HotSpot Wizard 2: Automated Design of Site-Specific Mutations and Smart Libraries in Protein Engineering

Authors

Bendl, J., Stourac, J., Sebestova, E., Vavra, O., Musil, M., Brezovsky, J., Damborsky, J.

Source

NUCLEIC ACIDS RESEARCH 44: W479-W487 (2016)

Abstract

HotSpot Wizard 2.0 is a web server for automated identification of hot spots and design of smart libraries for engineering proteins’ stability, catalytic activity, substrate specificity and enantioselectivity. The server integrates sequence, structural and evolutionary information obtained from 3 databases and 20 computational tools. Users are guided through the processes of selecting hot spots using four different protein engineering strategies and optimizing the resulting library’s size by narrowing down a set of substitutions at individual randomized positions. The only required input is a query protein structure. The results of the calculations are mapped onto the protein’s structure and visualized with a JSmol applet. HotSpot Wizard lists annotated residues suitable for mutagenesis and can automatically design appropriate codons for each implemented strategy. Overall, HotSpot Wizard provides comprehensive annotations of protein structures and assists protein engineers with the rational design of site-specific mutations and focused libraries. It is freely available at http://loschmidt.chemi.muni.cz/hotspotwizard.

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Citation

Bendl, J., Stourac, J., Sebestova, E., Vavra, O., Musil, M., Brezovsky, J., Damborsky, J., 2016: HotSpot Wizard 2: Automated Design of Site-Specific Mutations and Smart Libraries in Protein Engineering. Nucleic Acids Research 44: W479-W487.

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Loschmidt Laboratories place importance on combining theory and practice
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G. Dankova and A. Kunka awarded Brno Ph.D. Talent
Jaroslav Bendl, Ph.D.: From Loschmidt Laboratories to Mount Sinai School of Medicine in New York
Open Postdoc Position: Bioinformatics & Modeling