BenchStab: a tool for automated querying of web-based stability predictors

• DOI: 10.1093/bioinformatics/btae553
• Publication Date: 2024-09-11T22:28:32Z
• Authors: Jan Velecký; Matej Berezný; Milos Musil; Jiri Damborsky; David Bednar; Stanislav Mazurenko
• Keywords: Applications Note; Internet; Protein Stability; PROTEIN STABILITY; SERVER; MUTATIONS; CHALLENGES; Proteins; Computational Biology; Databases, Protein; Software

Abstract Summary Protein design requires information about how mutations affect protein stability. Many web-based predictors are available for this purpose, yet comparing them or using en masse is difficult. Here, we present BenchStab, a console tool/Python package easy and quick execution of 19 result collection on list mutants. Moreover, the tool easily extensible with additional predictors. We created an independent dataset derived from FireProtDB evaluated 24 different prediction methods. Availability implementation BenchStab open-source Python at https://github.com/loschmidt/BenchStab detailed README example usage https://loschmidt.chemi.muni.cz/benchstab. The Zenodo: Https://zenodo.org/records/10637728 Supplementary raw data collected in study their visualizations Bioinformatics online.