Literature DB >> 33667757

Web-based tools for computational enzyme design.

Sérgio M Marques1, Joan Planas-Iglesias1, Jiri Damborsky2.   

Abstract

Enzymes are in high demand for very diverse biotechnological applications. However, natural biocatalysts often need to be engineered for fine-tuning their properties towards the end applications, such as the activity, selectivity, stability to temperature or co-solvents, and solubility. Computational methods are increasingly used in this task, providing predictions that narrow down the space of possible mutations significantly and can enormously reduce the experimental burden. Many computational tools are available as web-based platforms, making them accessible to non-expert users. These platforms are typically user-friendly, contain walk-throughs, and do not require deep expertise and installations. Here we describe some of the most recent outstanding web-tools for enzyme engineering and formulate future perspectives in this field.
Copyright © 2021 Elsevier Ltd. All rights reserved.

Year:  2021        PMID: 33667757     DOI: 10.1016/j.sbi.2021.01.010

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  6 in total

1.  LoopGrafter: a web tool for transplanting dynamical loops for protein engineering.

Authors:  Joan Planas-Iglesias; Filip Opaleny; Pavol Ulbrich; Jan Stourac; Zainab Sanusi; Gaspar P Pinto; Andrea Schenkmayerova; Jan Byska; Jiri Damborsky; Barbora Kozlikova; David Bednar
Journal:  Nucleic Acids Res       Date:  2022-04-19       Impact factor: 19.160

2.  Enhancing the Thermostability of Engineered Laccases in Aqueous Betaine-Based Natural Deep Eutectic Solvents.

Authors:  Simona Varriale; Astrid E Delorme; Jean-Michel Andanson; Julien Devemy; Patrice Malfreyt; Vincent Verney; Cinzia Pezzella
Journal:  ACS Sustain Chem Eng       Date:  2021-12-29       Impact factor: 8.198

3.  PDBe-KB: collaboratively defining the biological context of structural data.

Authors: 
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

4.  DE-STRESS: a user-friendly web application for the evaluation of protein designs.

Authors:  Michael J Stam; Christopher W Wood
Journal:  Protein Eng Des Sel       Date:  2021-02-15       Impact factor: 1.650

5.  CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability.

Authors:  Antonin Kunka; David Lacko; Jan Stourac; Jiri Damborsky; Zbynek Prokop; Stanislav Mazurenko
Journal:  Nucleic Acids Res       Date:  2022-05-17       Impact factor: 19.160

Review 6.  Making Enzymes Suitable for Organic Chemistry by Rational Protein Design.

Authors:  Manfred Reetz
Journal:  Chembiochem       Date:  2022-04-27       Impact factor: 3.461

  6 in total

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