Related Experiment Video
Updated: Jul 31, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
Published on: November 3, 2011
Fast and accurate protein structure search with Foldseek
Michel van Kempen1, Stephanie S Kim2, Charlotte Tumescheit2
1Quantitative and Computational Biology Group, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.
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 Concept Videos
Protein Organization
The primary structure of a protein is its amino acid sequence....
Protein Folding
Protein Families
Protein Folding Quality Check in the RER
Protein and Protein Structure
A protein's shape is critical to its function. For example, an enzyme...
Protein and Protein Structures

