Literature DB >> 33731762

New thermodynamic activity-based approach allows predicting the feasibility of glycolysis.

Thorsten Greinert1, Kristina Vogel2, Thomas Maskow2, Christoph Held3.   

Abstract

Thermodynamic feasibility analyses help evaluating the feasibility of metabolic pathways. This is an important information used to develop new biotechnological processes and to understand metabolic processes in cells. However, literature standard data are uncertain for most biochemical reactions yielding wrong statements concerning their feasibility. In this article we present activity-based equilibrium constants for all the ten glycolytic reactions, accompanied by the standard reaction data (standard Gibbs energy of reaction and standard enthalpy of reaction). We further developed a thermodynamic activity-based approach that allows to correctly determine the feasibility of glycolysis under different chosen conditions. The results show for the first time that the feasibility of glycolysis can be explained by thermodynamics only if (1) correct standard data are used and if (2) the conditions in the cell at non-equilibrium states are accounted for in the analyses. The results here will help to determine the feasibility of other metabolisms and to understand metabolic processes in cells in the future.

Entities:  

Year:  2021        PMID: 33731762      PMCID: PMC7971085          DOI: 10.1038/s41598-021-85594-8

Source DB:  PubMed          Journal:  Sci Rep        ISSN: 2045-2322            Impact factor:   4.379


  24 in total

1.  Impact of thermodynamic principles in systems biology.

Authors:  J J Heijnen
Journal:  Adv Biochem Eng Biotechnol       Date:  2010       Impact factor: 2.635

2.  How reliable are thermodynamic feasibility statements of biochemical pathways?

Authors:  Thomas Maskow; Urs von Stockar
Journal:  Biotechnol Bioeng       Date:  2005-10-20       Impact factor: 4.530

3.  Thermodynamics of hexokinase-catalyzed reactions.

Authors:  R N Goldberg
Journal:  Biophys Chem       Date:  1975-07       Impact factor: 2.352

4.  Thermodynamic Activity-Based Solvent Design for Bioreactions.

Authors:  Anton Wangler; Christoph Held; Gabriele Sadowski
Journal:  Trends Biotechnol       Date:  2019-05-31       Impact factor: 19.536

5.  Effects of free magnesium concentration and ionic strength on equilibrium constants for the glyceraldehyde phosphate dehydrogenase and phosphoglycerate kinase reactions.

Authors:  N W Cornell; M Leadbetter; R L Veech
Journal:  J Biol Chem       Date:  1979-07-25       Impact factor: 5.157

6.  Standard Gibbs energy of metabolic reactions: V. Enolase reaction.

Authors:  Thorsten Greinert; Kristina Vogel; Astrid Ina Seifert; Riko Siewert; Irina V Andreeva; Sergey P Verevkin; Thomas Maskow; Gabriele Sadowski; Christoph Held
Journal:  Biochim Biophys Acta Proteins Proteom       Date:  2020-01-18       Impact factor: 3.036

7.  Quantitative assignment of reaction directionality in constraint-based models of metabolism: application to Escherichia coli.

Authors:  R M T Fleming; I Thiele; H P Nasheuer
Journal:  Biophys Chem       Date:  2009-09-01       Impact factor: 2.352

8.  eQuilibrator--the biochemical thermodynamics calculator.

Authors:  Avi Flamholz; Elad Noor; Arren Bar-Even; Ron Milo
Journal:  Nucleic Acids Res       Date:  2011-11-07       Impact factor: 16.971

9.  Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data.

Authors:  Anne Kümmel; Sven Panke; Matthias Heinemann
Journal:  Mol Syst Biol       Date:  2006-06-20       Impact factor: 11.429

10.  Polyol and sugar osmolytes can shorten protein hydrogen bonds to modulate function.

Authors:  Jingwen Li; Jingfei Chen; Liaoyuan An; Xiaoxiang Yuan; Lishan Yao
Journal:  Commun Biol       Date:  2020-09-23
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  1 in total

1.  Make or break: the thermodynamic equilibrium of polyphosphate kinase-catalysed reactions.

Authors:  Michael Keppler; Sandra Moser; Henning J Jessen; Christoph Held; Jennifer N Andexer
Journal:  Beilstein J Org Chem       Date:  2022-09-20       Impact factor: 2.544

  1 in total

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