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

被引：0

作者：

Velecky, Jan ^{[1
,2
]}

Berezny, Matej ^{[3
]}

Musil, Milos ^{[1
,2
,3
,4
]}

Damborsky, Jiri ^{[1
,2
,4
]}

Bednar, David ^{[1
,2
,4
]}

Mazurenko, Stanislav ^{[1
,2
,4
]}

机构：

[1] Masaryk Univ, Fac Sci, Dept Expt Biol, Loschmidt Labs, Kamenice 5,Bld C13, Brno 62500, Czech Republic

[2] Masaryk Univ, Fac Sci, RECETOX, Kamenice 5,Bld C13, Brno 62500, Czech Republic

[3] Brno Univ Technol, Fac Informat Technol, Dept Informat Syst, Brno 61200, Czech Republic

[4] St Annes Univ Hosp, Int Clin Res Ctr, Brno 65691, Czech Republic

来源：

BIOINFORMATICS | 2024年 / 40卷 / 09期

关键词：

PROTEIN STABILITY; SERVER; MUTATIONS; CHALLENGES;

D O I：

10.1093/bioinformatics/btae553

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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 Zenodo: https://zenodo.org/records/10637728

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