Journal of Systems Chemistry
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Systems chemistry: using thermodynamically controlled networks to assess molecular similarity
Journal of Systems Chemistry - Tập 4 Số 1 - 2013
Abstract Background The assessment of molecular similarity is a key step in the
drug discovery process that has thus far relied almost exclusively on
computational approaches. We now report an experimental method for similarity
assessment based on dynamic combinatorial chemistry. Results In order to assess
molecular similarity directly in solution, a dynamic molecular network was used
in a two-ste...
Testing for adaptive signatures of amino acid alphabet evolution using chemistry space
Journal of Systems Chemistry - - 2014
Organoautocatalysis: Challenges for experiment and theory
Journal of Systems Chemistry - Tập 1 - Trang 1-7 - 2010
Recent reports about enantioselective organoautocatalytic systems, in which
small organic molecules assist in their own formation and under conservation of
their absolute configuration, are discussed. This process, appearing as a
natural extension to non-covalent enantioselective organocatalysis, seems
analogous to template-directed self-replication, previously observed in simple
organic molecules...
Serial transfer can aid the evolution of autocatalytic sets
Journal of Systems Chemistry - - 2014
Abstract Background The concept of an autocatalytic set of molecules has been
posited theoretically and demonstrated empirically with catalytic RNA molecules.
For this concept to have significance in a realistic origins-of-life scenario,
it will be important to demonstrate the evolvability of such sets. Here, we
employ a Gillespie algorithm to improve and expand on previous simulations of an
empir...
Suitable energetic conditions for dynamic chemical complexity and the living state
Journal of Systems Chemistry - Tập 3 - Trang 1-5 - 2012
Any living organism can be considered as a component of a dissipative process
coupling an irreversible consumption of energy to the growth, reproduction and
evolution of living things. Close interactions between metabolism and
reproduction are thus required, which means that metabolism has two main
functions. The first one, which is the most easily perceptible, corresponds to
the synthesis of the ...
Pathway control in the self-construction of complex precipitation forms in a Cu(II)-oxalate system
Journal of Systems Chemistry - Tập 3 - Trang 1-6 - 2012
Many biological systems contain complex precipitation patterns. These structures
are considered to be the result of finely tuned and genetically encoded
developmental pathways. The amount of encoded information needed to generate and
manipulate these structures is poorly understood. Investigating the dynamics of
spontaneous pattern formation in non-biological systems provides insights to the
physi...
The relationship between difference and ratio and a proposal: Equivalence of temperature and time, and the first spontaneous symmetry breaking
Journal of Systems Chemistry - Tập 1 - Trang 1-7 - 2010
The mathematical form of the energy-entropy relationship is that of the
relationship between the difference and the ratio of any two 'entities' x and y
creating a geometrical 3D projection x = y·z, i.e., a surface of the shape of a
hyperbolic paraboloid being a particular form of a quadric. The significance of
this relationship is discussed here in a realm beyond thermodynamics. Somewhat
intuitive...
Autocatalytic sets in E. coli metabolism
Journal of Systems Chemistry - Tập 6 - Trang 1-21 - 2015
A central unsolved problem in early evolution concerns self-organization towards
higher complexity in chemical reaction networks. In theory, autocatalytic sets
have useful properties to help model such transitions. Autocatalytic sets are
chemical reaction systems in which molecules belonging to the set catalyze the
synthesis of other members of the set. Given an external supply of starting
molecul...
Is the transition from chemistry to biology a mystery?
Journal of Systems Chemistry - Tập 1 - Trang 1-11 - 2010
Today most chemists think that the answer to how life on earth emerged is still
unknown. They assume a gap between chemistry and biology that is still
unbridged. For chemists, understanding the origin of life requires the
experimental modeling of a process that bridges this gap. They will not consider
the problem solved before they are able to perform such tasks. No gap appears
when we are pursuin...
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