Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding
Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.
Overview
Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Results
Each comparison retains its reviewed evaluation scope, dataset and metric. Results are shown without a pooled ranking.
Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: protein_rmsd
protein_rmsd (angstrom) · Lower values are better.
Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding · Plinder-L95
Evidence origin: Independent external evaluation, Author-reported evaluation.
Improving Stereochemical Limitations in Protein–Ligand Complex Structure Prediction · Table 1 (XML tbl1); row AF3; column protein_rmsd; footnote a through Table 1 (XML tbl1); row Boltz R; column protein_rmsd; footnote a- Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.
Comparison details and limitations
Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.
- Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.
- Exact source-defined evaluation scope; reported scores are not rewire reproductions.
Automated source review: 2026-09-19. Numerical source review does not establish independent reproduction.
Dots show point estimates. Whiskers show only explicitly defined uncertainty (standard deviation, standard error or a labelled interval); their definitions remain in Table. Unresolved uncertainty is not plotted. Differences do not establish statistical significance.
Showing 5 of 5 matching rows.
Methods and evaluation design
Procedure, tasks and evaluated configurations
Evaluation design
Benchmarks bring together tasks and protocols. A task describes the biological question; a protocol defines a particular test.
Benchmarks
These source-backed links do not make different protocols or scores interchangeable.
Recorded evaluations
Each evaluation records what was tested and under which conditions.
- Boltz-1 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- Boltz Rc · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- AF3 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- Boltz R1 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- Boltz R · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
Baseline coverage
Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.
0 of 2 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.
No execution recipe linked to this protocol. Recipe availability does not establish a completed evaluation.
No reviewed evaluations with results linked in this release.
Literature evidence is not a Rewire measurement. Executed but unpublished runs and private review status are not included.
Null control
Proposed control: requires review
Protocol-specific valid geometric or structural control
Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.
This is a suggested selection rule, not a validated method or a measured score.
Conventional reference
Proposed control: requires review
Upstream conventional structural reference with matched templates and cutoffs
Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.
This is a suggested selection rule, not a validated method or a measured score.
Protocol coverage CSV · Model evaluation matrix · Source table · Release and checksums
Coverage is derived from release 2026-09-29-06401fd5b220. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.
Run instructions
No runnable recipe has been reviewed for this protocol. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
Strengths, limitations and unresolved questions
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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of discovery-benchmark-plinder Individual claims | Improving Stereochemical Limitations in Protein–Ligand Complex Structure Prediction Table 1 (XML tbl1); row AF3; column protein_rmsd; footnote a Version: version of record | source checked ai assisted source review · 2026-09-19 Audit detailsField: Claim: acquired-membership-87c0192fa2f84a6f0441 Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
View linked audit checks and correction history
Release 2026-09-29-06401fd5b220 · Record review: discovered
1 source records and release history
- Improving Stereochemical Limitations in Protein–Ligand Complex Structure Prediction · Original source · version of record
Technical metadata and extraction receipts
Stable ID: acquired-protocol-127e215c861a6b462f4d
- source locator
- Table 1 (XML tbl1); row AF3; column protein_rmsd; footnote a
- procedure
- Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries
- comparison panels
- id: acquired-figure-8094222acbebcc11b4f2; title: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: protein_rmsd; protocol id: acquired-protocol-127e215c861a6b462f4d; dataset id: acquired-dataset-500bdf8d9750fb032041; metric: protein_rmsd; unit: angstrom; direction: lower; result ids: acquired-result-6faf6c42a6dd8edf0ac2; acquired-result-a4b3c4b66fe18cc9d21b; acquired-result-fce7e3c9c1d46ab98128; acquired-result-32f06faf32d402c4eda5; acquired-result-5263d447621b33ce5e5b; source ids: boltz-stereochemistry-2025; source locator: Table 1 (XML tbl1); row AF3; column protein_rmsd; footnote a through Table 1 (XML tbl1); row Boltz R; column protein_rmsd; footnote a; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19; id: acquired-figure-984715eeec27c077427f; title: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: ligand_rmsd; protocol id: acquired-protocol-127e215c861a6b462f4d; dataset id: acquired-dataset-500bdf8d9750fb032041; metric: ligand_rmsd; unit: angstrom; direction: lower; result ids: acquired-result-3ac1fef23b9aca0a889e; acquired-result-e39503fce61a297296ac; acquired-result-ff4210197bbd7b73b02c; acquired-result-c90ec06e22944401162b; acquired-result-c619fd03d1a8cff7d664; source ids: boltz-stereochemistry-2025; source locator: Table 1 (XML tbl1); row AF3; column ligand_rmsd; footnote a through Table 1 (XML tbl1); row Boltz R; column ligand_rmsd; footnote a; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19; id: acquired-figure-026dd54449724728b3f6; title: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: chirality; protocol id: acquired-protocol-127e215c861a6b462f4d; dataset id: acquired-dataset-500bdf8d9750fb032041; metric: chirality; unit: percent; direction: higher; result ids: acquired-result-560fed6d52eb275f657f; acquired-result-05806c3873a2f94389e5; acquired-result-0edddf6a1e99eb2289f2; acquired-result-e9a8c102cf9958f136c2; acquired-result-34733c1eac027089f71d; source ids: boltz-stereochemistry-2025; source locator: Table 1 (XML tbl1); row AF3; column chirality; footnote a through Table 1 (XML tbl1); row Boltz R; column chirality; footnote a; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19; id: acquired-figure-54111c35cd4da8574346; title: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: bond_rmsd; protocol id: acquired-protocol-127e215c861a6b462f4d; dataset id: acquired-dataset-500bdf8d9750fb032041; metric: bond_rmsd; unit: angstrom; direction: lower; result ids: acquired-result-e9442a7a5700ebd434a1; acquired-result-15f40069a96e46da45b8; acquired-result-c2577f7dbe1d94b392d2; acquired-result-9b8f4c327c80978893d8; acquired-result-650ab29b3de0ece95487; source ids: boltz-stereochemistry-2025; source locator: Table 1 (XML tbl1); row AF3; column bond_rmsd; footnote a through Table 1 (XML tbl1); row Boltz R; column bond_rmsd; footnote a; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19; id: acquired-figure-1ffdfed8865d420ac29f; title: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95 · co-folding: angle_rmsd; protocol id: acquired-protocol-127e215c861a6b462f4d; dataset id: acquired-dataset-500bdf8d9750fb032041; metric: angle_rmsd; unit: degree; direction: lower; result ids: acquired-result-3043640ee3f9040d08cb; acquired-result-22c8b9360b643983347c; acquired-result-4b434a86debce56c5202; acquired-result-089b07d80b56536601c9; acquired-result-56da3028624a73810008; source ids: boltz-stereochemistry-2025; source locator: Table 1 (XML tbl1); row AF3; column angle_rmsd; footnote a through Table 1 (XML tbl1); row Boltz R; column angle_rmsd; footnote a; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. Input conditions: co-folding. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19
- scope limitations
- Exact source-defined evaluation scope; reported scores are not rewire reproductions.
Related records
- part of: PLINDER
- benchmark: Boltz-1 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- benchmark: Boltz Rc · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- benchmark: AF3 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- benchmark: Boltz R1 · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- benchmark: Boltz R · Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries · Plinder-L95
- subject: Paper-specific Plinder-L95 stereochemistry assessment; Table 1 all entries: benchmark membership