alphafold life sciences msa open source software openfold protein protein folding protein template
Multiple sequence alignments (MSAs) for 132,000 unique Protein Data Bank (PDB) chains, covering 640,000 PDB chains in total, and 4,850,000 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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OpenProteinSet was accessed on
DATE from https://registry.opendata.aws/openfold. Additionally, please cite our manuscript.
aws s3 ls --no-sign-request s3://openfold/
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