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OpenProteinSet

Multiple sequence alignments (MSAs) for 140,000 unique Protein Data Bank (PDB) chains and 16,000,000 UniClust30 clusters. Template hits are also provided for the PDB chains and 270,000 UniClust30 clusters chosen for maximal diversity and MSA depth. MSAs were generated with HHBlits (-n3) and JackHMMER against MGnify, BFD, UniRef90, and UniClust30 while templates were identified from PDB70 with HHSearch, all according to procedures outlined in the supplement to the AlphaFold 2 Nature paper, Jumper et al. 2021. We expect the database to be broadly useful to structural biologists training or validating deep learning models for protein structure prediction and related tasks.

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Multiple sequence alignments (MSAs) for 140,000 unique [Protein Data Bank](https://www.rcsb.org/) (PDB) chains and 16,000,000 [UniClust30](https://uniclust.mmseqs.com/) clusters. Template hits are also provided for the PDB chains and 270,000 UniClust30 clusters chosen for maximal diversity and MSA depth. MSAs were generated with HHBlits (-n3) and JackHMMER against MGnify, BFD, UniRef90, and UniClust30 while templates were identified from PDB70 with HHSearch, all according to procedures outlined in the supplement to the AlphaFold 2 Nature paper, [Jumper et al. 2021](https://www.nature.com/articles/s41586-021-03819-2). We expect the database to be broadly useful to structural biologists training or validating deep learning models for protein structure prediction and related tasks.

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