Protpardelle-1c (cc94)
Author-evaluated generation configuration; checkpoint/version and sampling parameters remain those described in Appendix B.2.
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Evaluations and results
1 evaluation · 5 results. Different protocols are not a single leaderboard.
Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split)
Sorted by Designability (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
All 5 result rows with coverage, uncertainty and sources
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Protpardelle-1c (cc94) | Protocol: Genie 3 short monomer generation designability: Unconditional short monomer Designability Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split) | 0.97 Designability unitless · higher Uncertainty: Not yet extracted Coverage: 500 generated per run, 3 repeats (Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.) | Author-reported evaluation · Source checkedMethods, coverage and sourceUnconditional short monomer generation: 100 structures at each length 50, 100, 150, 200 and 250 (500 samples per run); 3 repeated runs; Table 3 reports the authors’ average across runs. Designability uses minimum C-alpha scRMSD <2 angstrom across 8 ProteinMPNN sequences refolded with ESMFold. Diversity and novelty use FoldSeek release 10 (2025-01-19); exact definitions and reference sets in Appendix B.1. Method-specific checkpoints and sampling settings remain as Appendix B.2. Aggregation: Mean over three repeated runs Genie 3 primary paper v1, Table 3 · PDF page 20, Appendix B.3, Table 3, data row 10 (Protpardelle-1c (cc94)), column Designability |
| Configuration: Protpardelle-1c (cc94) | Protocol: Genie 3 short monomer generation diversity-tm-05: Unconditional short monomer Diversity, TM < 0.5 Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split) | 0.13 Genie diversity TM 0 5 unitless · higher Uncertainty: Not yet extracted Coverage: 500 generated per run, 3 repeats (Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.) | Author-reported evaluation · Source checkedMethods, coverage and sourceUnconditional short monomer generation: 100 structures at each length 50, 100, 150, 200 and 250 (500 samples per run); 3 repeated runs; Table 3 reports the authors’ average across runs. Designability uses minimum C-alpha scRMSD <2 angstrom across 8 ProteinMPNN sequences refolded with ESMFold. Diversity and novelty use FoldSeek release 10 (2025-01-19); exact definitions and reference sets in Appendix B.1. Method-specific checkpoints and sampling settings remain as Appendix B.2. Aggregation: Mean over three repeated runs Genie 3 primary paper v1, Table 3 · PDF page 20, Appendix B.3, Table 3, data row 10 (Protpardelle-1c (cc94)), column Diversity, TM < 0.5 |
| Configuration: Protpardelle-1c (cc94) | Protocol: Genie 3 short monomer generation diversity-tm-06: Unconditional short monomer Diversity, TM < 0.6 Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split) | 0.34 Genie diversity TM 0 6 unitless · higher Uncertainty: Not yet extracted Coverage: 500 generated per run, 3 repeats (Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.) | Author-reported evaluation · Source checkedMethods, coverage and sourceUnconditional short monomer generation: 100 structures at each length 50, 100, 150, 200 and 250 (500 samples per run); 3 repeated runs; Table 3 reports the authors’ average across runs. Designability uses minimum C-alpha scRMSD <2 angstrom across 8 ProteinMPNN sequences refolded with ESMFold. Diversity and novelty use FoldSeek release 10 (2025-01-19); exact definitions and reference sets in Appendix B.1. Method-specific checkpoints and sampling settings remain as Appendix B.2. Aggregation: Mean over three repeated runs Genie 3 primary paper v1, Table 3 · PDF page 20, Appendix B.3, Table 3, data row 10 (Protpardelle-1c (cc94)), column Diversity, TM < 0.6 |
| Configuration: Protpardelle-1c (cc94) | Protocol: Genie 3 short monomer generation novelty-afdb: Unconditional short monomer Novelty, AFDB Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split) | 0.28 Genie novelty afdb unitless · higher Uncertainty: Not yet extracted Coverage: 500 generated per run, 3 repeats (Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.) | Author-reported evaluation · Source checkedMethods, coverage and sourceUnconditional short monomer generation: 100 structures at each length 50, 100, 150, 200 and 250 (500 samples per run); 3 repeated runs; Table 3 reports the authors’ average across runs. Designability uses minimum C-alpha scRMSD <2 angstrom across 8 ProteinMPNN sequences refolded with ESMFold. Diversity and novelty use FoldSeek release 10 (2025-01-19); exact definitions and reference sets in Appendix B.1. Method-specific checkpoints and sampling settings remain as Appendix B.2. Aggregation: Mean over three repeated runs Genie 3 primary paper v1, Table 3 · PDF page 20, Appendix B.3, Table 3, data row 10 (Protpardelle-1c (cc94)), column Novelty, AFDB |
| Configuration: Protpardelle-1c (cc94) | Protocol: Genie 3 short monomer generation novelty-pdb: Unconditional short monomer Novelty, PDB Dataset subset: 500 generated monomers per run; lengths 50–250 in steps of 50; three runs (Genie 3 short monomer generation split) | 0.28 Genie novelty pdb unitless · higher Uncertainty: Not yet extracted Coverage: 500 generated per run, 3 repeats (Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.) | Author-reported evaluation · Source checkedMethods, coverage and sourceUnconditional short monomer generation: 100 structures at each length 50, 100, 150, 200 and 250 (500 samples per run); 3 repeated runs; Table 3 reports the authors’ average across runs. Designability uses minimum C-alpha scRMSD <2 angstrom across 8 ProteinMPNN sequences refolded with ESMFold. Diversity and novelty use FoldSeek release 10 (2025-01-19); exact definitions and reference sets in Appendix B.1. Method-specific checkpoints and sampling settings remain as Appendix B.2. Aggregation: Mean over three repeated runs Genie 3 primary paper v1, Table 3 · PDF page 20, Appendix B.3, Table 3, data row 10 (Protpardelle-1c (cc94)), column Novelty, PDB |
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Sources and history
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
1 source record and release history
- Genie 3 primary paper v1, Table 3 · Original source · 10.64898/2026.05.01.722168v1; posted 2026-05-05
Technical metadata and extraction receipts
Stable ID: genie3-2026-table3-method-protpardelle-1c-cc94
- areas
- proteins-complexes
- source locator
- Appendix B.2–B.3; Table 3, row Protpardelle-1c (cc94)
- missing metadata
- checkpoint revision: reason: unreported; parameters: reason: unextracted
Related records
- system: Protpardelle-1c (cc94) on Genie 3 short monomer generation designability: Unconditional short monomer Designability
- system: Protpardelle-1c (cc94) on Genie 3 short monomer generation diversity-tm-05: Unconditional short monomer Diversity, TM < 0.5
- system: Protpardelle-1c (cc94) on Genie 3 short monomer generation diversity-tm-06: Unconditional short monomer Diversity, TM < 0.6
- system: Protpardelle-1c (cc94) on Genie 3 short monomer generation novelty-afdb: Unconditional short monomer Novelty, AFDB
- system: Protpardelle-1c (cc94) on Genie 3 short monomer generation novelty-pdb: Unconditional short monomer Novelty, PDB