Degradation of Amino Acids
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Amino Acid Metabolism: Amino Acid Degradation & Synthesis
Amino Acid Metabolism: Amino Acid Degradation & Synthesis Dr. Diala Abu-Hassan, DDS, PhD All images are taken from Lippincott’s Biochemistry textbook except where noted CATABOLISM OF THE CARBON SKELETONS OF AMINO ACIDS The pathways by which AAs are catabolized are organized according to which one (or more) of the seven intermediates is produced from a particular amino acid. GLUCOGENIC AND KETOGENIC AMINO ACIDS The classification is based on which of the seven intermediates are produced during their catabolism (oxaloacetate, pyruvate, α-ketoglutarate, fumarate, succinyl coenzyme A (CoA), acetyl CoA, and acetoacetate). Glucogenic amino acids catabolism yields pyruvate or one of the TCA cycle intermediates that can be used as substrates for gluconeogenesis in the liver and kidney. Ketogenic amino acids catabolism yields either acetoacetate (a type of ketone bodies) or one of its precursors (acetyl CoA or acetoacetyl CoA). Other ketone bodies are 3-hydroxybutyrate and acetone Amino acids that form oxaloacetate Hydrolysis Transamination Amino acids that form α-ketoglutarate via glutamate 1. Glutamine is converted to glutamate and ammonia by the enzyme glutaminase. Glutamate is converted to α-ketoglutarate by transamination, or through oxidative deamination by glutamate dehydrogenase. 2. Proline is oxidized to glutamate. 3. Arginine is cleaved by arginase to produce Ornithine (in the liver as part of the urea cycle). Ornithine is subsequently converted to α-ketoglutarate. Amino acids that form α-ketoglutarate via glutamate 4. Histidine is oxidatively deaminated by histidase to urocanic acid, which then forms N-formimino glutamate (FIGlu). Individuals deficient in folic acid excrete high amounts of FIGlu in the urine FIGlu excretion test has been used in diagnosing a deficiency of folic acid. -
Amino Acid Recognition by Aminoacyl-Trna Synthetases
www.nature.com/scientificreports OPEN The structural basis of the genetic code: amino acid recognition by aminoacyl‑tRNA synthetases Florian Kaiser1,2,4*, Sarah Krautwurst3,4, Sebastian Salentin1, V. Joachim Haupt1,2, Christoph Leberecht3, Sebastian Bittrich3, Dirk Labudde3 & Michael Schroeder1 Storage and directed transfer of information is the key requirement for the development of life. Yet any information stored on our genes is useless without its correct interpretation. The genetic code defnes the rule set to decode this information. Aminoacyl-tRNA synthetases are at the heart of this process. We extensively characterize how these enzymes distinguish all natural amino acids based on the computational analysis of crystallographic structure data. The results of this meta-analysis show that the correct read-out of genetic information is a delicate interplay between the composition of the binding site, non-covalent interactions, error correction mechanisms, and steric efects. One of the most profound open questions in biology is how the genetic code was established. While proteins are encoded by nucleic acid blueprints, decoding this information in turn requires proteins. Te emergence of this self-referencing system poses a chicken-or-egg dilemma and its origin is still heavily debated 1,2. Aminoacyl-tRNA synthetases (aaRSs) implement the correct assignment of amino acids to their codons and are thus inherently connected to the emergence of genetic coding. Tese enzymes link tRNA molecules with their amino acid cargo and are consequently vital for protein biosynthesis. Beside the correct recognition of tRNA features3, highly specifc non-covalent interactions in the binding sites of aaRSs are required to correctly detect the designated amino acid4–7 and to prevent errors in biosynthesis5,8. -
Asparagine-Proline Sequence Within Membrane-Spanning Segment of SREBP Triggers Intramembrane Cleavage by Site-2 Protease
