Konrad Bloch
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Biomolecules
CHAPTER 3 Biomolecules 3.1 Carbohydrates In the previous chapter you have learnt about the cell and 3.2 Fatty Acids and its organelles. Each organelle has distinct structure and Lipids therefore performs different function. For example, cell membrane is made up of lipids and proteins. Cell wall is 3.3 Amino Acids made up of carbohydrates. Chromosomes are made up of 3.4 Protein Structure protein and nucleic acid, i.e., DNA and ribosomes are made 3.5 Nucleic Acids up of protein and nucleic acids, i.e., RNA. These ingredients of cellular organelles are also called macromolecules or biomolecules. There are four major types of biomolecules— carbohydrates, proteins, lipids and nucleic acids. Apart from being structural entities of the cell, these biomolecules play important functions in cellular processes. In this chapter you will study the structure and functions of these biomolecules. 3.1 CARBOHYDRATES Carbohydrates are one of the most abundant classes of biomolecules in nature and found widely distributed in all life forms. Chemically, they are aldehyde and ketone derivatives of the polyhydric alcohols. Major role of carbohydrates in living organisms is to function as a primary source of energy. These molecules also serve as energy stores, 2021-22 Chapter 3 Carbohydrade Final 30.018.2018.indd 50 11/14/2019 10:11:16 AM 51 BIOMOLECULES metabolic intermediates, and one of the major components of bacterial and plant cell wall. Also, these are part of DNA and RNA, which you will study later in this chapter. The cell walls of bacteria and plants are made up of polymers of carbohydrates. -
PRODUCT INFORMATION Geranyl Pyrophosphate (Triammonium Salt) Item No
PRODUCT INFORMATION Geranyl Pyrophosphate (triammonium salt) Item No. 63320 CAS Registry No.: 116057-55-7 Formal Name: 3E,7-dimethyl-2,6-octadienyl- diphosphoric acid, triammonium salt Synonyms: GDP, Geranyl Diphosphate, GPP MF: C10H20O7P2 · 3NH3 FW: 365.3 O O Purity: ≥90% (NH +) – O P O P O Supplied as: A solution in methanol 4 3 Storage: -20°C O– O– Stability: ≥2 years Information represents the product specifications. Batch specific analytical results are provided on each certificate of analysis. Laboratory Procedures Geranyl pyrophosphate (triammonium salt) is supplied as a solution in methanol. To change the solvent, simply evaporate the methanol under a gentle stream of nitrogen and immediately add the solvent of choice. A stock solution may be made by dissoving the geranyl pyrophosphate (triammonium salt) in the solvent of choice. Geranyl pyrophosphate (triammonium salt) is slightly soluble in water. Description Geranyl pyrophosphate is an intermediate in the mevalonate pathway. It is formed from dimethylallyl pyrophosphate (DMAPP; Item No. 63180) and isopentenyl pyrophosphate by geranyl pyrophosphate synthase.1 Geranyl pyrophosphate is used in the biosynthesis of farnesyl pyrophosphate (Item No. 63250), geranylgeranyl pyrophosphate (Item No. 63330), cholesterol, terpenes, and terpenoids. Reference 1. Dorsey, J.K., Dorsey, J.A. and Porter, J.W. The purification and properties of pig liver geranyl pyrophosphate synthetase. J. Biol. Chem. 241(22), 5353-5360 (1966). WARNING CAYMAN CHEMICAL THIS PRODUCT IS FOR RESEARCH ONLY - NOT FOR HUMAN OR VETERINARY DIAGNOSTIC OR THERAPEUTIC USE. 1180 EAST ELLSWORTH RD SAFETY DATA ANN ARBOR, MI 48108 · USA This material should be considered hazardous until further information becomes available. -
Lanosterol 14Α-Demethylase (CYP51)
463 Lanosterol 14-demethylase (CYP51), NADPH–cytochrome P450 reductase and squalene synthase in spermatogenesis: late spermatids of the rat express proteins needed to synthesize follicular fluid meiosis activating sterol G Majdicˇ, M Parvinen1, A Bellamine2, H J Harwood Jr3, WWKu3, M R Waterman2 and D Rozman4 Veterinary Faculty, Clinic of Reproduction, Cesta v Mestni log 47a, 1000 Ljubljana, Slovenia 1Institute of Biomedicine, Department of Anatomy, University of Turku, Kiinamyllynkatu 10, FIN-20520 Turku, Finland 2Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, Tennessee 37232–0146, USA 3Pfizer Central Research, Department of Metabolic Diseases, Box No. 0438, Eastern Point Road, Groton, Connecticut 06340, USA 4Institute of Biochemistry, Medical Center for Molecular Biology, Medical Faculty University of Ljubljana, Vrazov trg 2, SI-1000 Ljubljana, Slovenia (Requests for offprints should be addressed to D Rozman; Email: [email protected]) (G Majdicˇ is now at Department of Internal Medicine, UT Southwestern Medical Center, Dallas, Texas 75235–8857, USA) Abstract Lanosterol 14-demethylase (CYP51) is a cytochrome detected in step 3–19 spermatids, with large amounts in P450 enzyme involved primarily in cholesterol biosynthe- the cytoplasm/residual bodies of step 19 spermatids, where sis. CYP51 in the presence of NADPH–cytochrome P450 P450 reductase was also observed. Squalene synthase was reductase converts lanosterol to follicular fluid meiosis immunodetected in step 2–15 spermatids of the rat, activating sterol (FF-MAS), an intermediate of cholesterol indicating that squalene synthase and CYP51 proteins are biosynthesis which accumulates in gonads and has an not equally expressed in same stages of spermatogenesis. additional function as oocyte meiosis-activating substance. -
• Our Bodies Make All the Cholesterol We Need. • 85 % of Our Blood
• Our bodies make all the cholesterol we need. • 85 % of our blood cholesterol level is endogenous • 15 % = dietary from meat, poultry, fish, seafood and dairy products. • It's possible for some people to eat foods high in cholesterol and still have low blood cholesterol levels. • Likewise, it's possible to eat foods low in cholesterol and have a high blood cholesterol level SYNTHESIS OF CHOLESTEROL • LOCATION • All tissues • Liver • Cortex of adrenal gland • Gonads • Smooth endoplasmic reticulum Cholesterol biosynthesis and degradation • Diet: only found in animal fat • Biosynthesis: primarily synthesized in the liver from acetyl-coA; biosynthesis is inhibited by LDL uptake • Degradation: only occurs in the liver • Cholesterol is only synthesized by animals • Although de novo synthesis of cholesterol occurs in/ by almost all tissues in humans, the capacity is greatest in liver, intestine, adrenal cortex, and reproductive tissues, including ovaries, testes, and placenta. • Most de novo synthesis occurs in the liver, where cholesterol is synthesized from acetyl-CoA in the cytoplasm. • Biosynthesis in the liver accounts for approximately 10%, and in the intestines approximately 15%, of the amount produced each day. • Since cholesterol is not synthesized in plants; vegetables & fruits play a major role in low cholesterol diets. • As previously mentioned, cholesterol biosynthesis is necessary for membrane synthesis, and as a precursor for steroid synthesis including steroid hormone and vitamin D production, and bile acid synthesis, in the liver. • Slightly less than half of the cholesterol in the body derives from biosynthesis de novo. • Most cells derive their cholesterol from LDL or HDL, but some cholesterol may be synthesize: de novo. -
Sugars As the Source of Energized Carbon for Abiogenesis
Astrobiology Science Conference 2010 (2010) 5095.pdf SUGARS AS THE SOURCE OF ENERGIZED CARBON FOR ABIOGENESIS. A. L. Weber, SETI Institute, NASA Ames Research Center, Mail Stop 239-4, Moffett Field, CA, 94035-1000, [email protected] Abstract: As shown in Figure 1, abiogenesis has sev- eral requirements: (A) a source of organic substrates and chemical energy that drives the synthesis of (B) useful small molecules (ammonia, monomers, metabo- lites, energy molecules), and (C) a second synthetic processs that yields large replicating and catalytic polymers that control (D) the growth and maintenance of a primitive protocell. Furthermore, the required chemical energy must be sustained and effectively coupled to individual reactions to drive biosynthesis at a rate that counters chemical degradation. Energy coupling would have been especially difficult during the origin of life before the development of powerful enzyme catalysts with 3-D active sites. To solve this energy coupling problem we have investigated abio- genesis using sugar substrates whose energized carbon groups drive spontaneous synthetic self-transformation reactions that yield: biometabolites, catalytic mole- cules, energy-rich thioesters, amino acids, plausible alternative nucleobases and cell-like microstructures [1-8]. Recently, we demonstrated that sugars drive the synthesis of ammonia from nitrite [9]. The ability of sugars to drive ammonia synthesis provides a way to generate ammonia at microscopic sites of sugar-based origins processes, thereby eliminating the need for a planet-wide source of photochemically unstable am- monia. Figure 1. Major Synthetic Processes of Abiogenesis. [1] Weber A. L. (1998) Orig. Life Evol. Biosph., 28, 259-270. [2] Weber A. -
