Glycogen Metabolism and the Pentose Phosphate Pathway Lectures

Total Page:16

File Type:pdf, Size:1020Kb

Glycogen Metabolism and the Pentose Phosphate Pathway Lectures Section 10: Glycogen Metabolism and The Pentose Phosphate Pathway Lectures: Chapter 24: Glycogen Degradation Chapter 25: Glycogen Synthesis Chapter 26: The Pentose Phosphate Pathway By the end of this section, you should be able to: List and describe the steps of glycogen breakdown, and identify the enzymes required. Explain the regulation of glycogen breakdown. Describe the steps of glycogen synthesis, and identify the enzymes required. Explain the regulation of glycogen synthesis. Describe how glycogen degradation and synthesis are coordinated. Identify the two stages of the pentose phosphate pathway, and explain how the pathway is coordinated with glycolysis and gluconeogenesis. Identify the enzyme that controls the pentose phosphate pathway CHAPTER 24: Glycogen Degradation Glycogen is a key source of energy for runners. Glycogen mobilization—the conversion of glycogen into glucose Glycogen depletion as a result of exercise Glycogen: • Glycogen is a highly branched homopolymer of glucose present in all tissues. • The largest stores of glycogen are in liver and muscle. • The liver breaks down glycogen and releases glucose to the blood to provide energy for the brain and red blood cells. • Muscle glycogen stores are mobilized to provide energy for muscle contraction. Glycogen Remodeling Cross‐sectional View of glycogen (debranching enzyme) • Phosphoglucomutase forms glucose 6‐phosphate from glucose 1‐phosphate with the use of a glucose 1, 6‐bisphosphate intermediate. • Glucose 6‐phosphatase generates free glucose from glucose 6‐phosphate in liver. Glucose 6‐phosphatase is absent in most other tissues. Answer Phosphorylase, transferase, glucosidase, phosphoglucomutase, and glucose 6- phosphatase. The regulatory cascade for glycogen breakdown Clinical Insights: Hers disease results from a deficiency in the liver isozyme of glycogen phosphorylase. Glycogen accumulates in the liver and hypoglycemia results, both manifestations of the inability to mobilize glycogen. (more active) (Less active) Answer In muscle, the b form of phosphorylase is activated by AMP. In the liver, the a form is inhibited by glucose. The difference corresponds to the difference in the metabolic role of glycogen in each tissue. Muscle uses glycogen as a fuel for contraction, whereas the liver uses glycogen to maintain proper blood- glucose concentration. The hormonal control of glycogen breakdown Glucagon (in liver) and epinephrine (in muscle) initiate G‐protein cascades that result in the production of cAMP. Glycogen Remodeling Cross‐sectional View of glycogen (debranching enzyme) CHAPTER 25: Glycogen Synthesis Pasta and pizza are good energy sources for a host of athletic contests. • Glycogen degradation yields glucose 1‐phosphate. • UDP‐glucose is the monomer that is used to extend the glycogen chain in synthesis. • UDP‐glucose is synthesized by UDP‐ glucose pyrophosphorylase. • Glycogen synthase, the key regulatory enzyme in glycogen synthesis, transfers a glucose moiety from UDP‐glucose to the C‐4 terminal residue of a glycogen chain to form an α‐1,4‐glycosidic bond. • Glycogen synthase requires an oligosaccharide of glucose residues as primer. • The primer is synthesized by glycogenin, a dimer of two identical subunits. • Each subunit of glycogenin generated an oligosaccharide of glucose residues 10‐20 molecules long. • Glycogen synthase then extends this primer. Glycogen synthase is usually Branching reaction inactive when in the phosphorylated b form, and is usually active when in the unphosphorylated a form. Binding glucose 6‐phosphate to glycogen synthase converts the b form in the T state to the active R state of the b form. Note that phosphorylation has opposite effects on glycogen synthase than on glycogen phosphorylase. The branching enzyme removes an oligosaccharide of approximately seven residues from the nonreducing end and creates an internal ‐1,6 linkage. Coordinate control of glycogen metabolism Protein kinase A, along with glycogen synthase kinase, inactivates glycogen synthase, shutting down glycogen synthesis The regulation of glycogen synthesis by protein phosphatase 1 PP1 stimulates glycogen synthesis while inhibiting glycogen breakdown. The regulation of PP1 in muscle takes place in two steps protein phosphatase 1 A key regulatory subunit is the G subunit (GL in liver and GM in muscle) Insulin inactivates glycogen synthase kinase. • Insulin triggers a cascade that leads to the phosphorylation and inactivation of glycogen synthase kinase and prevents the phosphorylation of glycogen synthase. Protein phosphatase 1 (PP1) removes the phosphoryl groups from glycogen synthase, thereby activating