Fast and accurate protein structure search with Foldseek.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 37156916.
- Also identified by DOI 10.1038/s41587-023-01773-0 and PMC identifier 10869269.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
As structure prediction methods are generating millions of publicly available protein structures, searching these databases is becoming a bottleneck. Foldseek aligns the structure of a query protein against a database by describing tertiary amino acid interactions within proteins as sequences over a structural alphabet. Foldseek decreases computation times by four to five orders of magnitude with 86%, 88% and 133% of the sensitivities of Dali, TM-align and CE, respectively.
Medical subject headings
- Algorithms
- Proteins