Fast and accurate protein structure search with Foldseek,Nature Biotechnology

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Fast and accurate protein structure search with Foldseek
Nature Biotechnology ( IF 33.1 ) Pub Date : 2023-05-08 , DOI: 10.1038/s41587-023-01773-0
Michel van Kempen ₁ , Stephanie S Kim ₂ , Charlotte Tumescheit ₂ , Milot Mirdita _{1,

2} , Jeongjae Lee ₂ , Cameron L M Gilchrist ₂ , Johannes Söding _{1,

3} , Martin Steinegger _{2,

4,

5}

Affiliation

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.

中文翻译：

使用 Foldseek 快速准确地搜索蛋白质结构

由于结构预测方法正在生成数百万个公开可用的蛋白质结构，搜索这些数据库正在成为瓶颈。 Foldseek 通过将蛋白质内的三级氨基酸相互作用描述为结构字母表上的序列，将查询蛋白质的结构与数据库进行比对。 Foldseek 将计算时间减少了四到五个数量级，其灵敏度分别是 Dali、TM-align 和 CE 的 86%、88% 和 133%。

更新日期：2023-05-09

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