the enzyme and allowing glycogen synthesis. Abbreviation: IRS, insulin‐ receptor substrate. • Insulin also facilitates glycogen synthesis by increasing the number of glucose transporters (GLUT4) in the plasma membrane. Blood glucose regulates liver‐glycogen metabolism The infusion of glucose into the bloodstream leads to the inactivation of phosphorylase followed by the activation of glycogen synthase in the liver. Glucose regulates liver‐glycogen metabolism Answer It prevents synthesis and breakdown from taking place simultaneously, which would lead to a useless expenditure of energy. See problem 9 in the Problems section. Answer Liver phosphorylase a is inhibited by glucose, which facilitates the R → T transion. This transion releases protein phosphatase 1, which inactivates glycogen breakdown and stimulates glycogen synthesis. Muscle phosphorylase is insensitive to glucose. Diabetes is characterized by the presence of excess glucose and underutilization of the fuel. Excess glucose is excreted in the urine. In type 1 diabetes, insulin in not produced. In type 2 diabetes, insulin is produced but the insulin‐ signaling pathway is not responsive, a condition referred to as insulin resistance. Glycogen storage diseases result from a variety of biochemical defects in glycogen metabolism. CHAPTER 26: The Pentose Phosphate Pathway Growth is an awesome biochemical feat. Two key biochemical components required for growth ‐ribose sugars and biochemical reducing power‐ are provided by the pentose phosphate pathway. NADPH, a key product of the pentose phosphate pathway, is the source of biosynthetic reducing power. 1) The first phase of the pentose phosphate pathway is the oxidative generation of NADPH. 2) The second phase is the nonoxidative interconversion of a variety of sugars. • Glucose 6‐phosphate dehydrogenase initiates the oxidative phase of the pentose phosphate pathway with the conversion of glucose 6‐phosphate into 6‐ phosphoglucono‐δ‐lactone. • In the process, glucose 6‐phosphate dehydrogenase reduces NADP+ to NADPH. • A second NADPH is generated in the oxidative phase when 6‐phosphogluconate is converted into ribulose 5‐phosphate and CO2. Excess ribose 5-phosphate formed by the pentose phosphate pathway can be completely converted into glycolytic intermediates • Ribulose 5‐phosphate, generated by the oxidative phase, is isomerized into ribose 5‐phosphate. • The nonoxidative phase consists of three reactions: • The net result of these reactions in the conversion of three pentoses into two hexoses and one triose. Answer The enzymes catalyze the transformation of the five‐carbon sugar formed by the oxidative phase of the pentose phosphate pathway into fructose 6‐phosphate and glyceraldehyde 3‐phosphate, intermediates in glycolysis (and gluconeogenesis). The first reaction of the pentose phosphate pathway, the dehydrogenation of glucose 6‐phosphate by glucose 6‐phosphate dehydrogenase, is the rate‐ limiting step of the pathway. The most important regulatory factor is the concentration of NADP+. Excess ribose 5-phosphate formed by the pentose phosphate pathway can be completely converted into glycolytic intermediates The pentose phosphate pathway can operate in four distinct modes that result from various combinations of the oxidative phase, the nonoxidative phase, glycolysis, and gluconeogenesis. 1. Ribose 5‐phosphate needs exceed the needs for NADPH. 2. The NADH and ribose 5‐phosphate needs are balanced. 3. More NADPH is needed than ribose 5‐phosphate. 4. NADPH and ATP are both required. Four modes of the pentose phosphate pathway Major products are shown in color. Ribose 5‐phosphate and NADPH are important resources for rapidly dividing cells, such as cancer cells. Cancer cells undergoing aerobic glycolysis divert some of the glucose 6‐ phosphate and other glycolytic intermediates into the pentose phosphate pathway for the generation of ribose 5‐phosphate and NADPH. Glutathione (GSH) helps to prevent damage by reactive oxygen species generated in the course of metabolism. NADPH generated by the pentose phosphate pathway is required to maintain adequate levels of reduced glutathione. Oxidized glutathione (GSSG) is converted into reduced glutathione by NADPH. If glucose 6‐phosphate dehydrogenase activity is compromised, adequate amounts of NADPH cannot be generated to maintain GSH levels. Glucose 6‐phosphate dehydrogenase deficiency protects against malaria by depriving the parasites of NADPH that they require for growth . Glutathione is used to eliminate peroxides, which are reactive oxygen species. Glutathione is also required to maintain the normal structure of hemoglobin. In the absence of glutathione, sulfhydryl bonds occur among hemoglobin molecules, forming aggregates called Heinz bodies. Heinz bodies can cause the red blood cells to lyse..
