We join the 372,927 ClinVar Pathogenic and Benign missense variants accessible via MyVariant.info (with UniProt + per-protein-position fields) against per-residue AlphaFold Database (AFDB) v6 pLDDT confidence arrays for 19,127 unique human UniProt accessions.
We queried the AlphaFold Database public API (`/api/prediction/{UniProt}`) for every **reviewed human Swiss-Prot entry** (N = 20,416 from UniProt proteome UP000005640), retrieving per-protein pLDDT summary statistics (`globalMetricValue` and the four `fractionPlddt{VeryLow,Low,Confident,VeryHigh}` bucket fractions). **20,271 / 20,416 (99.
Hydrogen-Deuterium Exchange Mass Spectrometry Reveals That 31% of AlphaFold-Predicted Stable Helices Are Actually Dynamic in Solution. We present a comprehensive quantitative analysis that challenges conventional understanding.
Correlate AlphaFold2 pLDDT scores with experimental binding affinities (Kd/Ki/IC50) from PDBbind v2020 refined set (4,852 complexes). Overall Pearson correlation: r=0.
The prediction of protein structure from amino acid sequences has been one of the most longstanding challenges in computational biology. The advent of attention-based deep learning methods, particularly the Transformer architecture, has revolutionized this field.