Evaluation

Published RFdiffusion designs, re-synthesised and tested by the AlphaProteo authors on IL-7RA (best KD by HTRF, Table S2)

Another group's published designs, measured and reported by this source's authors; transcribed, not reproduced.

Evaluation results

1 evaluation · 1 result. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Published RFdiffusion designs, re-synthesised and tested by the AlphaProteo authors	Protocol: AlphaProteo best per-target binder affinity by HTRF Dataset: AlphaProteo binder design target IL-7RA	14.1 Dissociation constant (best KD by HTRF among the designs tested for this design system) nanomolar · lower Uncertainty: Not reported by the source: No interval is printed. Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table S2 prints the RFdiffusion yeast-display success rate for IL-7RA as 16.8% and Table 1 rounds it to 17, but Section S4.1 states it in the text as '16% versus 33%'. Section S4.1 also states TrkA as '0% (versus 6%)' where Table S2 prints 0.0 and 6.3. The table values are recorded; the text rounds down rather than to nearest.De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) · Table 1; Table S2; Section S4.1 Methods, coverage and source Published RFdiffusion designs, re-synthesised and tested by the AlphaProteo authors on IL-7RA (best KD by HTRF, Table S2) uc-binder-20261022-protocol-alphaproteo-htrf-kd Aggregation: Not reported De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) · Table S2, 'Binding KD (nM)' block, row 'RFdiffusion (our measurement)', column 'IL-7RA'

Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.

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Readiness checks, gaps and artifacts

Release 2026-10-22-1b7cf027e4f6 · Evidence verified: Not verified

Evidence incomplete

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Verified: Not verified

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Investigate discrepancies

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Dependence between samples is assessed: not yet verified

Verified: Not verified

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Evaluation procedure

AlphaProteo best per-target binder affinity by HTRF

Configuration: Published RFdiffusion designs, re-synthesised and tested by the AlphaProteo authors
Protocol: AlphaProteo best per-target binder affinity by HTRF
Dataset: AlphaProteo binder design target IL-7RA

origin: Independent external evaluation
configuration: arXiv:2409.08022v1 Table S2
adaptation: Not reported
aggregation: Over the designs tested for this design system and target
budget: Not reported
dataset version: IL-7RA, Table S1 input structure
inputs: Not reported
metric implementation: Best (lowest) KD among expressed hits, by HTRF
population: Not reported
protocol id: uc-binder-20261022-protocol-alphaproteo-htrf-kd
split: Not reported

Metadata review: source checked. Unreported conditions prevent automatic comparisons.

Reproduction

Split: Not reported
Adaptation: Not reported
Scoring implementation: Best (lowest) KD among expressed hits, by HTRF

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

Evidence

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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.

19 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance
Comparison: adaptation Not reported Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	missing or unspecified No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.adaptation` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: aggregation Over the designs tested for this design system and target Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	not individually reviewed No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.aggregation` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: budget Not reported Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	missing or unspecified No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.budget` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: dataset version IL-7RA, Table S1 input structure Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	not individually reviewed No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.dataset_version` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: inputs Not reported Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	missing or unspecified No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.inputs` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: metric implementation Best (lowest) KD among expressed hits, by HTRF Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	not individually reviewed No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.metric_implementation` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: population Not reported Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	missing or unspecified No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.population` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: protocol id uc-binder-20261022-protocol-alphaproteo-htrf-kd Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	not individually reviewed No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.protocol_id` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Comparison: split Not reported Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	missing or unspecified No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.comparison.split` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact
Denominator 95 Context-only references	De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) Original source ↗ Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)' Version: arXiv version 1, posted 2024-09-12; full-text PDF (49 pages) Retrieved: 2026-10-22T11:53:00Z	not individually reviewed No individual claim review recorded independent paper Source has a recorded evidence concern. Consult its source page before using the claim. Audit details Field: `attributes.denominator` Source artifact SHA-256: `953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42` Hash scope: SHA-256 of one retrieval of the arXiv v1 PDF on 2026-10-22. Inspected artifact

How to read the evidence

Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

1 source record and release history

De novo design of high-affinity protein binders with AlphaProteo (Zambaldi et al., arXiv 2024) · Original source · arXiv version 1, posted 2024-09-12; full-text PDF (49 pages)

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Technical metadata and extraction receipts

Stable ID: uc-binder-20261022-eval-alphaproteo-s2-kd-rfdiffusion-published-designs-il7ra-main

areas: proteins-complexes; protein-structure
contexts: research
comparison: adaptation: Not reported; aggregation: Over the designs tested for this design system and target; budget: Not reported; dataset version: IL-7RA, Table S1 input structure; inputs: Not reported; metric implementation: Best (lowest) KD among expressed hits, by HTRF; population: Not reported; protocol id: uc-binder-20261022-protocol-alphaproteo-htrf-kd; split: Not reported
denominator: 95
missing metadata: comparison.adaptation: note: The filtering and selection funnels differ between the arms and parity is unverified, so this field is left null to block automatic comparison.; reason: conflicting; comparison.budget: note: A flat 95 published designs per target against 94 to 172 AlphaProteo designs chosen per target indicates two separate ordering decisions.; reason: conflicting; comparison.inputs: note: The inputs that produced the published RFdiffusion designs are not restated here.; reason: unreported; comparison.population: note: Section S4.1 shows the RFdiffusion designs were selected by the RFdiffusion authors and the AlphaProteo designs by the AlphaProteo filter, so the two tested populations are not matched and no shared population can be stated.; reason: conflicting; comparison.split: note: A design campaign, not a train/test split.; reason: inapplicable
origin: independent_paper
protocol: uc-binder-20261022-protocol-alphaproteo-htrf-kd
review: artifact sha256: 953b35644c0fa06ff090d7614c2e19525831f8fde50242e176d54474133c5a42; method: source-hash-verification; independent-cell-check; ai-assisted-source-review; method note: Re-downloaded with curl (HTTP 200, 12,333,400 bytes) and the SHA-256 recomputed and matched. Own text layer made with pdftotext -layout (poppler 26.08.0), reproducing the extraction pass's 2,811 lines. Table 1, Table S2, Table S3 and Sections S1.2.1, S2, S4.1 and S4.2 read cell by cell and compared with every record. Column assignment re-derived arithmetically rather than trusted.; note: Reviewed in docs/reviews/use-cases/binder-2026-10-22.md. Automated AI review of the source transcription only; it is not human scientific review and nothing here was reproduced experimentally.; retrieval url: https://arxiv.org/pdf/2409.08022v1; reviewed at: 2026-10-22T15:00:00Z; reviewer: claude; reviewer note: Claude review agent, independent of the extraction agent; no human review claimed
source locator: Table S2, column 'IL-7RA', row 'RFdiffusion (our measurement)'
version: arXiv:2409.08022v1 Table S2

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