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Michel van Kempen, Stephanie S. Kim, Charlotte Tumescheit, Milot Mirdita, Jeong-Jae Lee, Cameron L. M. Gilchrist, Johannes Söding, Martin Steinegger
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.
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Kempen, M. V., Kim, S. S., Tumescheit, C., Mirdita, M., Lee, J.-J., Gilchrist, C. L. M., Söding, J., & Steinegger, M. (2023). Fast and accurate protein structure search with Foldseek. Nature Biotechnology, 42(2), 243–246. https://doi.org/10.1038/s41587-023-01773-0
Kempen, Michel van, et al. "Fast and accurate protein structure search with Foldseek." Nature Biotechnology, vol. 42, no. 2, 2023, pp. 243–246, https://doi.org/10.1038/s41587-023-01773-0.
Kempen, Michel van, Stephanie S. Kim, Charlotte Tumescheit, Milot Mirdita, Jeong-Jae Lee, Cameron L. M. Gilchrist, Johannes Söding, and Martin Steinegger. "Fast and accurate protein structure search with Foldseek." Nature Biotechnology 42, no. 2 (2023): 243–246. https://doi.org/10.1038/s41587-023-01773-0.
Kempen M. V., Kim S. S., Tumescheit C. [и др.] Fast and accurate protein structure search with Foldseek // Nature Biotechnology. — 2023. — Vol. 42, № 2. — P. 243–246. — URL: https://doi.org/10.1038/s41587-023-01773-0
@article{kempen2023fast,
title = {{Fast and accurate protein structure search with Foldseek}},
author = {Michel van Kempen and Stephanie S. Kim and Charlotte Tumescheit and Milot Mirdita and Jeong-Jae Lee and Cameron L. M. Gilchrist and Johannes Söding and Martin Steinegger},
journal = {Nature Biotechnology},
year = {2023},
volume = {42},
number = {2},
pages = {243--246},
doi = {10.1038/s41587-023-01773-0},
url = {https://doi.org/10.1038/s41587-023-01773-0}
}TY - JOUR AU - Kempen, Michel van AU - Kim, Stephanie S. AU - Tumescheit, Charlotte AU - Mirdita, Milot AU - Lee, Jeong-Jae AU - Gilchrist, Cameron L. M. AU - Söding, Johannes AU - Steinegger, Martin TI - Fast and accurate protein structure search with Foldseek JO - Nature Biotechnology VL - 42 IS - 2 SP - 243 EP - 246 PY - 2023 DA - 2023/05/08 DO - 10.1038/s41587-023-01773-0 UR - https://doi.org/10.1038/s41587-023-01773-0 ER -
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