Asparagine-proline sequence within membrane-spanning segment of SREBP triggers intramembrane cleavage by Site-2 protease Jin Ye*†, Utpal P. Dave´ *†, Nick V. Grishin‡, Joseph L. Goldstein*§, and Michael S. Brown*§ Departments of *Molecular Genetics and ‡Biochemistry, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390-9046 Contributed by Joseph L. Goldstein, March 16, 2000 The NH2-terminal domains of membrane-bound sterol regulatory nus. It translocates to the nucleus, where it activates more than element-binding proteins (SREBPs) are released into the cytosol by 20 genes encoding enzymes of cholesterol and fatty acid synthesis regulated intramembrane proteolysis, after which they enter the as well as the low density lipoprotein receptor (6, 7). When nucleus to activate genes encoding lipid biosynthetic enzymes. sterols build up in cells, the SREBP͞SCAP complex fails to exit Intramembrane proteolysis is catalyzed by Site-2 protease (S2P), a the ER, and it never reaches S1P (8, 9). As a result, the hydrophobic zinc metalloprotease that cleaves SREBPs at a mem- NH2-terminal domains of the SREBPs are no longer released brane-embedded leucine-cysteine bond. In the current study, we into the nucleus, and transcription of the target genes declines. use domain-swapping methods to localize the residues within This mechanism allows cholesterol to inhibit its own synthesis the SREBP-2 membrane-spanning segment that are required for and uptake, thereby preventing cholesterol overaccumulation in cleavage by S2P. The studies reveal a requirement for an asparag- cells. ine-proline sequence in the middle third of the transmembrane The human gene encoding S2P was cloned by complementa- segment. -
Effects of Basic Amino Acids and Their Derivatives on SARS-Cov-2 and Influenza-A Virus Infection
viruses Article Effects of Basic Amino Acids and Their Derivatives on SARS-CoV-2 and Influenza-A Virus Infection Ivonne Melano 1 , Li-Lan Kuo 2, Yan-Chung Lo 3, Po-Wei Sung 4, Ni Tien 5,6 and Wen-Chi Su 1,2,7,* 1 Graduate Institute of Biomedical Sciences, College of Medicine, China Medical University, Taichung 40402, Taiwan; [email protected] 2 Research Center for Emerging Viruses, China Medical University Hospital, Taichung 40402, Taiwan; [email protected] 3 Sinphar Pharmaceutical Co., Ltd., Sinphar Group, Yilan 269, Taiwan; [email protected] 4 School of Medicine, China Medical University, Taichung 40402, Taiwan; [email protected] 5 Department of Laboratory Medicine, China Medical University Hospital, Taichung 40402, Taiwan; [email protected] 6 Department of Medical Laboratory Science and Biotechnology, China Medical University, Taichung 40402, Taiwan 7 International Master’s Program of Biomedical Sciences, China Medical University, Taichung 40402, Taiwan * Correspondence: [email protected] Abstract: Amino acids have been implicated with virus infection and replication. Here, we demon- strate the effects of two basic amino acids, arginine and lysine, and their ester derivatives on infection of two enveloped viruses, SARS-CoV-2, and influenza A virus. We found that lysine and its ester derivative can efficiently block infection of both viruses in vitro. Furthermore, the arginine ester derivative caused a significant boost in virus infection. Studies on their mechanism of action revealed that the compounds potentially disturb virus uncoating rather than virus attachment and endosomal Citation: Melano, I.; Kuo, L.-L.; Lo, acidification. Our findings suggest that lysine supplementation and the reduction of arginine-rich Y.-C.; Sung, P.-W.; Tien, N.; Su, W.-C. -
Pyrrolidone Carboxylic Acid Synthesis in Guinea Pig Epidermis
0022-202X/ 83/ 8102-0122$02.00/0 THE JOURNAL OF INVESTIGATIVE DERMATOLOGY, 81:122-124, 1983 Vol. 81, No.2 Copyright © 1983 by The Williams & Wilkins Co. Printed in U.S.A. Pyrrolidone Carboxylic Acid Synthesis in Guinea Pig Epidermis JoHN G. BARRETT, B.Sc. AND IAN R ScoTT, M.A., PH.D. Environmental Safety Laboratory, Unilever Research, Sharnbrook, Bedford, U. K. To establish the in vivo mechanism of synthesis and MATERIALS AND METHODS accumulation of epidermal pyrrolidone carboxylic acid (PCA), enzymes potentially capable of PCA synthesis Enzyme Assays and Separation of Viable Cells and Stratum have been quantified and located within the guinea pig Corneum epidermis. Intermediates in the synthesis of eHJPCA from a pulse of [3H]glutamine have been identified and All enzyme assays were essentially as described previously [8] except quantified to determine which of the several possible for two modifications. Firstly, the sensitivity of the assays for enzymic PCA formation from glutamine and glutamic acid was increased by metabolic routes occurs in vivo. PCA appears to be syn 3 1 thesized from substrate derived from the breakdown using [G- H] substrate (40-90 JLCi mmol- , Radiochemical Centre, Amersham). PCA was separated from glutamic acid and glutamine on within the stratum corneum of protein synthesized sev a small column (2.0 ml bed volume) of Ag50W-X8 ion-exchange resin eral days earlier. The predominant route is probably via (200-400 mesh; Bio-Rad). Secondly, epidermal homogenates were pre the nonenzymic cyclization of free glutamine liberated pared in 0.5 M Tris-HCl buffer, pH 7.0, then microcentrifuge desalted from this protein. -
