Publication detail

SoluProtMutDB: A manually curated database of protein solubility changes upon mutations

VELECKÝ, J. HAMŠÍKOVÁ, M. ŠTOURAČ, J. MUSIL, M. DAMBORSKÝ, J. BEDNÁŘ, D. MAZURENKO, S.

Original Title

SoluProtMutDB: A manually curated database of protein solubility changes upon mutations

Type

journal article in Scopus

Language

English

Original Abstract

Protein solubility is an attractive engineering target primarily due to its relation to yields in protein production and manufacturing. Moreover, better knowledge of the mutational effects on protein solubility could connect several serious human diseases with protein aggregation. However, we have limited understanding of the protein structural determinants of solubility, and the available data have mostly been scattered in the literature. Here, we present SoluProtMutDB  the first database containing data on protein solubility changes upon mutations. Our database accommodates 33 000 measurements of 17 000 protein variants in 103 different proteins. The database can serve as an essential source of information for the researchers designing improved protein variants or those developing machine learning tools to predict the effects of mutations on solubility. The database comprises all the previously published solubility datasets and thousands of new data points from recent publications, including deep mutational scanning experiments. Moreover, it features many available experimental conditions known to affect protein solubility. The datasets have been manually curated with substantial corrections, improving suitability for machine learning applications. The database is available at loschmidt.chemi.muni.cz/soluprotmutdb.

Keywords

Mutational database, Protein engineering, Protein yield, Machine learning, Protein aggregation

Authors

VELECKÝ, J.; HAMŠÍKOVÁ, M.; ŠTOURAČ, J.; MUSIL, M.; DAMBORSKÝ, J.; BEDNÁŘ, D.; MAZURENKO, S.

Released

9. 11. 2022

ISBN

2001-0370

Periodical

Computational and Structural Biotechnology Journal

Year of study

20

Number

1

State

Kingdom of Sweden

Pages from

6339

Pages to

6347

Pages count

9

URL

https://reader.elsevier.com/reader/sd/pii/S2001037022005025?token=47A572AECBA6EE5C334462194E5EFC9034D184A71EC41EC7B29311B976C644C5FCFBB5B1B449E84DD1A99A04BCFA8708&originRegion=eu-west-1&originCreation=20230110080940

BibTex

@article{BUT180690,
  author="Jan {Velecký} and Marie {Hamšíková} and Jan {Štourač} and Miloš {Musil} and Jiří {Damborský} and David {Bednář} and Stanislav {Mazurenko}",
  title="SoluProtMutDB: A manually curated database of protein solubility changes upon mutations",
  journal="Computational and Structural Biotechnology Journal",
  year="2022",
  volume="20",
  number="1",
  pages="6339--6347",
  doi="10.1016/j.csbj.2022.11.009",
  issn="2001-0370",
  url="https://reader.elsevier.com/reader/sd/pii/S2001037022005025?token=47A572AECBA6EE5C334462194E5EFC9034D184A71EC41EC7B29311B976C644C5FCFBB5B1B449E84DD1A99A04BCFA8708&originRegion=eu-west-1&originCreation=20230110080940"
}