Configuration

ProtST

Protein foundation model evaluated by the PFMBench authors under their fine-tuning protocol. Input family: Sequence-Function.

11 evaluations · 11 metric rows

Overview

Protein foundation model evaluated by the PFMBench authors under their fine-tuning protocol. Input family: Sequence-Function.

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

Release 2026-09-17-134cd1815de8 · 11 evaluations · 11 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.

Evaluation setupMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
ProtST on PFMBench ANTI-RES: Antibiotic resistance Configuration: ProtSTTask: PFMBench ANTI-RES: Antibiotic resistanceDataset subset: Antibiotic resistance (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
0.63422 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(Anti.Res.) Source checking is not independent reproduction.
ProtST on PFMBench BINDING-DB: BindingDB Configuration: ProtSTTask: PFMBench BINDING-DB: BindingDBDataset subset: BindingDB (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
0.18886 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(Bind. DB) Source checking is not independent reproduction.
ProtST on PFMBench CLONING-CLF: Cloning CLF Configuration: ProtSTTask: PFMBench CLONING-CLF: Cloning CLFDataset subset: Cloning CLF (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
0.80714 auroc Unit: fraction · Direction: higher	Uncertainty: Not reported Scored: Not reported · Eligible: Not reported	source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Clo. CLF) Source checking is not independent reproduction.
ProtST on PFMBench DEEPLOC2: DeepLoc2 Multi Configuration: ProtSTTask: PFMBench DEEPLOC2: DeepLoc2 MultiDataset subset: DeepLoc2 Multi (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
0.74886 f1 Unit: fraction · Direction: higher	Uncertainty: Not reported Scored: Not reported · Eligible: Not reported	source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(DL2 M.) Source checking is not independent reproduction.
ProtST on PFMBench DEEPSOL: DeepSol Configuration: ProtSTTask: PFMBench DEEPSOL: DeepSolDataset subset: DeepSol (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
0.81951 auroc Unit: fraction · Direction: higher	Uncertainty: Not reported Scored: Not reported · Eligible: Not reported	source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(DeepSol) Source checking is not independent reproduction.
ProtST on PFMBench EC: Enzyme Commission Configuration: ProtSTTask: PFMBench EC: Enzyme CommissionDataset subset: Enzyme Commission (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
0.71761 f1 Unit: fraction · Direction: higher	Uncertainty: Not reported Scored: Not reported · Eligible: Not reported	source checkedpfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(EC) Source checking is not independent reproduction.
ProtST on PFMBench MAT-PROD: Material production Configuration: ProtSTTask: PFMBench MAT-PROD: Material productionDataset subset: Material production (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
0.69261 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(Mat.Pro.) Source checking is not independent reproduction.
ProtST on PFMBench METAL-ION: Metal ion binding Configuration: ProtSTTask: PFMBench METAL-ION: Metal ion bindingDataset subset: Metal ion binding (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
0.51532 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(M. I. Bin.) Source checking is not independent reproduction.
ProtST on PFMBench PDB-BIND: PDBbind Configuration: ProtSTTask: PFMBench PDB-BIND: PDBbindDataset subset: PDBbind (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 .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.
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.
ProtST on PFMBench STABILITY: TAPE_Stability Configuration: ProtSTTask: PFMBench STABILITY: TAPE_StabilityDataset subset: TAPE_Stability (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
0.06623 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(Stability) 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.

0 evidence rows matching the loaded filters