Literature DB >> 26495436

Competitive inhibition can linearize dose-response and generate a linear rectifier.

Yonatan Savir1, Benjamin P Tu2, Michael Springer1.   

Abstract

Many biological responses require a dynamic range that is larger than standard bi-molecular interactions allow, yet the also ability to remain off at low input. Here we mathematically show that an enzyme reaction system involving a combination of competitive inhibition, conservation of the total level of substrate and inhibitor, and positive feedback can behave like a linear rectifier-that is, a network motif with an input-output relationship that is linearly sensitive to substrate above a threshold but unresponsive below the threshold. We propose that the evolutionarily conserved yeast SAGA histone acetylation complex may possess the proper physiological response characteristics and molecular interactions needed to perform as a linear rectifier, and we suggest potential experiments to test this hypothesis. One implication of this work is that linear responses and linear rectifiers might be easier to evolve or synthetically construct than is currently appreciated.

Entities:  

Keywords:  Competitive inhibition; Enzyme kinetics; Linear rectifiers; SAGA; Transcriptional regulation

Year:  2015        PMID: 26495436      PMCID: PMC4610030          DOI: 10.1016/j.cels.2015.09.001

Source DB:  PubMed          Journal:  Cell Syst        ISSN: 2405-4712            Impact factor:   10.304


  33 in total

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Authors:  Hong Qian
Journal:  Annu Rev Biophys       Date:  2012-02-23       Impact factor: 12.981

2.  Multisite protein phosphorylation makes a good threshold but can be a poor switch.

Authors:  Jeremy Gunawardena
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Review 3.  Network motifs: theory and experimental approaches.

Authors:  Uri Alon
Journal:  Nat Rev Genet       Date:  2007-06       Impact factor: 53.242

Review 4.  Metabolic regulation of histone post-translational modifications.

Authors:  Jing Fan; Kimberly A Krautkramer; Jessica L Feldman; John M Denu
Journal:  ACS Chem Biol       Date:  2015-01-16       Impact factor: 5.100

5.  Myc-dependent mitochondrial generation of acetyl-CoA contributes to fatty acid biosynthesis and histone acetylation during cell cycle entry.

Authors:  Fionnuala Morrish; Jhoanna Noonan; Carissa Perez-Olsen; Philip R Gafken; Matthew Fitzgibbon; Joanne Kelleher; Marc VanGilst; David Hockenbery
Journal:  J Biol Chem       Date:  2010-09-02       Impact factor: 5.157

6.  Akt-dependent metabolic reprogramming regulates tumor cell histone acetylation.

Authors:  Joyce V Lee; Alessandro Carrer; Supriya Shah; Nathaniel W Snyder; Shuanzeng Wei; Sriram Venneti; Andrew J Worth; Zuo-Fei Yuan; Hee-Woong Lim; Shichong Liu; Ellen Jackson; Nicole M Aiello; Naomi B Haas; Timothy R Rebbeck; Alexander Judkins; Kyoung-Jae Won; Lewis A Chodosh; Benjamin A Garcia; Ben Z Stanger; Michael D Feldman; Ian A Blair; Kathryn E Wellen
Journal:  Cell Metab       Date:  2014-07-03       Impact factor: 27.287

7.  Changes in size of intracellular pools of coenzyme A and its thioesters in Escherichia coli K-12 cells to various carbon sources and stresses.

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Journal:  Biosci Biotechnol Biochem       Date:  1998-06       Impact factor: 2.043

Review 8.  Conserved metabolic regulatory functions of sirtuins.

Authors:  Bjoern Schwer; Eric Verdin
Journal:  Cell Metab       Date:  2008-02       Impact factor: 27.287

9.  Quantitative characteristics of gene regulation by small RNA.

Authors:  Erel Levine; Zhongge Zhang; Thomas Kuhlman; Terence Hwa
Journal:  PLoS Biol       Date:  2007-09       Impact factor: 8.029

10.  Promoters maintain their relative activity levels under different growth conditions.

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Journal:  Mol Syst Biol       Date:  2013-10-29       Impact factor: 11.429

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  2 in total

1.  In Vitro Monitoring of the Mitochondrial Beta-Oxidation Flux of Palmitic Acid and Investigation of Its Pharmacological Alteration by Therapeutics.

Authors:  Renata Murgasova; Ester Tor Carreras; Julien Bourgailh
Journal:  Eur J Drug Metab Pharmacokinet       Date:  2018-12       Impact factor: 2.441

2.  Self-replenishment cycles generate a threshold response.

Authors:  Hiroyuki Kurata
Journal:  Sci Rep       Date:  2019-11-20       Impact factor: 4.379

  2 in total

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