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OpenFold3 Training Data

This dataset contains MSAs and predicted structures used to train OpenFold3 preview, an open-source, all-atom ligand, RNA and protein structure prediction software. This includes - - PDB - 245k structures and alignments from the RCSB Protein Data Bank - https://www.rcsb.org/ - Long monomer distillation set - ~13 million long (sequence length >= 200 amino acids) monomers from the MGNIFY database - https://www.ebi.ac.uk/metagenomics/. - Short monomer distillation set - 400k short (sequence length < 200 amino acid) monomers from the MGNIFY database - https://www.ebi.ac.uk/metagenomics/. - Disordered set - AF2-predicted structures...

Listed for discovery. Access is provided by the original publisher under its terms.

Data coverage

This dataset contains MSAs and predicted structures used to train OpenFold3 preview, an open-source, all-atom ligand, RNA and protein structure prediction software. This includes - - PDB - 245k structures and alignments from the RCSB Protein Data Bank - https://www.rcsb.org/ - Long monomer distillation set - ~13 million long (sequence length >= 200 amino acids) monomers from the MGNIFY database - https://www.ebi.ac.uk/metagenomics/. - Short monomer distillation set - 400k short (sequence length < 200 amino acid) monomers from the MGNIFY database - https://www.ebi.ac.uk/metagenomics/. - Disordered set - AF2-predicted structures for unresolved segments missing from the PDB - RNA - OF3p2-predicted RNA monomer structures generated from a clustered version of RFAM (current version) For the distillation sets MSAs were generated using the AF3 protocol, and were used to predict structures with AlphaFold2, more details can be found in our whitepaper - https://portal.openfold.omsf.io/reports/of3p2technicalreport.pdf For a full description and an interactive data explorer, please visit https://portal.openfold.omsf.io/datasets

Access & permitted use

Review the publisher’s documentation for availability, eligibility and permitted uses, including commercial analysis, model training and redistribution.

CC BY 4.0

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