Amino Acids Amino Acids
Amino Acids Amino Acids What Are Amino Acids? Essential Amino Acids Non Essential Amino Acids Amino acids are the building blocks of proteins; proteins are made of amino acids. Isoleucine Arginine (conditional) When you ingest a protein your body breaks it down into the individual aminos, Leucine Glutamine (conditional) reorders them, re-folds them, and turns them into whatever is needed by the body at Lysine Tyrosine (conditional) that time. From only 20 amino acids, the body is able to make thousands of unique proteins with different functions. Methionine Cysteine (conditional) Phenylalanine Glycine (conditional) Threonine Proline (conditional) Did You Know? Tryptophan Serine (conditional) Valine Ornithine (conditional) There are 20 different types of amino acids that can be combined to make a protein. Each protein consists of 50 to 2,000 amino acids that are connected together in a specific Histidine* Alanine sequence. The sequence of the amino acids determines each protein’s unique structure Asparagine and its specific function in the body. Asparate Popular Amino Acid Supplements How Do They Benefit Our Health? Acetyl L- Carnitine: As part of its role in supporting L-Lysine: L-Lysine, an essential amino acid, is mental function, Acetyl L-Carnitine may help needed to support proper growth and bone Proteins (amino acids) are needed by your body to maintain muscles, bones, blood, as support memory, attention span and mental development. It can also support immune function. well as create enzymes, neurotransmitters and antibodies, as well as transport and performance. store molecules. N-Acetyl Cysteine: N-Acetyl Cysteine (NAC) is a L-Arginine: L-Arginine is a nonessential amino acid form of the amino acid cysteine. -
Neurotransmitters: Critical Amino Acids Affecting
1 NEUROTRANSMITTERS: CRITICAL AMINO ACIDS AFFECTING SEROTONIN AND DOPAMINE Approved _____________________________Date: _August 19, 2015__________________ 2 NEUROTRANSMITTERS: CRITICAL AMINO ACIDS AFFECTING SEROTONIN AND DOPAMINE __________________ Seminar Paper Presented to The Graduate Faculty University of Wisconsin-Platteville __________________ In Partial Fulfillment of the Requirement for the Degree Masters of Science In Adult Education With Emphasis in Counseling __________________ By Laurie Williams 2015 3 Acknowledgments I am grateful to have had the privilege to work with many exceptional professors in their fields of study. I am particularly appreciative that I received both classroom training and advising from my program coordinator and advisor to my Seminar Paper, Dr. Patricia Bromley. I am very thankful for the efforts of all the professors and staff I worked with at UW-Platteville, as well as UW-Whitewater and UW-Rock County for my superior undergraduate and master’s education. I appreciate the opportunity and support to individually examine scholarly research including published articles, academic books, and professional books on my subjects of interest. 4 iii Abstract NEUROTRANSMITTERS: CRITICAL AMINO ACIDS AFFECTING SEROTONIN AND DOPAMINE This paper examines how amino acids from foods critically affect neurotransmitters, which, in turn, affect every area of brain and body health. The manner in which neurotransmitters can affect personality, mental health, and learning disabilities is explored in this research review. Inadequate amino acid nutrition or exposure to poisonous chemicals or drugs can directly cause nerve cells to function poorly. Resulting changes in quantities of neurotransmitters such as serotonin and dopamine can influence emotional states like anger, frustration, or depression, but can also influence energy, speed of thought, activity level, speech volume and fluency, social functioning, and memory. -
