — | — | 0.945 | 4.451 | |
| FoldFlowSequence prediction protocol=ProteinMPNN2026.06 | — | — | — | — | 0.54 | 7.965 | |
| FrameDiffSequence prediction protocol=ProteinMPNN2026.06 | — | — | — | — | 0.818 | 3.919 | |
| Native PDB struct.Sequence prediction protocol=ProteinMPNN2026.06 | — | — | — | — | 0.969 | 0.864 | |
| RFDiffusionSequence prediction protocol=ProteinMPNN2026.06 | — | — | — | — | 0.914 | 1.969 |