Fast and accurate protein structure search with Foldseek
Max Planck Institute for Multidisciplinary Sciences · Seoul National University · +1 more institution
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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 the amino acid backbone of 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.
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8Topics & keywords
Topics
Keywords
- Bottleneck
- Alphabet
- Computation
- Computer science
- Protein structure
- Structural alignment
- Algorithm
- Data mining
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