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Training and evaluation data, with the modality, task and licence stated up front. Listed live from the Hugging Face Hub.

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01AI4Protein /EC_AlphaFold2 EC Dataset with AlphaFold2 Structural Sequence Description: The Enzyme Commission number (EC number) is a numerical classification scheme for enzymes, based on the chemical reactions they catalyze. Number of labels: 585 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence Github Simple, Efficient and Scalable Structure-aware Adapter… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/EC_AlphaFold2.texttext-classification10K<n<100K2 likes112 downloads8mo agoHugging Face02AI4Protein /MetalIonBinding_AlphaFold2 MetalIonBinding Dataset with AlphaFold2 Structural Sequence Description: Metal-binding proteins are proteins or protein domains that chelate a metal ion. Number of labels: 2 Problem Type: single_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence ss3_seq: DSSP 3 secondary structure sequence esm3_structure_seq: ESM3 structure sequence encoded by VQ-VAE Github… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/MetalIonBinding_AlphaFold2.texttext-classification1K<n<10K0 likes108 downloads1y agoHugging Face03AI4Protein /Thermostability_AlphaFold2 Thermostability Dataset with AlphaFold2 Structural Sequence Description: In materials science and molecular biology, thermostability is the ability of a substance to resist irreversible change in its chemical or physical structure, often by resisting decomposition or polymerization, at a high relative temperature. Number of labels: 1 Problem Type: regression Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/Thermostability_AlphaFold2.tabulartext-classification1K<n<10K0 likes100 downloads1y agoHugging Face04AI4Protein /DeepLocBinary_AlphaFold2 DeepLocBinary Dataset with AlphaFold2 Structural Sequence Description: Protein localization encompasses the processes that establish and maintain proteins at specific locations. Number of labels: 2 Problem Type: single_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence location: On the membrane or not Github Simple, Efficient and Scalable Structure-aware… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLocBinary_AlphaFold2.texttext-classification1K<n<10K0 likes93 downloads1y agoHugging Face05AI4Protein /GO_MF_AlphaFold2 GO-MF Dataset with AlphaFold2 Structural Sequence Description: Molecular Function of Gene Ontology (GO) project. Number of labels: 489 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/GO_MF_AlphaFold2.texttext-classification10K<n<100K0 likes80 downloads1y agoHugging Face06AI4Protein /GO_BP_AlphaFold2 GO-BP Dataset with AlphaFold2 Structural Sequence Description: Biological Process of Gene Ontology (GO) project. Number of labels: 1943 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/GO_BP_AlphaFold2.texttext-classification10K<n<100K0 likes65 downloads1y agoHugging Face07AI4Protein /DeepLocMulti_AlphaFold2 DeepLocMulti Dataset with AlphaFold2 Structural Sequence Description: Protein localization encompasses the processes that establish and maintain proteins at specific locations. Number of labels: 10 Problem Type: single_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence location: Specific location Github Simple, Efficient and Scalable Structure-aware… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLocMulti_AlphaFold2.texttext-classification10K<n<100K0 likes64 downloads1y agoHugging Face08AI4Protein /GO_CC_AlphaFold2 GO-CC Dataset with AlphaFold2 Structural Sequence Description: Cellular Component of Gene Ontology (GO) project. Number of labels: 320 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence foldseek_seq: foldseek 20 3di structural sequence ss8_seq: DSSP 8 secondary structure sequence Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/GO_CC_AlphaFold2.texttext-classification10K<n<100K0 likes63 downloads1y agoHugging Face09AI4Protein /eSOL_AlphaFold2 eSOL Dataset Description: Solubility is a fundamental protein property that has important connotations for therapeutics and use in diagnosis. Number of labels: 1 Problem Type: regression Columns: aa_seq: protein amino acid sequence gene: gene id Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset.… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/eSOL_AlphaFold2.tabulartext-classification1K<n<10K0 likes41 downloads1y agoHugging Face10AI4Protein /GO_AlphaFold2_PDB GO PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts Protein Language… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/GO_AlphaFold2_PDB.text-classification0 likes38 downloads1y agoHugging Face11AI4Protein /DeepLocMulti_AlphaFold2_PDB DeepLocMulti PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLocMulti_AlphaFold2_PDB.text-classification0 likes36 downloads1y agoHugging Face12AI4Protein /DeepLoc2Multi_AlphaFold2 DeepLoc2Multi_AlphaFold2 Dataset Description: Protein localization encompasses the processes that establish and maintain proteins at specific locations. Number of labels: 2 Problem Type: single_label_classification Columns: aa_seq: protein amino acid sequence detail: meta information Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLoc2Multi_AlphaFold2.texttext-classification10K<n<100K0 