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1 evaluation · 2 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Boltz-2 via Boltz CLI v2.2.0, 50 diffusion samples, seed 42, MSA server (Smorodina et al. 2026) | Protocol: Best DockQ against sampling depth on cognate nanobody-antigen complexes Dataset: Smorodina et al. 2026 nanobody-antigen benchmark: 106 cognate VHH-antigen complexes | 0.57 dockq unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcestructural-20261009-protocol-smorodina2026-vhh-dockq-vs-sampling Aggregation: Not reported Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores · Results P36, Boltz-2 (0.57 to 0.80), N = 1 |
| Configuration: Boltz-2 via Boltz CLI v2.2.0, 50 diffusion samples, seed 42, MSA server (Smorodina et al. 2026) | Protocol: Best DockQ against sampling depth on cognate nanobody-antigen complexes Dataset: Smorodina et al. 2026 nanobody-antigen benchmark: 106 cognate VHH-antigen complexes | 0.8 dockq unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcestructural-20261009-protocol-smorodina2026-vhh-dockq-vs-sampling Aggregation: Not reported Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores · Results P36, Boltz-2 (0.57 to 0.80), N = 100 |
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structural-20261009-protocol-smorodina2026-vhh-dockq-vs-sampling
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19 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.comparison.adaptation None Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.aggregation Median over complexes of the per-complex maximum Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.budget 5 seeds; N = 1 and N = 100 samples Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.dataset_version bioRxiv v1 benchmark Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.inputs VHH and antigen sequences Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.metric_implementation DockQ v2.1.3 Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.population 106 cognate complexes Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.protocol_id structural-20261009-protocol-smorodina2026-vhh-dockq-vs-sampling Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
| attributes.comparison.split Mixed: systems inside and outside the tool's training data Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
attributes.limitations1 values
| Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P36, 'Boltz-2' Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse (xml.etree), by extract/extract_structural.py |
Release 2026-10-10-6e93f504adfc · Record review: source checked
Stable ID: structural-20261009-eval-smorodina2026-vhh-dockq-vs-sampling-boltz2