Statistical properties of multistep enzyme-mediated reactions

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Enzyme-mediated reactions may proceed through multiple intermediate conformational states before creating a final product molecule, and one often wishes to identify such intermediate structures from observations of the product creation. In this paper, we address this problem by solving the chemical master equations for various enzymatic reactions. We devise a perturbation theory analogous to that used in quantum mechanics that allows us to determine the first (<n>) and the second (variance) cumulants of the distribution of created product molecules as a function of the substrate concentration and the kinetic rates of the intermediate processes. The mean product flux V=d<n>/dt (or ... continued below

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Nemenman, Ilya; Sinitsyn, Nikolai A; De Ronde, Wiet H; Daniels, Bryan C & Mugler, Andrew January 1, 2008.

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Enzyme-mediated reactions may proceed through multiple intermediate conformational states before creating a final product molecule, and one often wishes to identify such intermediate structures from observations of the product creation. In this paper, we address this problem by solving the chemical master equations for various enzymatic reactions. We devise a perturbation theory analogous to that used in quantum mechanics that allows us to determine the first (<n>) and the second (variance) cumulants of the distribution of created product molecules as a function of the substrate concentration and the kinetic rates of the intermediate processes. The mean product flux V=d<n>/dt (or 'dose-response' curve) and the Fano factor F=variance/<n> are both realistically measurable quantities, and while the mean flux can often appear the same for different reaction types, the Fano factor can be quite different. This suggests both qualitative and quantitative ways to discriminate between different reaction schemes, and we explore this possibility in the context of four sample multistep enzymatic reactions. We argue that measuring both the mean flux and the Fano factor can not only discriminate between reaction types, but can also provide some detailed information about the internal, unobserved kinetic rates, and this can be done without measuring single-molecule transition events.

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  • Journal Name: IET Systems Biology

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  • Report No.: LA-UR-08-07581
  • Report No.: LA-UR-08-7581
  • Grant Number: AC52-06NA25396
  • Office of Scientific & Technical Information Report Number: 956614
  • Archival Resource Key: ark:/67531/metadc933307

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Reports, articles and other documents harvested from the Office of Scientific and Technical Information.

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  • January 1, 2008

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  • Nov. 13, 2016, 7:26 p.m.

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  • Dec. 12, 2016, 5:07 p.m.

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Nemenman, Ilya; Sinitsyn, Nikolai A; De Ronde, Wiet H; Daniels, Bryan C & Mugler, Andrew. Statistical properties of multistep enzyme-mediated reactions, article, January 1, 2008; [New Mexico]. (digital.library.unt.edu/ark:/67531/metadc933307/: accessed November 20, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.