Recommended publications
  • Biochemical and Comparative Transcriptome Analyses Reveal
    biomolecules Article Biochemical and Comparative Transcriptome Analyses Reveal Key Genes Involved in Major Metabolic Regulation Related to Colored Leaf Formation in Osmanthus fragrans ‘Yinbi Shuanghui’ during Development Xuan Chen 1,2, Xiulian Yang 1,3, Jun Xie 2, Wenjie Ding 1,3, Yuli Li 1,3, Yuanzheng Yue 1,3,* and Lianggui Wang 1,3,* 1 Key Laboratory of Landscape Architecture, Jiangsu Province, College of Landscape Architecture, Nanjing Forestry University, No. 159 Longpan Road, Nanjing 210037, China; [email protected] (X.C.); [email protected] (X.Y.); [email protected] (W.D.); [email protected] (Y.L.) 2 College of Fine Arts, Nanjing Normal University of Special Education, No.1 Shennong Road, Nanjing 210038, China; [email protected] 3 Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China * Correspondence: [email protected] (Y.Y.); [email protected] (L.W.); Tel.: +86-138-0900-7625 (L.W.) Received: 25 February 2020; Accepted: 1 April 2020; Published: 4 April 2020 Abstract: Osmanthus fragrans ‘Yinbi Shuanghui’ not only has a beautiful shape and fresh floral fragrance, but also rich leaf colors that change, making the tree useful for landscaping. In order to study the mechanisms of color formation in O. fragrans ‘Yinbi Shuanghui’ leaves, we analyzed the colored and green leaves at different developmental stages in terms of leaf pigment content, cell structure, and transcriptome data. We found that the chlorophyll content in the colored leaves was lower than that of green leaves throughout development. By analyzing the structure of chloroplasts, the colored leaves demonstrated more stromal lamellae and low numbers of granum thylakoid.
    [Show full text]
  • Open Full Page
    Published OnlineFirst February 12, 2018; DOI: 10.1158/0008-5472.CAN-17-2215 Cancer Metabolism and Chemical Biology Research RSK Regulates PFK-2 Activity to Promote Metabolic Rewiring in Melanoma Thibault Houles1, Simon-Pierre Gravel2,Genevieve Lavoie1, Sejeong Shin3, Mathilde Savall1, Antoine Meant 1, Benoit Grondin1, Louis Gaboury1,4, Sang-Oh Yoon3, Julie St-Pierre2, and Philippe P. Roux1,4 Abstract Metabolic reprogramming is a hallmark of cancer that includes glycolytic flux in melanoma cells, suggesting an important role for increased glucose uptake and accelerated aerobic glycolysis. This RSK in BRAF-mediated metabolic rewiring. Consistent with this, phenotypeisrequiredtofulfill anabolic demands associated with expression of a phosphorylation-deficient mutant of PFKFB2 aberrant cell proliferation and is often mediated by oncogenic decreased aerobic glycolysis and reduced the growth of melanoma drivers such as activated BRAF. In this study, we show that the in mice. Together, these results indicate that RSK-mediated phos- MAPK-activated p90 ribosomal S6 kinase (RSK) is necessary to phorylation of PFKFB2 plays a key role in the metabolism and maintain glycolytic metabolism in BRAF-mutated melanoma growth of BRAF-mutated melanomas. cells. RSK directly phosphorylated the regulatory domain of Significance: RSK promotes glycolytic metabolism and the 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 2 (PFKFB2), growth of BRAF-mutated melanoma by driving phosphory- an enzyme that catalyzes the synthesis of fructose-2,6-bisphosphate lation of an important glycolytic enzyme. Cancer Res; 78(9); during glycolysis. Inhibition of RSK reduced PFKFB2 activity and 2191–204. Ó2018 AACR. Introduction but recently developed therapies that target components of the MAPK pathway have demonstrated survival advantage in pati- Melanoma is the most aggressive form of skin cancer and arises ents with BRAF-mutated tumors (7).
    [Show full text]
  • Allosteric Regulation
    Hanjia’s Biochemistry Lecture Hanjia’s Biochemistry Lecture Chapter 15 Essential Questions • Before this class, ask your self the following questions: Reginald H. Garrett – What are the properties of regulatory enzymes? Enzyygme Regulation Charles M. Grisham • How do you know this enzyme is a regulatory enzyme? – How do regulatory enzymes sense the momentary needfll?ds of cells? ?Դৣ • How signal is delivered ᑣ٫݅ ፐำᆛઠ – Wha t mo lecu lar mec han isms are used to regu la te enzyme activity? http://lms. ls. ntou. edu. tw/course/106 [email protected] 2 Hanjia’s Biochemistry Lecture Hanjia’s Biochemistry Lecture Outline 15. 1 – What Factors Influence Enzymatic Activity? • Part 1 Factors that influence enzymatic activity 1. The availability of substrates and cofactors! – Zymogen, isozyme and covalent modification! 2. Product accu m ul ates b the rate will dec r ease! • Part 2: The general features of allosteric 3. The amount of enzyme present at any moment – Genetic regulation of enzyme synthesis and decay regulation 4. Regulation of Enzyme activity – The mechanisms of allosteric regulation – Zymogens, isozymes , and modulator proteins may play – Example of a enzyme controlled by both a role allosteric regulation and covalent modification – Enzyme activity can be regulated through covalent modification • Part 3: Special focus on hemoglobin and – Allosteric Regulation myoglbilobin 3 4 Hanjia’s Biochemistry Lecture Hanjia’s Biochemistry Lecture Regulation 1: Zymogen … The proteolytic activation of chymotrypsinogen • Zymogens are inactive
    [Show full text]
  • Genetic Mutations and Non-Coding RNA-Based Epigenetic Alterations Mediating the Warburg Effect in Colorectal Carcinogenesis
    biology Review Genetic Mutations and Non-Coding RNA-Based Epigenetic Alterations Mediating the Warburg Effect in Colorectal Carcinogenesis Batoul Abi Zamer 1,2 , Wafaa Abumustafa 1,2, Mawieh Hamad 2,3 , Azzam A. Maghazachi 2,4 and Jibran Sualeh Muhammad 1,2,* 1 Department of Basic Medical Sciences, College of Medicine, University of Sharjah, Sharjah 27272, United Arab Emirates; [email protected] (B.A.Z.); [email protected] (W.A.) 2 Sharjah Institute for Medical Research, University of Sharjah, Sharjah 27272, United Arab Emirates; [email protected] (M.H.); [email protected] (A.A.M.) 3 Department of Medical Laboratory Sciences, College of Health Sciences, University of Sharjah, Sharjah 27272, United Arab Emirates 4 Department of Clinical Sciences, College of Medicine, University of Sharjah, Sharjah 27272, United Arab Emirates * Correspondence: [email protected]; Tel.: +971-6-5057293 Simple Summary: Colorectal cancer is one of the most leading causes of death worldwide. The Hallmark of colorectal cancer is the increase of glucose uptake and lactate production even in the presence of oxygen, a phenomenon known as the “Warburg effect”. This review summarizes the genetic mutations and epigenetic alterations, focusing on non-coding RNA associated with the oncogenes, tumor suppresser genes, and enzymes involved in the “Warburg effect”, in addition to Citation: Abi Zamer, B.; Abumustafa, their clinical impacts on colorectal cancer. This knowledge may open the door for novel therapeutic W.; Hamad, M.; Maghazachi, A.A.; approaches to target colorectal cancer. Muhammad, J.S. Genetic Mutations and Non-Coding RNA-Based Abstract: Colorectal cancer (CRC) development is a gradual process defined by the accumulation of Epigenetic Alterations Mediating the numerous genetic mutations and epigenetic alterations leading to the adenoma-carcinoma sequence.
    [Show full text]
  • Glucokinase Regulatory Network in Pancreatic -Cells and Liver
    Glucokinase Regulatory Network in Pancreatic ␤-Cells and Liver Simone Baltrusch1 and Markus Tiedge2 The low-affinity glucose-phosphorylating enzyme glucokinase GLUCOKINASE AND ITS EXCEPTIONAL ROLE IN THE (GK) is the flux-limiting glucose sensor in liver and ␤-cells of HEXOKINASE GENE FAMILY the pancreas. Furthermore, GK is also expressed in various The glucose-phosphorylating enzyme glucokinase (GK) neuroendocrine cell types. This review describes the complex (hexokinase type IV) has unique characteristics compared network of GK regulation, which shows fundamental differ- ences in liver and pancreatic ␤-cells. Tissue-specific GK pro- with the ubiquitously expressed hexokinase isoforms type moters determine a higher gene expression level and glucose I–III. The smaller 50-kDa size of the GK protein distin- phosphorylation capacity in liver than in pancreatic ␤-cells. guishes it from the 100-kDa hexokinase isoforms (1). From The second hallmark of tissue-specific GK regulation is based a historical point of view, several kinetic preferences on posttranslational mechanisms in which the high-affinity allowed this enzyme to act as a metabolic glucose sensor: regulatory protein in the liver undergoes glucose- and 1) its low affinity for glucose, in the physiological concen- fructose-dependent shuttling between cytoplasm and nu- tration range between 5 and 7 mmol/l, 2) a cooperative cleus. In ␤-cells, GK resides outside the nucleus but has behavior for glucose with a Hill coefficient (nHill) between been reported to interact with insulin secretory gran- 1.5 and 1.7, and 3) a lack of feedback inhibition by ules. The unbound diffusible GK fraction likely deter- mines the glucose sensor activity of insulin-producing glucose-6-phosphate within the physiological concentra- cells.
    [Show full text]
  • Tobacco Phospholipase D Β1: Molecular Cloning and Biochemical Characterization
    TOBACCO PHOSPHOLIPASE D b1: MOLECULAR CLONING AND BIOCHEMICAL CHARACTERIZATION Jane E. Hodson, B.S. Thesis Prepared for the Degree of MASTER OF SCIENCE UNIVERSITY OF NORTH TEXAS December 2002 APPROVED: Kent D. Chapman, Major Professor Robert Pirtle, Committee Member John Knesek, Committee Member Earl G. Zimmerman, Department Chair of Biological Sciences C. Neal Tate, Dean of the Robert B. Toulouse School of Graduate Studies Hodson, Jane E., Tobacco Phospholipase D b1: Molecular Cloning and Biochemical Characterization. Master of Science (Biochemistry), December 2002, 80 pp., 2 tables, 13 illustrations, references, 44 titles. Transgenic tobacco plants were developed containing a partial PLD clone in antisense orientation. The PLD isoform targeted by the insertion was identified. A PLD clone was isolated from a cDNA library using the partial PLD as a probe: Nt10B1 shares 92% identity with PLDb1 from tomato but lacks the C2 domain. PCR analysis confirmed insertion of the antisense fragment into the plants: three introns distinguished the endogenous gene from the transgene. PLD activity was assayed in leaf homogenates in PLDb/g conditions. When phosphatidylcholine was utilized as a substrate, no significant difference in transphosphatidylation activity was observed. However, there was a reduction in NAPE hydrolysis in extracts of two transgenic plants. In one of these, a reduction in elicitor-induced PAL expression was also observed. TABLE OF CONTENTS Page LIST OF TABLES………………………………………………………………….iv LIST OF ILLUSTRATIONS………………………………………………………..v
    [Show full text]
  • Regulation of Fructose-6-Phosphate 2-Kinase By
    Proc. Natt Acad. Sci. USA Vol. 79, pp. 325-329, January 1982 Biochemistry Regulation of fructose-6-phosphate 2-kinase by phosphorylation and dephosphorylation: Possible mechanism for coordinated control of glycolysis and glycogenolysis (phosphofructokinase) EISUKE FURUYA*, MOTOKO YOKOYAMA, AND KOSAKU UYEDAt Pre-Clinical Science Unit of the Veterans Administration Medical Center, 4500 South Lancaster Road, Dallas, Texas 75216; and Biochemistry Department of the University ofTexas Health Science Center, 5323 Harry Hines Boulevard, Dallas, Texas 75235 Communicated by Jesse C. Rabinowitz, September 28, 1981 ABSTRACT The kinetic properties and the control mecha- Fructose 6-phosphate + ATP nism of fructose-6-phosphate 2-kinase (ATP: D-fructose-6-phos- -3 Fructose + ADP. [1] phate 2-phosphotransferase) were investigated. The molecular 2,6-bisphosphate weight of the enzyme is -100,000 as determined by gel filtration. The plot of initial velocity versus ATP concentration is hyperbolic We have shown that the administration of extremely low con- with a K. of 1.2 mM. However, the plot of enzyme activity as a centrations of glucagon (0.1 fM) or high concentrations of epi- function of fructose 6-phosphate is sigmoidal. The apparent K0.5 nephrine (10 ,uM) to hepatocytes results in inactivation offruc- for fructose 6-phosphate is 20 ,IM. Fructose-6-phosphate 2-kinase tose-6-phosphate 2-kinase and concomitant decrease in the is inactivated by -the catalytic subunit of cyclic AMP-dependent fructose 2,6-bisphosphate level (12). These results, as well as protein kinase, and the inactivation is closely correlated with phos- more recent data using Ca2+ and the Ca2+ ionophore A23187 phorylation.
    [Show full text]
  • Selective Elimination of Malignant Melanoma Using the Novel Anti-Tumor Agents, OSW-1 and PEITC
    The Texas Medical Center Library DigitalCommons@TMC The University of Texas MD Anderson Cancer Center UTHealth Graduate School of The University of Texas MD Anderson Cancer Biomedical Sciences Dissertations and Theses Center UTHealth Graduate School of (Open Access) Biomedical Sciences 10-2014 Selective Elimination of Malignant Melanoma Using the Novel Anti-tumor Agents, OSW-1 AND PEITC Kausar Begam Riaz Ahmed Follow this and additional works at: https://digitalcommons.library.tmc.edu/utgsbs_dissertations Part of the Medicine and Health Sciences Commons, and the Pharmacology Commons Recommended Citation Riaz Ahmed, Kausar Begam, "Selective Elimination of Malignant Melanoma Using the Novel Anti-tumor Agents, OSW-1 AND PEITC" (2014). The University of Texas MD Anderson Cancer Center UTHealth Graduate School of Biomedical Sciences Dissertations and Theses (Open Access). 515. https://digitalcommons.library.tmc.edu/utgsbs_dissertations/515 This Dissertation (PhD) is brought to you for free and open access by the The University of Texas MD Anderson Cancer Center UTHealth Graduate School of Biomedical Sciences at DigitalCommons@TMC. It has been accepted for inclusion in The University of Texas MD Anderson Cancer Center UTHealth Graduate School of Biomedical Sciences Dissertations and Theses (Open Access) by an authorized administrator of DigitalCommons@TMC. For more information, please contact [email protected]. SELECTIVE ELIMINATION OF MALIGNANT MELANOMA USING THE NOVEL ANTI-TUMOR AGENTS, OSW-1 AND PEITC By Kausar Begam Riaz Ahmed, B.Tech., M.S. APPROVED: ______________________________ Peng Huang, M.D., Ph.D. (Advisory Professor) ______________________________ Michael Davies, M.D., Ph.D. ______________________________ Varsha Gandhi, Ph.D. ______________________________ Elizabeth Grimm, Ph.D. ______________________________ Zahid Siddik, Ph.D.
    [Show full text]
  • Department of Mathematics Technical Report
    DEPARTMENT OF MATHEMATICS TECHNICAL REPORT Mathematical Determination of Competitive Feedback Inhibition Rates in Branched Metabolic Pathways Luis Jimenez, Christopher Pickens, and Weijiu Liu January 2007 No. 2007 ¡ 1 UNIVERSITY OF CENTRAL ARKANSAS Conway, AR 72035 Mathematical Determination of Competitive Feedback Inhibition Rates in Branched Metabolic Pathways Luis Jimenez1, Christopher Pickens2, and Weijiu Liu2¤ 1Department of Chemical Engineering University of Arkansas at Fayetteville Fayetteville, AR 72701, USA 2Department of Mathematics University of Central Arkansas 201 Donaghey Avenue, Conway, AR 72035, USA Abstract In this paper, we consider the problem of mathematically determining the feedback inhibition rates in multi-branched metabolic pathways. To solve the problem, we model the system with a series of nonlinear ordinary di®erential equations by using the law of mass action without the usual quasi-steady state assumptions. Through an equilibrium analysis, we develop formulas to calculate the feedback inhibition rates in terms of the concentrations of end-products and regulatory enzymes at equilibrium. We then prove that the linearized system of the nonlinear system at its equilibrium is exponentially stable by applying Routh's stability criterion, thus the equilibrium of the nonlinear system is locally exponentially stable. This local stability proves that the feedback inhibition rates determined by our formulas are e®ective in regulating the end-products. This feasibility of these feedback inhibition rates is further tested
    [Show full text]
  • Pyruvate Orthophosphate Dikinase
    Chapter 15 Structure, Function, and Post-translational Regulation of C4 Pyruvate Orthophosphate Dikinase Chris J. Chastain Department of Biosciences, Minnesota State University-Moorhead , Moorhead , MN 56563 , USA Summary .............................................................................................................................................................. 301 I. Introduction .................................................................................................................................................... 302 A. Role of PPDK in C 4 Plants ...................................................................................................................... 302 B. PPDK Enzyme Properties ...................................................................................................................... 