Configuration

ProtST

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

11 evaluations · 11 results

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

11 evaluations · 11 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: ProtST	Task: PFMBench ANTI-RES: Antibiotic resistance Dataset subset: Antibiotic resistance (PFMBench split)	0.634 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench ANTI-RES: Antibiotic resistance Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Anti.Res.)
Configuration: ProtST	Task: PFMBench BINDING-DB: BindingDB Dataset subset: BindingDB (PFMBench split)	0.189 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench BINDING-DB: BindingDB Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Bind. DB)
Configuration: ProtST	Task: PFMBench CLONING-CLF: Cloning CLF Dataset subset: Cloning CLF (PFMBench split)	0.807 auroc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench CLONING-CLF: Cloning CLF Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Clo. CLF)
Configuration: ProtST	Task: PFMBench DEEPLOC2: DeepLoc2 Multi Dataset subset: DeepLoc2 Multi (PFMBench split)	0.749 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench DEEPLOC2: DeepLoc2 Multi Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(DL2 M.)
Configuration: ProtST	Task: PFMBench DEEPSOL: DeepSol Dataset subset: DeepSol (PFMBench split)	0.82 auroc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench DEEPSOL: DeepSol Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(DeepSol)
Configuration: ProtST	Task: PFMBench EC: Enzyme Commission Dataset subset: Enzyme Commission (PFMBench split)	0.718 f1 fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench EC: Enzyme Commission Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(EC)
Configuration: ProtST	Task: PFMBench MAT-PROD: Material production Dataset subset: Material production (PFMBench split)	0.693 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench MAT-PROD: Material production Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Mat.Pro.)
Configuration: ProtST	Task: PFMBench METAL-ION: Metal ion binding Dataset subset: Metal ion binding (PFMBench split)	0.515 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench METAL-ION: Metal ion binding Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(M. I. Bin.)
Configuration: ProtST	Task: PFMBench PDB-BIND: PDBbind Dataset subset: PDBbind (PFMBench split)	0 .19514 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(PDBBind)
Configuration: ProtST	Task: PFMBench SEC-STRUCT: Secondary structure Dataset subset: Secondary structure (PFMBench split)	0.685 accuracy fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench SEC-STRUCT: Secondary structure Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Sec. Str.)
Configuration: ProtST	Task: PFMBench STABILITY: TAPE_Stability Dataset subset: TAPE_Stability (PFMBench split)	0.0662 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source ProtST on PFMBench STABILITY: TAPE_Stability Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Aggregation: Not reported pfmbench primary benchmark evidence · Table 3, row(ProtST [ 71 ]), column(Stability)

Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.

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Evidence

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