Nucleotide Base Coding and Am1ino Acid Replacemients in Proteins* by Emil L
VOL. 48, 1962 BIOCHEMISTRY: E. L. SAIITH 677 18 Britten, R. J., and R. B. Roberts, Science, 131, 32 (1960). '9 Crestfield, A. M., K. C. Smith, and F. WV. Allen, J. Biol. Chem., 216, 185 (1955). 20 Gamow, G., Nature, 173, 318 (1954). 21 Brenner, S., these PROCEEDINGS, 43, 687 (1957). 22 Nirenberg, M. WV., J. H. Matthaei, and 0. WV. Jones, unpublished data. 23 Crick, F. H. C., L. Barnett, S. Brenner, and R. J. Watts-Tobin, Nature, 192, 1227 (1961). 24 Levene, P. A., and R. S. Tipson, J. Biol. Ch-nn., 111, 313 (1935). 25 Gierer, A., and K. W. Mundry, Nature, 182, 1437 (1958). 2' Tsugita, A., and H. Fraenkel-Conrat, J. Mllot. Biol., in press. 27 Tsugita, A., and H. Fraenkel-Conrat, personal communication. 28 Wittmann, H. G., Naturwissenschaften, 48, 729 (1961). 29 Freese, E., in Structure and Function of Genetic Elements, Brookhaven Symposia in Biology, no. 12 (1959), p. 63. NUCLEOTIDE BASE CODING AND AM1INO ACID REPLACEMIENTS IN PROTEINS* BY EMIL L. SMITHt LABORATORY FOR STUDY OF HEREDITARY AND METABOLIC DISORDERS AND THE DEPARTMENTS OF BIOLOGICAL CHEMISTRY AND MEDICINE, UNIVERSITY OF UTAH COLLEGE OF MEDICINE Communicated by Severo Ochoa, February 14, 1962 The problem of which bases of messenger or template RNA' specify the coding of amino acids in proteins has been largely elucidated by the use of synthetic polyri- bonucleotides.2-7 For these triplet nucleotide compositions (Table 1), it is of in- terest to examine some of the presently known cases of amino acid substitutions in polypeptides or proteins of known structure. -
The Role of Reduced Methionine in Mediating the Metabolic Responses to Protein Restriction Using Different Sources of Protein
nutrients Article The Role of Reduced Methionine in Mediating the Metabolic Responses to Protein Restriction Using Different Sources of Protein Han Fang 1 , Kirsten P. Stone 1 , Sujoy Ghosh 2,3 , Laura A. Forney 4 and Thomas W. Gettys 1,* 1 Laboratory of Nutrient Sensing & Adipocyte Signaling, 6400 Perkins Road, Pennington Biomedical Research Center, Baton Rouge, LA 70808, USA; [email protected] (H.F.); [email protected] (K.P.S.) 2 Laboratory of Computational Biology, Pennington Biomedical Research Center, Baton Rouge, LA 70808, USA; [email protected] 3 Program in Cardiovascular and Metabolic Disorders and Center for Computational Biology, Duke-NUS Medical School, Singapore 169857, Singapore 4 Department of Integrative Biology and Pharmacology, University of Texas Health Science Center at Houston, 7000 Fannin St, Houston, TX 77030, USA; [email protected] * Correspondence: [email protected] Abstract: Dietary protein restriction and dietary methionine restriction (MR) produce a comparable series of behavioral, physiological, biochemical, and transcriptional responses. Both dietary regimens produce a similar reduction in intake of sulfur amino acids (e.g., methionine and cystine), and both diets increase expression and release of hepatic FGF21. Given that FGF21 is an essential mediator of the metabolic phenotype produced by both diets, an important unresolved question is whether dietary protein restriction represents de facto methionine restriction. Using diets formulated from either casein or soy protein with matched reductions in sulfur amino acids, we compared the ability Citation: Fang, H.; Stone, K.P.; of the respective diets to recapitulate the metabolic phenotype produced by methionine restriction Ghosh, S.; Forney, L.A.; Gettys, T.W. -
Microbial Cell Factories Biomed Central
Microbial Cell Factories BioMed Central Research Open Access Differential gene expression in recombinant Pichia pastoris analysed by heterologous DNA microarray hybridisation Michael Sauer1, Paola Branduardi2, Brigitte Gasser1, Minoska Valli1, Michael Maurer1, Danilo Porro2 and Diethard Mattanovich*1 Address: 1Institute of Applied Microbiology, Department of Biotechnology, University of Natural Resources and Applied Life Sciences, Muthgasse 18, A-1190 Vienna, Austria and 2Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza, 2, I-20126 Milan, Italy Email: Michael Sauer - [email protected]; Paola Branduardi - [email protected]; Brigitte Gasser - [email