Fast and accurate protein structure search with Foldseek
Nature Biotechnology2023Vol. 42(2), pp. 243–246
Citations Over TimeTop 1% of 2023 papers
Michel van Kempen, Stephanie Kim, Charlotte Tumescheit, Milot Mirdita, Jeong-Jae Lee, Cameron L. M. Gilchrist, Johannes Söding, Martin Steinegger
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.
Related Papers
- → Thermal Stability: A Means to Assure Tertiary Structure in Therapeutic Proteins(2002)27 cited
- Biochemistry, Tertiary Protein Structure(2021)
- → Advances in protein tertiary structure prediction(2018)8 cited
- → Geodesic Distance in Comparison Between Tertiary Protein Structures(2018)
- → Utilization of Protein Tertiary Contacts to Improve Protein Structure Prediction Using Sequence Homology(2012)