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

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 them en masse is difficult. Here, we present BenchStab, a console tool/Python package for easy and quick execution of 19 predictors and result collection on a list of mutants. Moreover, the tool is easily extensible with additional predictors. We created an independent dataset derived from the FireProtDB and evaluated 24 different prediction methods.

Availability and implementation

BenchStab is an open-source Python package available at https://github.com/loschmidt/BenchStab with a detailed README and example usage at https://loschmidt.chemi.muni.cz/benchstab. The BenchStab dataset is available on Zeno

SUBMITTER: Velecky J 

PROVIDER: S-EPMC11427696 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature