The biological significance of substrate inhibition: A mechanism with diverse functions

Many enzymes are inhibited by their own substrates, leading to velocity curves that rise to a maximum and then descend as the substrate concentration increases. Substrate inhibition is often regarded as a biochemical oddity and experimental annoyance. We show, using several case studies, that substrate inhibition often has important biological functions. In each case we discuss, the biological significance is different. Substrate inhibition of tyrosine hydroxylase results in a steady synthesis of dopamine despite large fluctuations in tyrosine due to meals. Substrate inhibition of acetylcholinesterase enhances the neural signal and allows rapid signal termination. Substrate inhibition of phosphofructokinase ensures that resources are not devoted to manufacturing ATP when it is plentiful. In folate metabolism, substrate inhibition maintains reactions rates in the face of substantial folate deprivation. Substrate inhibition of DNA methyltransferase serves to faithfully copy DNA methylation patterns when cells divide while preventing de novo methylation of methyl‐free promoter regions.

[1]  Ernest C. Lee,et al.  Clinical manifestations of sarin nerve gas exposure. , 2003, JAMA.

[2]  L. Schirch,et al.  Formyl-methenyl-methylenetetrahydrofolate synthetase from rabbit liver (combined). Evidence for a single site in the conversion of 5,10-methylenetetrahydrofolate to 10-formyltetrahydrofolate. , 1978 .

[3]  T. Mansour Phosphofructokinase activity in skeletal muscle extracts following administration of epinephrine. , 1972, The Journal of biological chemistry.

[4]  K. Mori,et al.  Dopamine Inhibition of Human Tyrosine Hydroxylase Type 1 Is Controlled by the Specific Portion in the N‐Terminus of the Enzyme , 1999, Journal of neurochemistry.

[5]  J. Haavik,et al.  Different properties of the central and peripheral forms of human tryptophan hydroxylase , 2005, Journal of neurochemistry.

[6]  C. Wagner Symposium on the subcellular compartmentation of folate metabolism. , 1996, The Journal of nutrition.

[7]  P. W. Kühl Excess-substrate inhibition in enzymology and high-dose inhibition in pharmacology: a reinterpretation [corrected]. , 1994, The Biochemical journal.

[8]  A. Skorinkin,et al.  Modeling study of mecamylamine block of muscle type acetylcholine receptors , 2008, European Biophysics Journal.

[9]  T. Rosenberry,et al.  A steric blockade model for inhibition of acetylcholinesterase by peripheral site ligands and substrate. , 1999, Chemico-biological interactions.

[10]  N. Morel,et al.  Expression and processing of vertebrate acetylcholinesterase in the yeast Pichia pastoris. , 1997, The Biochemical journal.

[11]  D. Ledbetter,et al.  Assignment of human tryptophan hydroxylase locus to chromosome 11: Gene duplication and translocation in evolution of aromatic amino acid hydroxylases , 1987, Somatic cell and molecular genetics.

[12]  P. Dickson,et al.  Mutational Analysis of Substrate Inhibition in Tyrosine Hydroxylase , 1998, Journal of neurochemistry.

[13]  R. Roberts,et al.  Recombinant Human DNA (Cytosine-5) Methyltransferase , 2001, The Journal of Biological Chemistry.

[14]  I. Pogribny,et al.  Moderate folate depletion increases plasma homocysteine and decreases lymphocyte DNA methylation in postmenopausal women. , 1998, The Journal of nutrition.

[15]  M. Fernstrom,et al.  Dietary effects on tyrosine availability and catecholamine synthesis in the central nervous system: possible relevance to the control of protein intake , 1994, Proceedings of the Nutrition Society.

[16]  C. Wagner,et al.  High molecular weight complexes of folic acid in mammalian tissues. , 1974, Biochemical and biophysical research communications.

[17]  D. Quinn,et al.  Acetylcholinesterase: enzyme structure, reaction dynamics, and virtual transition states , 1987 .

[18]  L. Bailey,et al.  Folate in Health and Disease , 2009 .

[19]  S. Kaufman,et al.  Partial purification and characterization of tryptophan hydroxylase from rabbit hindbrain. , 1972, The Journal of biological chemistry.

[20]  R. Finnell,et al.  Investigations into the etiology of neural tube defects. , 2004, Birth defects research. Part C, Embryo today : reviews.

[21]  P. Knott,et al.  Free Tryptophan in Plasma and Brain Tryptophan Metabolism , 1972, Nature.

[22]  Cornelia M Ulrich,et al.  A Mathematical Model of the Folate Cycle , 2004, Journal of Biological Chemistry.

[23]  A. Jeltsch,et al.  The activity of the murine DNA methyltransferase Dnmt1 is controlled by interaction of the catalytic domain with the N-terminal part of the enzyme leading to an allosteric activation of the enzyme after binding to methylated DNA. , 2001, Journal of molecular biology.

[24]  Joel R. Stiles,et al.  Acetylcholinesterase density and turnover number at frog neuromuscular junctions, with modeling of their role in synaptic function , 1994, Neuron.

[25]  E. Reiner,et al.  Acetylcholinesterase. Two types of inhibition by an organophosphorus compound: one the formation of phosphorylated enzyme and the other analogous to inhibition by substrate. , 1969, The Biochemical journal.

[26]  Hye Ryun Woo,et al.  Signaling silence--breaking ground and spreading out. , 2008, Genes & development.

[27]  R. Roberts,et al.  I. EXPRESSION, PURIFICATION, AND COMPARISON OF DE NOVO AND MAINTENANCE METHYLATION* , 1999 .

[28]  K. Robertson DNA methylation and human disease , 2005, Nature Reviews Genetics.

[29]  Colin Webb,et al.  Enzyme Technology , 2006 .

[30]  K. Storey,et al.  Regulation of rainbow trout white muscle phosphofructokinase during exercise , 1994 .

[31]  J. Stiles,et al.  The temperature sensitivity of miniature endplate currents is mostly governed by channel gating: evidence from optimized recordings and Monte Carlo simulations. , 1999, Biophysical journal.

[32]  K. Vrana,et al.  Intricate Regulation of Tyrosine Hydroxylase Activity and Gene Expression , 1996, Journal of neurochemistry.

[33]  C. Ulrich,et al.  Folate and cancer--timing is everything. , 2007, JAMA.

[34]  N. Reich,et al.  A Potent Cell-active Allosteric Inhibitor of Murine DNA Cytosine C5 Methyltransferase* , 2003, The Journal of Biological Chemistry.

[35]  L. Sultatos,et al.  Interactions of rat brain acetylcholinesterase with the detergent Triton X-100 and the organophosphate paraoxon. , 2001, Toxicological sciences : an official journal of the Society of Toxicology.

[36]  I. Lucki,et al.  The spectrum of behaviors influenced by serotonin , 1998, Biological Psychiatry.

[37]  T. Bartol,et al.  Miniature endplate current rise times less than 100 microseconds from improved dual recordings can be modeled with passive acetylcholine diffusion from a synaptic vesicle. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[38]  H. Nijhout,et al.  Theoretical Biology and Medical Modelling Open Access Homeostatic Mechanisms in Dopamine Synthesis and Release: a Mathematical Model , 2022 .

[39]  J. Haavik,et al.  Activation and stabilization of human tryptophan hydroxylase 2 by phosphorylation and 14-3-3 binding. , 2008, The Biochemical journal.

[40]  M. Groudine,et al.  DNA Methylation Density Influences the Stability of an Epigenetic Imprint and Dnmt3a/b-Independent De Novo Methylation , 2002, Molecular and Cellular Biology.

[41]  Peter A. Jones,et al.  The Role of DNA Methylation in Mammalian Epigenetics , 2001, Science.

[42]  R. J. Cook,et al.  Defining the steps of the folate one-carbon shuffle and homocysteine metabolism. , 2000, The American journal of clinical nutrition.

[43]  I. Graham Homocysteine in Health and Disease , 1999, Annals of Internal Medicine.

[44]  N. Reich,et al.  DNA cytosine C5 methyltransferase Dnmt1: catalysis-dependent release of allosteric inhibition. , 2005, Biochemistry.

[45]  V. P. Whittaker,et al.  Cholinergic Synaptic Vesicles from the Electromotor Nerve Terminals of Torpedo: Composition and Life Cycle , 1987, Annals of the New York Academy of Sciences.

[46]  M. Davies,et al.  Unmasking tandem site interaction in human acetylcholinesterase. Substrate activation with a cationic acetanilide substrate. , 2003, Biochemistry.

[47]  R. Bongiovanni,et al.  Increased striatal dopamine synthesis is associated with decreased tissue levels of tyrosine , 2006, Brain Research.

[48]  P. Kaiser Substrate inhibition as a problem of non-linear steady state kinetics with monomeric enzymes , 1980 .

[49]  H. R. Smissaert Cholinesterase Inhibition in Spider Mites Susceptible and Resistant to Organophosphate , 1964, Science.

[50]  J. Potter,et al.  Colorectal cancer: molecules and populations. , 1999, Journal of the National Cancer Institute.

[51]  K. Uyeda,et al.  The effect of natural and synthetic D-fructose 2,6-bisphosphate on the regulatory kinetic properties of liver and muscle phosphofructokinases. , 1981, The Journal of biological chemistry.

[52]  F. Vallette,et al.  Molecular and cellular biology of cholinesterases , 1993, Progress in Neurobiology.

[53]  M. Fernstrom,et al.  Brain tryptophan concentrations and serotonin synthesis remain responsive to food consumption after the ingestion of sequential meals. , 1995, The American journal of clinical nutrition.

[54]  M. Salpeter The Constant Junction , 1999, Science.

[55]  R. Rotundo Expression and localization of acetylcholinesterase at the neuromuscular junction , 2003, Journal of neurocytology.

[56]  Jure Stojan,et al.  Structural insights into substrate traffic and inhibition in acetylcholinesterase , 2006, The EMBO journal.

[57]  J. Mallet,et al.  Localization of the human tyrosine hydroxylase gene to 11p15: gene duplication and evolution of metabolic pathways. , 1986, Cytogenetics and cell genetics.