Proteus

Overview

Author-evaluated generation configuration; checkpoint/version and sampling parameters remain those described in Appendix B.2.

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

1 evaluation · 5 metric rows. Different protocols are not a single leaderboard.

Filter evaluations

Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Proteus	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)	0.93 designability reported score · higher Uncertainty: Not reported Coverage: generated per run: 500; repeats: 3; note: Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.	Author-reported evaluation · source checked Methods, coverage and source Proteus on Genie 3 short monomer generation designability: Unconditional short monomer Designability Unconditional 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 3 (Proteus), column Designability
Configuration: Proteus	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)	0.24 diversity_tm_05 reported score · higher Uncertainty: Not reported Coverage: generated per run: 500; repeats: 3; note: Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.	Author-reported evaluation · source checked Methods, coverage and source Proteus on Genie 3 short monomer generation diversity-tm-05: Unconditional short monomer Diversity, TM < 0.5 Unconditional 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 3 (Proteus), column Diversity, TM < 0.5
Configuration: Proteus	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)	0.40 diversity_tm_06 reported score · higher Uncertainty: Not reported Coverage: generated per run: 500; repeats: 3; note: Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.	Author-reported evaluation · source checked Methods, coverage and source Proteus on Genie 3 short monomer generation diversity-tm-06: Unconditional short monomer Diversity, TM < 0.6 Unconditional 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 3 (Proteus), column Diversity, TM < 0.6
Configuration: Proteus	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)	0.37 novelty_afdb reported score · higher Uncertainty: Not reported Coverage: generated per run: 500; repeats: 3; note: Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.	Author-reported evaluation · source checked Methods, coverage and source Proteus on Genie 3 short monomer generation novelty-afdb: Unconditional short monomer Novelty, AFDB Unconditional 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 3 (Proteus), column Novelty, AFDB
Configuration: Proteus	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)	0.37 novelty_pdb reported score · higher Uncertainty: Not reported Coverage: generated per run: 500; repeats: 3; note: Three repeated runs; metric-specific valid subsets not assigned a pooled denominator.	Author-reported evaluation · source checked Methods, coverage and source Proteus on Genie 3 short monomer generation novelty-pdb: Unconditional short monomer Novelty, PDB Unconditional 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 3 (Proteus), column Novelty, PDB

Source checking is not independent reproduction. Release 2026-09-23-2b89723c6dd9.

Use this model

How it works, versions and access

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

Inspect claims, sources and review details

Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

0 evidence rows matching the loaded filters