302 1. Catalysis as Related to Structure ..................................................................................................... 302 2. Oligomeric Structure and Tetramer Dissociation at Cool Temperatures ........................................... 304 3. Substrate Km s for C 4 PPDK .............................................................................................................. 304 C. PPDK as a Rate-Limiting Enzyme of the C 4 Pathway ............................................................................ 304 II. Post-translational Regulation of C 4 PPDK ..................................................................................................... 305 A. Light/Dark
    [Show full text]
  • SEM 6 BOTANY C13T Plant Metabolism
    SEM VI: BOTANY C13T: Plant Metabolism Unit 1: Concept of metabolism Introduction, anabolic and catabolic pathways, regulation of metabolism, role of regulatory enzymes (allosteric ,covalent modulation and Isozymes) Introduction to Metabolism: Hundreds of reactions simultaneously take place in a living cell, in a well-organized and integrated manner. The entire spectrum of chemical reactions, occurring in the living system, is collectively referred to as metabolism. A metabolic pathway (or metabolic map) constitutes a series of enzymatic reactions to produce specific products. The term metabolite is applied to a substrate or an intermediate or a product in the metabolic reactions. 1. Catabolism: The degradative processes concerned with the breakdown of complex molecules to simpler ones, with a concomitant release of energy. 2. Anabolism: The biosynthetic reactions involving the formation of complex molecules from simple precursors. A clear demarcation between catabolism and anabolism is rather difficult, since there are several intermediates common to both the processes. Catabolism: The very purpose of catabolism is to trap the energy of the biomolecules in the form of ATP and to generate the substances (precursors) required for the synthesis of complex molecules. Catabolism occurs in three stages. 1 1. Conversion of complex molecules into their building blocks: Polysaccharides are broken down to monosaccharides, lipids to free fatty acids and glycerol, and proteins to amino acids. 2. Formation of simple intermediates: The building blocks produced in stage (1) are degraded to simple intermediates such as pyruvate and acetyl CoA. These intermediates are not readily identifiable as carbohydrates, lipids or proteins. A small quantity of energy (as ATP) is captured in stage 2.
    [Show full text]
  • Principles of Metabolic Control
    1 PRINCIPLES OF METABOLIC CONTROL WILLIAM C. PLAXTON KEY CONCEPTS eclipsed areas of traditional biochemistry such as protein chemistry, enzymology, and metabolic control. With The ability to control the rates of metabolic processes in many genomes sequenced and others nearing completion, response to changes in the internal or external environment the next step is the less straightforward task of analyzing is an indispensable attribute of living cells that must have the expression and function of gene products (proteins), arisen with life’s origin. This adaptability is necessary for as well as more thoroughly elucidating metabolism and conserving the stability of the intracellular environment its control. The task of completing the picture of all cellu- (homeostasis), which is, in turn, essential for maintaining lar proteins, their actions and reactions, is one of the an efficient functional state. In the absence of such biggest challenges facing life science researchers today. control, all metabolic processes would achieve a state of Although molecular biology has generated many impress- equilibrium with the external environment. For example, ive techniques [e.g., protein overexpression, site-directed the intracellular storage of a fuel macromolecule such as mutagenesis, metabolic engineering, complementary deox- glycogen would be impossible since there is an enzyme yribonucleic acid (cDNA) microarrays, etc.] for assessing (glycogen phosphorylase) dedicated to catalyzing the various aspects of protein/enzyme structure–function and breakdown of this storage polyglucan into its constituent regulatory control, one cannot deduce the properties of a glucosyl units. Obviously, the existence of glycogen as an functional protein or the kinetic and regulatory properties important energy store in animal tissues implies that the of an enzyme solely from genetic information.
    [Show full text]