protected]; Minoska Valli - [email protected]; Michael Maurer - [email protected]; Danilo Porro - [email protected]; Diethard Mattanovich* - [email protected] * Corresponding author Published: 20 December 2004 Received: 26 November 2004 Accepted: 20 December 2004 Microbial Cell Factories 2004, 3:17 doi:10.1186/1475-2859-3-17 This article is available from: http://www.microbialcellfactories.com/content/3/1/17 © 2004 Sauer et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Background: Pichia pastoris is a well established yeast host for heterologous protein expression, however, the physiological and genetic information about this yeast remains scanty. The lack of a published genome sequence renders DNA arrays unavailable, thereby hampering more global investigations of P. pastoris from the beginning. -
Determination of Histidine A-Deaminase in Human Stratum Corneum and Its Absence in Histidinaemia
160 Biochem. J. (1963) 88, 160 Determination of Histidine a-Deaminase in Human Stratum Corneum and its Absence in Histidinaemia By V. G. ZANNONI AND B. N. LA DU National Institute of Arthritis and Metabolic Diseases, National Institutes of Health, U.S. Public Health Service, Bethesda, Md., U.S.A. (Received 27 February 1963) In studies on the nature of the enzymic defect in Assays of histidine a-deaminase and urocanase. For patients with histidinaemia, an inborn error of homogenates ofguinea-pig tissues, the method described by histidine metabolism (La Du, Howell, Jacoby, Tabor & Mehler (1955) was used. The assay for histidine oc-deaminase is based on the accumulation urocanic acid Seegmiller & Zannoni, 1962), it was necessary to of at 277 m,u at pH 9-2. Urocanase does not interfere with the develop a sensitive assay procedure to measure assay for histidine a-deaminase at this pH. Urocanase histidine oc-deaminase (L-histidine ammonia-lyase, activity was measured spectrophotometrically at 277 m,u EC 4.3.1.3), the enzyme that converts histidine by observing the rate of disappearance of urocanic acid at into urocanic acid. The application of this method pH 7-5. has shown that the stratum corneum of normal Because of the turbidity of homogenates of human human skin is a rich source of histidine oc-deamin- stratum corneum, the direct spectrophotometric assay ase. However, this layer in two patients (sibs) could not be used. Control and experimental tubes were with histidinaemia did not contain any detectable incubated with 0 50 ml. of 0 1 M-sodium pyrophosphate buffer, pH 9-2, and 0 05 ml. -
Article the Bee Hemolymph Metabolome: a Window Into the Impact of Viruses on Bumble Bees
Article The Bee Hemolymph Metabolome: A Window into the Impact of Viruses on Bumble Bees Luoluo Wang 1,2, Lieven Van Meulebroek 3, Lynn Vanhaecke 3, Guy Smagghe 2 and Ivan Meeus 2,* 1 Guangdong Provincial Key Laboratory of Insect Developmental Biology and Applied Technology, Institute of Insect Science and Technology, School of Life Sciences, South China Normal University, Guangzhou, China; [email protected] 2 Department of Plants and Crops, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium; [email protected], [email protected] 3 Laboratory of Chemical Analysis, Department of Veterinary Public Health and Food Safety, Faculty of Vet- erinary Medicine, Ghent University, Merelbeke, Belgium; [email protected]; [email protected] * Correspondence: [email protected] Selection of the targeted biomarker set: In total we identified 76 metabolites, including 28 amino acids (37%), 11 carbohy- drates (14%), 11 carboxylic acids, 2 TCA intermediates, 4 polyamines, 4 nucleic acids, and 16 compounds from other chemical classes (Table S1). We selected biologically-relevant biomarker candidates based on a three step approach: (1) their expression profile in stand- ardized bees and its relation with viral presence, (2) pathways analysis on significant me- tabolites; and (3) a literature search to identify potential viral specific signatures. Step (1) and (2), pathways analysis on significant metabolites We performed two-way ANOVA with Tukey HSD tests for post-hoc comparisons and used significant metabolites for metabolic pathway analysis using the web-based Citation: Wang, L.L.; Van platform MetaboAnalyst (http://www.metaboanalyst.ca/) in order to get insights in the Meulebroek, L.; Vanhaecke.