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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...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical Society
2022
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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. |
format | Online Article Text |
id | pubmed-9832474 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
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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