PDBbind (PFMBench split)
The split of PDBbind that PFMBench 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 · 12 evaluations · 12 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.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| DPLM on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.13659 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(PDBBind) Source checking is not independent reproduction. |
| ESM-2 on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.14677 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM-2 [ 35 ]), column(PDBBind) Source checking is not independent reproduction. |
| ESM-C on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.14692 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM-C), column(PDBBind) Source checking is not independent reproduction. |
| ESM3 on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.15572 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM3 [ 18 ]), column(PDBBind) Source checking is not independent reproduction. |
| PGLM on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.16877 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(PGLM [ 5 ]), column(PDBBind) Source checking is not independent reproduction. |
| ProstT5 on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.18344 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProstT5 [ 21 ]), column(PDBBind) Source checking is not independent reproduction. |
| ProtGPT2 on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.13503 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtGPT2 [ 12 ]), column(PDBBind) Source checking is not independent reproduction. |
| ProTrek on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.17322 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProTrek [ 56 ]), column(PDBBind) Source checking is not independent reproduction. |
| ProtST on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0 .19514 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(PDBBind) Source checking is not independent reproduction. |
| ProtT5 on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.20105 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtT5 [ 11 ]), column(PDBBind) Source checking is not independent reproduction. |
| SaProt on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.15549 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(SaProt [ 55 ]), column(PDBBind) Source checking is not independent reproduction. |
| VenusPLM on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.16536 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(VenusPLM [ 59 ]), column(PDBBind) 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
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| description The split of PDBbind that PFMBench evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits. Context-only references | pfmbench primary benchmark evidence No field-specific location recorded Version: 2506.14796v1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| name PDBbind (PFMBench split) Context-only references | pfmbench primary benchmark evidence No field-specific location recorded Version: 2506.14796v1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
Release 2026-09-17-134cd1815de8 · Record review: source checked
1 source records and release history
- pfmbench primary benchmark evidence · Original source · 2506.14796v1
Technical metadata and extraction receipts
Stable ID: pfmbench-dataset-pdbbind
- areas
- proteins-complexes
- missing metadata
- version: unreported; url: unextracted
Related records
- dataset: DPLM on PFMBench PDB-BIND: PDBbind
- dataset: ESM-2 on PFMBench PDB-BIND: PDBbind
- dataset: ESM-C on PFMBench PDB-BIND: PDBbind
- dataset: ESM3 on PFMBench PDB-BIND: PDBbind
- dataset: PGLM on PFMBench PDB-BIND: PDBbind
- dataset: ProstT5 on PFMBench PDB-BIND: PDBbind
- dataset: ProtGPT2 on PFMBench PDB-BIND: PDBbind
- dataset: ProTrek on PFMBench PDB-BIND: PDBbind
- dataset: ProtST on PFMBench PDB-BIND: PDBbind
- dataset: ProtT5 on PFMBench PDB-BIND: PDBbind
- dataset: SaProt on PFMBench PDB-BIND: PDBbind
- dataset: VenusPLM on PFMBench PDB-BIND: PDBbind