Theoretical models: Difference between revisions
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AlphaFold was published in July, 2021<ref name="af2021">PMID: 34265844</ref>. Methods were described in considerable detail. The source code, trained weights, and inference script were made available under an open-source license. Structure prediction required about one GPU (Graphics Processing Unit) minute per model of about 384 amino acids. | AlphaFold was published in July, 2021<ref name="af2021">PMID: 34265844</ref>. Methods were described in considerable detail. The source code, trained weights, and inference script were made available under an open-source license. Structure prediction required about one GPU (Graphics Processing Unit) minute per model of about 384 amino acids. | ||
Impressively, AlphaFold had remarkable success predicting a set of 10,795 protein chain structures (filtered for high reliability, lengths restricted to 80-1,400 residues) published in the [[PDB]] after AlphaFold's initial training set. (The training set cutoff was 2018/04/30. The test set was obtained between then and 2021/02/15.) | Impressively, AlphaFold had remarkable success predicting a set of 10,795 protein chain structures (filtered for high reliability, lengths restricted to 80-1,400 residues) published in the [[PDB]] after AlphaFold's initial training set. (The training set cutoff was 2018/04/30. The test set was obtained between then and 2021/02/15.) Accurate prediction of sidechains required accurate prediction of the main chain. Accurate prediction required a multiple sequence alignment depth >~30 sequences, with a depth of ~100 sequences being adequate. | ||
===2018: CASP 13=== | ===2018: CASP 13=== | ||
