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Saks V, Beraud N, Wallimann T. Metabolic compartmentation - a system level property of muscle cells: real problems of diffusion in living cells. Int J Mol Sci. 2008;9(5):751-67doi: 10.3390/ijms9050751.
Saks, V., Beraud, N., & Wallimann, T. (2008). Metabolic compartmentation - a system level property of muscle cells: real problems of diffusion in living cells. International journal of molecular sciences, 9(5), 751-67. https://doi.org/10.3390/ijms9050751
Saks, Valdur, et al. "Metabolic compartmentation - a system level property of muscle cells: real problems of diffusion in living cells." International journal of molecular sciences vol. 9,5 (2008): 751-67. doi: https://doi.org/10.3390/ijms9050751
Saks V, Beraud N, Wallimann T. Metabolic compartmentation - a system level property of muscle cells: real problems of diffusion in living cells. Int J Mol Sci. 2008 May;9(5):751-67. doi: 10.3390/ijms9050751. Epub 2008 May 09. PMID: 19325782; PMCID: PMC2635703.
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Int J Mol Sci. 2008 May;9(5):751-67. doi: 10.3390/ijms9050751. Epub 2008 May 09.

Metabolic compartmentation - a system level property of muscle cells: real problems of diffusion in living cells.

International journal of molecular sciences

Valdur Saks, Nathalie Beraud, Theo Wallimann

Affiliations

  1. INSERM U, Joseph Fourier University Grenoble, France. [email protected]

PMID: 19325782 PMCID: PMC2635703 DOI: 10.3390/ijms9050751

Abstract

Problems of quantitative investigation of intracellular diffusion and compartmentation of metabolites are analyzed. Principal controversies in recently published analyses of these problems for the living cells are discussed. It is shown that the formal theoretical analysis of diffusion of metabolites based on Fick's equation and using fixed diffusion coefficients for diluted homogenous aqueous solutions, but applied for biological systems in vivo without any comparison with experimental results, may lead to misleading conclusions, which are contradictory to most biological observations. However, if the same theoretical methods are used for analysis of actual experimental data, the apparent diffusion constants obtained are orders of magnitude lower than those in diluted aqueous solutions. Thus, it can be concluded that local restrictions of diffusion of metabolites in a cell are a system-level properties caused by complex structural organization of the cells, macromolecular crowding, cytoskeletal networks and organization of metabolic pathways into multienzyme complexes and metabolons. This results in microcompartmentation of metabolites, their channeling between enzymes and in modular organization of cellular metabolic networks. The perspectives of further studies of these complex intracellular interactions in the framework of Systems Biology are discussed.

Keywords: Systems Biology; cell structure; channeling; cytoskeleton; diffusion; metabolic (micro)compartmentation; multienzyme complexes; regulation

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