Secondary structure (PFMBench split)
The split of Secondary structure 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 SEC-STRUCT: Secondary structure Configuration: DPLMTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.75695 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ESM-2 on PFMBench SEC-STRUCT: Secondary structure Configuration: ESM-2Task: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.76375 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM-2 [ 35 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ESM-C on PFMBench SEC-STRUCT: Secondary structure Configuration: ESM-CTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.76777 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM-C), column(Sec. Str.) Source checking is not independent reproduction. |
| ESM3 on PFMBench SEC-STRUCT: Secondary structure Configuration: ESM3Task: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.81264 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ESM3 [ 18 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| PGLM on PFMBench SEC-STRUCT: Secondary structure Configuration: PGLMTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.72842 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(PGLM [ 5 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ProstT5 on PFMBench SEC-STRUCT: Secondary structure Configuration: ProstT5Task: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 .81397 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProstT5 [ 21 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ProtGPT2 on PFMBench SEC-STRUCT: Secondary structure Configuration: ProtGPT2Task: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.49371 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtGPT2 [ 12 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ProTrek on PFMBench SEC-STRUCT: Secondary structure Configuration: ProTrekTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.77363 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProTrek [ 56 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ProtST on PFMBench SEC-STRUCT: Secondary structure Configuration: ProtSTTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.68468 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| ProtT5 on PFMBench SEC-STRUCT: Secondary structure Configuration: ProtT5Task: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.77978 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(ProtT5 [ 11 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| SaProt on PFMBench SEC-STRUCT: Secondary structure Configuration: SaProtTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.82389 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(SaProt [ 55 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| VenusPLM on PFMBench SEC-STRUCT: Secondary structure Configuration: VenusPLMTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) 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 | ||
| 0.71637 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(VenusPLM [ 59 ]), column(Sec. Str.) 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 Secondary structure 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 Secondary structure (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-secondary-structure
- areas
- proteins-complexes
- missing metadata
- version: unreported; url: unextracted
Related records
- dataset: DPLM on PFMBench SEC-STRUCT: Secondary structure
- dataset: ESM-2 on PFMBench SEC-STRUCT: Secondary structure
- dataset: ESM-C on PFMBench SEC-STRUCT: Secondary structure
- dataset: ESM3 on PFMBench SEC-STRUCT: Secondary structure
- dataset: PGLM on PFMBench SEC-STRUCT: Secondary structure
- dataset: ProstT5 on PFMBench SEC-STRUCT: Secondary structure
- dataset: ProtGPT2 on PFMBench SEC-STRUCT: Secondary structure
- dataset: ProTrek on PFMBench SEC-STRUCT: Secondary structure
- dataset: ProtST on PFMBench SEC-STRUCT: Secondary structure
- dataset: ProtT5 on PFMBench SEC-STRUCT: Secondary structure
- dataset: SaProt on PFMBench SEC-STRUCT: Secondary structure
- dataset: VenusPLM on PFMBench SEC-STRUCT: Secondary structure