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Journal of Chemical Physics / Volume 130 / Issue 16 / ARTICLES / Polymers and Complex Systems

J. Chem. Phys. 130, 164907 (2009); doi:10.1063/1.3118649 (6 pages)

Symmetry and order in systems chemistry

Nathaniel Wagner and Gonen Ashkenasy

Department of Chemistry, Ben Gurion University of the Negev, Beer Sheva 84105, Israel

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(Received 28 September 2008; accepted 22 March 2009; published online 27 April 2009)

Systems chemistry seeks to find fundamental insights into the emergent properties of complex systems and living matter. Thus chemists use a “bottom-up” approach for the design and integration of simple elements as a means of producing self-organized systems that can serve as feasible models. Toward this end, networks of replicating molecules have been produced and their dynamic behavior was analyzed both experimentally and by simulation. In this paper we describe our analysis of the reaction mechanisms which build up these systems. To do so, we revisit models for self-replication and template assisted catalysis and expand them to describe the kinetics of small catalytic networks. From symmetry requirements and reasonable chemical assumptions, it is shown that the construction of increasingly complex networks requires higher order catalysis. Specifically, we explain why low order catalysis, in which a monomeric molecule serves as a template, is incapable of efficiently activating cooperative cross catalytic elements and basic asymmetric sequentially linked units, so that at least second order catalysis, in which dimeric molecules serve as templates, is necessary. These cooperative and asymmetric linked units are required components of more complex molecular networks. We compare our results with other experimental evidence for the centrality of higher order catalysis and discuss the implications of our results on molecular self-organization and other aspects of systems chemistry.

© 2009 American Institute of Physics

Article Outline

  1. INTRODUCTION
  2. DEFINITIONS AND MECHANISMS OF CATALYSIS
  3. ANALYTICAL RESULTS
    1. Detailed chemical kinetics of replicating networks
    2. Reaction order in sequentially linked units
  4. DISCUSSION

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KEYWORDS and PACS

Keywords

biochemistry, large-scale systems, molecular biophysics, molecular configurations, self-adjusting systems, symmetry

PACS

ARTICLE DATA

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http://link.aip.org/link/doi/10.1063/1.3118649

PUBLICATION DATA

ISSN:

0021-9606 (print)  
1089-7690 (online)

Publisher:

$abstract.society.value is a Member of CrossRef American Institute of Physics

For access to fully linked references, you need to log in.
    K. M. Beutel and E. Peacock-Lopez, J. Chem. Phys. 125, 024908 (2006)JCPSA6000125000002024908000001
    K. M. Beutel and E. Peacock-Lopez, ibid. 126, 125104 (2007)JCPSA6000126000012125104000001.

    J. M. Chung and E. Peacock-Lopez, J. Chem. Phys. 127, 174903 (2007)JCPSA6000127000017174903000001.

    V. M. de Oliveira and J. F. Fontanari, Phys. Rev. Lett. 85, 4984 (2000).


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