Combinatorics of feedback in cellular uptake and metabolism of small molecules
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Combinatorics of feedback in cellular uptake and metabolism of small molecules. / Krishna, Sandeep; Semsey, Szabolcs; Sneppen, Kim.
I: Proceedings of the National Academy of Sciences of the United States of America, Bind 104, Nr. 52, 26.12.2007, s. 20815-9.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - Combinatorics of feedback in cellular uptake and metabolism of small molecules
AU - Krishna, Sandeep
AU - Semsey, Szabolcs
AU - Sneppen, Kim
PY - 2007/12/26
Y1 - 2007/12/26
N2 - We analyze the connection between structure and function for regulatory motifs associated with cellular uptake and usage of small molecules. Based on the boolean logic of the feedback we suggest four classes: the socialist, consumer, fashion, and collector motifs. We find that the socialist motif is good for homeostasis of a useful but potentially poisonous molecule, whereas the consumer motif is optimal for nutrition molecules. Accordingly, examples of these motifs are found in, respectively, the iron homeostasis system in various organisms and in the uptake of sugar molecules in bacteria. The remaining two motifs have no obvious analogs in small molecule regulation, but we illustrate their behavior using analogies to fashion and obesity. These extreme motifs could inspire construction of synthetic systems that exhibit bistable, history-dependent states, and homeostasis of flux (rather than concentration).
AB - We analyze the connection between structure and function for regulatory motifs associated with cellular uptake and usage of small molecules. Based on the boolean logic of the feedback we suggest four classes: the socialist, consumer, fashion, and collector motifs. We find that the socialist motif is good for homeostasis of a useful but potentially poisonous molecule, whereas the consumer motif is optimal for nutrition molecules. Accordingly, examples of these motifs are found in, respectively, the iron homeostasis system in various organisms and in the uptake of sugar molecules in bacteria. The remaining two motifs have no obvious analogs in small molecule regulation, but we illustrate their behavior using analogies to fashion and obesity. These extreme motifs could inspire construction of synthetic systems that exhibit bistable, history-dependent states, and homeostasis of flux (rather than concentration).
KW - Amino Acid Motifs
KW - Biochemistry
KW - Biological Transport
KW - Carbohydrates
KW - Escherichia coli
KW - Feedback, Physiological
KW - Gene Expression Regulation, Bacterial
KW - Homeostasis
KW - Metabolic Networks and Pathways
KW - Metabolism
KW - Models, Biological
KW - Models, Statistical
KW - Journal Article
KW - Research Support, Non-U.S. Gov't
U2 - 10.1073/pnas.0706231105
DO - 10.1073/pnas.0706231105
M3 - Journal article
C2 - 18093927
VL - 104
SP - 20815
EP - 20819
JO - Proceedings of the National Academy of Sciences of the United States of America
JF - Proceedings of the National Academy of Sciences of the United States of America
SN - 0027-8424
IS - 52
ER -
ID: 163917699