Literature DB >> 34813064

Rational-Design Engineering to Improve Enzyme Thermostability.

Vinutsada Pongsupasa1, Piyanuch Anuwan1, Somchart Maenpuen2, Thanyaporn Wongnate3.   

Abstract

The fundamentals of thermostability engineering need to be carried out for proteins with low thermal stability to expand their utilization. Thus, comprehension of the thermal stability regulating factors of proteins is needful for the engineering of their thermostability. Protein engineering aims to overcome their natural limitations in tough conditions by refining protein stability and activity. Rational-design approach requires a crystal structure dataset along with the biophysical information, protein function, and sequence-based data, especially consensus sequence that is favorable for the protein folding during natural evolution. It can be attained by either single- or multiple-point mutation, by which amino acids are changed. In fact, these mutation approaches show several benefits. For example, the offered mutations are produced after an evaluation and design, which raise the chance to acquire favorable mutations. The rational-design engineering can improve the biochemical properties of enzymes, including the kinetic behaviors, substrate specificity, thermostability, and organic solvent tolerance. Moreover, this approach considerably reduces the library size, so less effort and time can be employed. Here, we apply the computational algorithms and programs with experiments to create thermostable enzymes that will be beneficial for future applications.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  Enzyme engineering; High-throughput screening; Hot-spot; In silico design; Protein stability; Site-directed mutagenesis; Thermostable

Mesh:

Substances:

Year:  2022        PMID: 34813064     DOI: 10.1007/978-1-0716-1826-4_9

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  17 in total

1.  Protein structure prediction using Rosetta.

Authors:  Carol A Rohl; Charlie E M Strauss; Kira M S Misura; David Baker
Journal:  Methods Enzymol       Date:  2004       Impact factor: 1.600

2.  EASE-MM: Sequence-Based Prediction of Mutation-Induced Stability Changes with Feature-Based Multiple Models.

Authors:  Lukas Folkman; Bela Stantic; Abdul Sattar; Yaoqi Zhou
Journal:  J Mol Biol       Date:  2016-01-22       Impact factor: 5.469

3.  Eris: an automated estimator of protein stability.

Authors:  Shuangye Yin; Feng Ding; Nikolay V Dokholyan
Journal:  Nat Methods       Date:  2007-06       Impact factor: 28.547

4.  I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure.

Authors:  Emidio Capriotti; Piero Fariselli; Rita Casadio
Journal:  Nucleic Acids Res       Date:  2005-07-01       Impact factor: 16.971

5.  The FoldX web server: an online force field.

Authors:  Joost Schymkowitz; Jesper Borg; Francois Stricher; Robby Nys; Frederic Rousseau; Luis Serrano
Journal:  Nucleic Acids Res       Date:  2005-07-01       Impact factor: 16.971

6.  FireProt: web server for automated design of thermostable proteins.

Authors:  Milos Musil; Jan Stourac; Jaroslav Bendl; Jan Brezovsky; Zbynek Prokop; Jaroslav Zendulka; Tomas Martinek; David Bednar; Jiri Damborsky
Journal:  Nucleic Acids Res       Date:  2017-07-03       Impact factor: 16.971

7.  mCSM: predicting the effects of mutations in proteins using graph-based signatures.

Authors:  Douglas E V Pires; David B Ascher; Tom L Blundell
Journal:  Bioinformatics       Date:  2013-11-26       Impact factor: 6.937

8.  Disulfide by Design 2.0: a web-based tool for disulfide engineering in proteins.

Authors:  Douglas B Craig; Alan A Dombkowski
Journal:  BMC Bioinformatics       Date:  2013-12-01       Impact factor: 3.169

9.  Automated Structure- and Sequence-Based Design of Proteins for High Bacterial Expression and Stability.

Authors:  Adi Goldenzweig; Moshe Goldsmith; Shannon E Hill; Or Gertman; Paola Laurino; Yacov Ashani; Orly Dym; Tamar Unger; Shira Albeck; Jaime Prilusky; Raquel L Lieberman; Amir Aharoni; Israel Silman; Joel L Sussman; Dan S Tawfik; Sarel J Fleishman
Journal:  Mol Cell       Date:  2016-07-14       Impact factor: 17.970

10.  FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants.

Authors:  David Bednar; Koen Beerens; Eva Sebestova; Jaroslav Bendl; Sagar Khare; Radka Chaloupkova; Zbynek Prokop; Jan Brezovsky; David Baker; Jiri Damborsky
Journal:  PLoS Comput Biol       Date:  2015-11-03       Impact factor: 4.475

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  1 in total

Review 1.  A Review of Advanced Molecular Engineering Approaches to Enhance the Thermostability of Enzyme Breakers: From Prospective of Upstream Oil and Gas Industry.

Authors:  Muhammad Naeem; Amjad Bajes Khalil; Zeeshan Tariq; Mohamed Mahmoud
Journal:  Int J Mol Sci       Date:  2022-01-30       Impact factor: 5.923

  1 in total

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