likes30 downloads1y agoHugging Face13AI4Protein /SortingSignal_AlphaFold2 SortingSignal Dataset Description: Protein sorting signal prediction. Number of labels: 9 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2025venusfactory, title={VenusFactory: A Unified Platform for… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/SortingSignal_AlphaFold2.texttext-classification1K<n<10K0 likes29 downloads1y agoHugging Face14AI4Protein /MetalIonBinding_AlphaFold2_PDB MetalIonBinding PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/MetalIonBinding_AlphaFold2_PDB.text-classification0 likes27 downloads1y agoHugging Face15AI4Protein /Thermostability_AlphaFold2_PDB Thermostability PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/Thermostability_AlphaFold2_PDB.text-classification1 likes27 downloads1y agoHugging Face16AI4Protein /EC_AlphaFold2_PDB EC PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts Protein Language… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/EC_AlphaFold2_PDB.text-classification0 likes26 downloads1y agoHugging Face17AI4Protein /DeepET_Topt_AlphaFold2_PDB Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2025venusfactory, title={VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning}, author={Tan, Yang and Liu, Chen and Gao, Jingyuan and Wu, Banghao and Li, Mingchen and Wang, Ruilin and Zhang, Lingrong and… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepET_Topt_AlphaFold2_PDB.0 likes26 downloads1y agoHugging Face18AI4Protein /VenusX_Dom_AlphaFold2_PDB0 likes25 downloads1y agoHugging Face19AI4Protein /DeepLocBinary_AlphaFold2_PDB DeepLocBinary PDB Dataset Github Simple, Efficient and Scalable Structure-aware Adapter Boosts Protein Language Models https://github.com/tyang816/SES-Adapter VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2024ses-adapter, title={Simple, Efficient, and Scalable Structure-Aware Adapter Boosts… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLocBinary_AlphaFold2_PDB.text-classification0 likes23 downloads1y agoHugging Face20AI4Protein /eSOL_AlphaFold2_PDB Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2025venusfactory, title={VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning}, author={Tan, Yang and Liu, Chen and Gao, Jingyuan and Wu, Banghao and Li, Mingchen and Wang, Ruilin and Zhang, Lingrong and… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/eSOL_AlphaFold2_PDB.0 likes22 downloads1y agoHugging Face21AI4Protein /SortingSignal_AlphaFold2_PDB SortingSignal_AlphaFold2_PDB Dataset Description: Protein sorting signal prediction. Number of labels: 9 Problem Type: multi_label_classification Columns: aa_seq: protein amino acid sequence Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2025venusfactory, title={VenusFactory: A Unified… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/SortingSignal_AlphaFold2_PDB.text-classification0 likes22 downloads1y agoHugging Face22bjornshomelab /alphafold2-fold-switching-sensitivity AlphaFold2 Fold-Switching Sensitivity Analysis Systematic RMSD analysis of 183 proteins from the DeepMind fold-switching benchmark, comparing AlphaFold2 predictions under baseline vs decoy input conditions, with a random perturbation control to establish a noise baseline. Dataset Summary This dataset contains per-protein RMSD values comparing AlphaFold2 predictions to experimentally determined structures under three conditions: Baseline vs Experimental — standard… See the full description on the dataset page: https://huggingface.co/datasets/bjornshomelab/alphafold2-fold-switching-sensitivity.tabularn<1K0 likes21 downloads5mo agoHugging Face23AI4Protein /DeepLoc2Multi_AlphaFold2_PDB DeepLoc2Multi_AlphaFold2_PDB Dataset Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please cite our work if you use our dataset. @article{tan2025venusfactory, title={VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning}, author={Tan, Yang and Liu, Chen and Gao, Jingyuan and Wu, Banghao and Li… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepLoc2Multi_AlphaFold2_PDB.text-classification0 likes20 downloads1y agoHugging Face24AI4Protein /DeepET_Topt_AlphaFold2 DeepET_Topt Dataset Description: protein optimum temperature. Number of labels: 1 Problem Type: regression Columns: aa_seq: protein amino acid sequence ss8_seq: DSSP 8 secondary structure sequence foldseek_seq: foldseek 20 3di structural sequence ss3_seq: DSSP 3 secondary structure sequence Github VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning https://github.com/ai4protein/VenusFactory Citation Please… See the full description on the dataset page: https://huggingface.co/datasets/AI4Protein/DeepET_Topt_AlphaFold2.tabulartext-classification1K<n<10K0 likes13 downloads1y agoHugging Face25AI4Protein /VenusX_Motif_AlphaFold2_PDB0 likes9 downloads1y agoHugging Face26AI4Protein /VenusVaccine_TumorBinary_AlphaFold2textn<1K0 likes9 downloads1y agoHugging Face27AI4Protein /VenusX_Evo_AlphaFold2_PDB0 likes7 downloads1y agoHugging Face28AI4Protein /VenusVaccine_BacteriaBinary_AlphaFold2text1K<n<10K0 likes5 downloads1y agoHugging Face29AI4Protein /VenusX_BindI_AlphaFold2_PDB0 likes4 downloads1y agoHugging Face30AI4Protein /VenusX_Act_AlphaFold2_PDB0 likes3 downloads1y agoHugging Face

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