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Dataset subset

RAbD, 55 antibody-antigen complexes (ProteinBench split)

The split of RAbD, 55 antibody-antigen complexes that ProteinBench evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits.

Subset and evaluation context

This record describes a particular subset or cohort used in an evaluation. Its results do not describe the full dataset.

Evaluation results

Release 2026-09-17-134cd1815de8 · 84 evaluations · 84 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.

Results grouped by the exact reported evaluation
Metric and findingCoverage and uncertaintyEvidence
AbDPO on ProteinBench AB-ACCURACY-RMSD: Accuracy RMSD

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.79 ± 3.01 rmsd

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 3.01

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Accuracy RMSD ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-ACCURACY-TM-SCORE: Accuracy TM-score

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.35 ± 0.06 tm-score

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 0.06

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Accuracy TM-score ↑)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-FUNCTIONALITY-BINDING-ENERGY: Functionality Binding Energy

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

116.06 ± 186.06 binding-energy

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 186.06

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Functionality Binding Energy ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-CLASHES-INNER: Rationality Clashes-inner

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

4.14 ± 1.84 clashes-inner

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 1.84

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality Clashes-inner ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-CLASHES-OUTER: Rationality Clashes-outer

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0 .10 ± 0.24 clashes-outer

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 0.24

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality Clashes-outer ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-CN-SCORE: Rationality CN-score

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

1.33 ± 2.31 cn-score

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 2.31

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality CN-score ↑)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-SCRMSD: Rationality scRMSD

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.79 ± 3.25 scrmsd

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 3.25

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality scRMSD ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-SEQNAT: Rationality SeqNat

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

-1.99 ± 0.34 seqnat

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 0.34

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality SeqNat ↑)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-RATIONALITY-TOTAL-ENERGY: Rationality Total Energy

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

270.12 ± 217.45 total-energy

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 217.45

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Rationality Total Energy ↓)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-SPECIFICITY-SEQSIM-INNER: Specificity SeqSim-inner

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0 .60 seqsim-inner

Unit: score · Direction: higher

Uncertainty: Not reported

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Specificity SeqSim-inner ↑)

Source checking is not independent reproduction.

AbDPO on ProteinBench AB-SPECIFICITY-SEQSIM-OUTER: Specificity SeqSim-outer

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0 .38 seqsim-outer

Unit: score · Direction: lower

Uncertainty: Not reported

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO), column(Specificity SeqSim-outer ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-ACCURACY-RMSD: Accuracy RMSD

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.48 ± 0.59 rmsd

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 0.59

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Accuracy RMSD ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-ACCURACY-TM-SCORE: Accuracy TM-score

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.35 ± 0.06 tm-score

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 0.06

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Accuracy TM-score ↑)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-FUNCTIONALITY-BINDING-ENERGY: Functionality Binding Energy

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2 23.73 ± 281.7 binding-energy

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 281.7

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Functionality Binding Energy ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-CLASHES-INNER: Rationality Clashes-inner

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

1.66 ± 1.28 clashes-inner

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 1.28

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality Clashes-inner ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-CLASHES-OUTER: Rationality Clashes-outer

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.08 ± 0.20 clashes-outer

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 0.20

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality Clashes-outer ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-CN-SCORE: Rationality CN-score

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.34 ± 3.20 cn-score

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 3.20

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality CN-score ↑)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-SCRMSD: Rationality scRMSD

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.50 ± 0.75 scrmsd

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 0.75

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality scRMSD ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-SEQNAT: Rationality SeqNat

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

- 1.78 ± 0.43 seqnat

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 0.43

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality SeqNat ↑)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-RATIONALITY-TOTAL-ENERGY: Rationality Total Energy

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

3 38.14 ± 266.48 total-energy

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 266.48

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Rationality Total Energy ↓)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-SPECIFICITY-SEQSIM-INNER: Specificity SeqSim-inner

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.54 seqsim-inner

Unit: score · Direction: higher

Uncertainty: Not reported

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Specificity SeqSim-inner ↑)

Source checking is not independent reproduction.

AbDPO++ on ProteinBench AB-SPECIFICITY-SEQSIM-OUTER: Specificity SeqSim-outer

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.39 seqsim-outer

Unit: score · Direction: lower

Uncertainty: Not reported

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(AbDPO++), column(Specificity SeqSim-outer ↓)

Source checking is not independent reproduction.

DiffAb on ProteinBench AB-ACCURACY-RMSD: Accuracy RMSD

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

2.53 ± 0.60 rmsd

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 0.60

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(DiffAb), column(Accuracy RMSD ↓)

Source checking is not independent reproduction.

DiffAb on ProteinBench AB-ACCURACY-TM-SCORE: Accuracy TM-score

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

0.37 ± 0.06 tm-score

Unit: score · Direction: higher

Uncertainty: type: standard deviation; value: 0.06

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(DiffAb), column(Accuracy TM-score ↑)

Source checking is not independent reproduction.

DiffAb on ProteinBench AB-FUNCTIONALITY-BINDING-ENERGY: Functionality Binding Energy

Antibody design on the 55 antibody-antigen complexes of the RAbD set.

Author-reported evaluation · Evaluation metadata: source checked

489.42 ± 499.76 binding-energy

Unit: score · Direction: lower

Uncertainty: type: standard deviation; value: 499.76

Scored: Not reported · Eligible: Not reported

source checkedproteinbench primary benchmark evidence · Table 6, row(DiffAb), column(Functionality Binding Energy ↓)

Source checking is not 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.

2 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-17-134cd1815de8
Property and statementOriginal source and locationReview and provenance
description

The split of RAbD, 55 antibody-antigen complexes that ProteinBench evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits.

Context-only references
proteinbench primary benchmark evidence

Original source ↗

No field-specific location recorded

Version: 2409.06744v1
Retrieved: 2026-09-16T21:07:13.231727+00:00

not individually reviewed

No individual claim review recorded

Audit details

Field: description

Source artifact SHA-256: 4334d636223ad42bfb9ae68aae03f5a255c29ba1cebe7b8f9588fb3b9b5453b2

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

name

RAbD, 55 antibody-antigen complexes (ProteinBench split)

Context-only references
proteinbench primary benchmark evidence

Original source ↗

No field-specific location recorded

Version: 2409.06744v1
Retrieved: 2026-09-16T21:07:13.231727+00:00

not individually reviewed

No individual claim review recorded

Audit details

Field: name

Source artifact SHA-256: 4334d636223ad42bfb9ae68aae03f5a255c29ba1cebe7b8f9588fb3b9b5453b2

Hash scope: Exact retrieved primary paper artifact bytes.

Inspected artifact

Sources and history

Release 2026-09-17-134cd1815de8 · Record review: source checked

1 source records and release historyDownload this release
Technical metadata and extraction receipts

Stable ID: proteinbench-dataset-rabd-55-antibody-antigen-complexes

areas
proteins-complexes
missing metadata
version: unreported; url: unextracted
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