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1 evaluation · 1 result. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: AlphaFold3 3.0.1, 50 diffusion samples, seed 1, built-in data pipeline (Smorodina et al. 2026) | Protocol: Telling cognate from shuffled nanobody-antigen pairs by ipTM Dataset: Smorodina et al. 2026 all-against-all VHH-antigen pairing matrix (91 unique PDB entries) | 0.187 average-precision unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceAF3 on Telling cognate from shuffled nanobody-antigen pairs by ipTM (Smorodina et al. 2026) structural-20261009-protocol-smorodina2026-vhh-cognate-vs-shuffled Aggregation: Not reported Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores · Results P11, 'AP = 0.187' for AF3 |
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structural-20261009-protocol-smorodina2026-vhh-cognate-vs-shuffled
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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 P11, 'AF3' AP Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse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 One curve over all pairings Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P11, 'AF3' AP Version: bioRxiv version 1, posted 2026-03-03; Europe PMC preprint full text PPR1221387 (manuscript EMS215481); not peer reviewed | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: JATS XML parse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 50 samples per pairing; best ipTM per pairing Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P11, 'AF3' AP 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 P11, 'AF3' AP 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 P11, 'AF3' AP 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 Average precision of the precision-recall curve Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P11, 'AF3' AP 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 All pairings over 91 unique PDB entries Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P11, 'AF3' AP 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-cognate-vs-shuffled Context-only references | Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores Results P11, 'AF3' AP 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 P11, 'AF3' AP 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 P11, 'AF3' AP 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-cognate-vs-shuffled-af3