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Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis

[Image: see text] We describe an approach to identify enzyme mutants with increased turnover using the enzyme DszC as a case study. Our approach is based on recalculating the barriers of alanine mutants through single-point energy calculations at the hybrid QM/MM level in the wild-type reactant and...

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Autores principales: Neves, Rui P. P., Ramos, Maria J., Fernandes, Pedro A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2022
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9832474/
https://www.ncbi.nlm.nih.gov/pubmed/36534708
http://dx.doi.org/10.1021/acs.jcim.2c01337
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author Neves, Rui P. P.
Ramos, Maria J.
Fernandes, Pedro A.
author_facet Neves, Rui P. P.
Ramos, Maria J.
Fernandes, Pedro A.
author_sort Neves, Rui P. P.
collection PubMed
description [Image: see text] We describe an approach to identify enzyme mutants with increased turnover using the enzyme DszC as a case study. Our approach is based on recalculating the barriers of alanine mutants through single-point energy calculations at the hybrid QM/MM level in the wild-type reactant and transition state geometries. We analyze the difference in the electron density between the reactant and transition state to identify sites/residues where electrostatic interactions stabilize the transition state over the reactants. We also assess the insertion of a unit probe charge to identify positions in which the introduction of charged residues lowers the barrier.
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spelling pubmed-98324742023-01-12 Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis Neves, Rui P. P. Ramos, Maria J. Fernandes, Pedro A. J Chem Inf Model [Image: see text] We describe an approach to identify enzyme mutants with increased turnover using the enzyme DszC as a case study. Our approach is based on recalculating the barriers of alanine mutants through single-point energy calculations at the hybrid QM/MM level in the wild-type reactant and transition state geometries. We analyze the difference in the electron density between the reactant and transition state to identify sites/residues where electrostatic interactions stabilize the transition state over the reactants. We also assess the insertion of a unit probe charge to identify positions in which the introduction of charged residues lowers the barrier. American Chemical Society 2022-12-19 2023-01-09 /pmc/articles/PMC9832474/ /pubmed/36534708 http://dx.doi.org/10.1021/acs.jcim.2c01337 Text en © 2022 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by/4.0/Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Neves, Rui P. P.
Ramos, Maria J.
Fernandes, Pedro A.
Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title_full Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title_fullStr Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title_full_unstemmed Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title_short Engineering DszC Mutants from Transition State Macrodipole Considerations and Evolutionary Sequence Analysis
title_sort engineering dszc mutants from transition state macrodipole considerations and evolutionary sequence analysis
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9832474/
https://www.ncbi.nlm.nih.gov/pubmed/36534708
http://dx.doi.org/10.1021/acs.jcim.2c01337
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