An Overview of Biosynthesis Pathways – Inspiration for Pharmaceutical and Agrochemical Discovery
An Overview of Biosynthesis Pathways – Inspiration for Pharmaceutical and Agrochemical Discovery Alan C. Spivey [email protected] 19th Oct 2019 Lessons in Synthesis - Azadirachtin • Azadirachtin is a potent insect anti-feedant from the Indian neem tree: – exact biogenesis unknown but certainly via steroid modification: O MeO C OAc O 2 H O OH O H O OH 12 O O C 11 O 14 OH oxidative 8 O H 7 cleavage highly hindered C-C bond HO OH AcO OH AcO OH for synthesis! H H of C ring H MeO2C O AcO H tirucallol azadirachtanin A azadirachtin (cf. lanosterol) (a limanoid = tetra-nor-triterpenoid) – Intense synhtetic efforts by the groups of Nicolaou, Watanabe, Ley and others since structural elucidation in 1987. –1st total synthesis achieved in 2007 by Ley following 22 yrs of effort – ~40 researchers and over 100 person-years of research! – 64-step synthesis – Veitch Angew. Chem. Int. Ed. 2007, 46, 7629 (DOI) & Veitch Angew. Chem. Int. Ed. 2007, 46, 7633 (DOI) – Review ‘The azadirachtin story’ see: Veitch Angew. Chem. Int. Ed. 2008, 47, 9402 (DOI) Format & Scope of Presentation • Metabolism & Biosynthesis – some definitions, 1° & 2° metabolites • Shikimate Metabolites – photosynthesis & glycolysis → shikimate formation → shikimate metabolites – Glyphosate – a non-selective herbicide • Alkaloids – acetylCoA & the citric acid cycle → -amino acids → alkaloids – Opioids – powerful pain killers • Fatty Acids and Polyketides –acetylCoA → malonylCoA → fatty acids, prostaglandins, polyketides, macrolide antibiotics – NSAIDs – anti-inflammatory’s • Isoprenoids/terpenes -
WO 2013/180584 Al 5 December 2013 (05.12.2013) P O P C T
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2013/180584 Al 5 December 2013 (05.12.2013) P O P C T (51) International Patent Classification: AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, C12N 1/21 (2006.01) C12N 15/74 (2006.01) BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DK, DM, C12N 15/52 (2006.01) C12P 5/02 (2006.01) DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, C12N 15/63 (2006.01) HN, HR, HU, ID, IL, IN, IS, JP, KE, KG, KN, KP, KR, KZ, LA, LC, LK, LR, LS, LT, LU, LY, MA, MD, ME, (21) International Application Number: MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, PCT/NZ20 13/000095 OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SC, (22) International Filing Date: SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, 4 June 2013 (04.06.2013) TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. (25) Filing Language: English (84) Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, (26) Publication Language: English GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, SZ, TZ, (30) Priority Data: UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, 61/654,412 1 June 2012 (01 .06.2012) US TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, EE, ES, FI, FR, GB, GR, HR, HU, IE, IS, IT, LT, LU, LV, (71) Applicant: LANZATECH NEW ZEALAND LIMITED MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, [NZ/NZ]; 24 Balfour Road, Parnell, Auckland, 1052 (NZ). -
Matrix-Assisted Laser Desorption/Ionization Time-Of-Flight
Received: 26 November 2018 Revised: 29 January 2019 Accepted: 31 January 2019 DOI: 10.1002/rcm.8406 RESEARCH ARTICLE Matrix‐assisted laser desorption/ionization time‐of‐flight mass spectrometry analysis for characterization of lignin oligomers using cationization techniques and 2,5‐dihydroxyacetophenone (DHAP) matrix Amber S. Bowman | Shardrack O. Asare | Bert C. Lynn Department of Chemistry, University of Rationale: Effective analytical techniques are needed to characterize lignin Kentucky, Lexington, KY 40506, USA products for the generation of renewable carbon sources. Application of matrix‐ Correspondence assisted laser desorption/ionization (MALDI) in lignin analysis is limited because of Bert C. Lynn, Department of Chemistry, UK Mass Spectrometry Facility, University of poor ionization efficiency. In this study, we explored the potential of cationization Kentucky, A053 ASTeCC Building, Lexington, along with a 2,5‐dihydroxyacetophenone (DHAP) matrix to characterize model KY 40506‐0286, USA. Email: [email protected] lignin oligomers. Funding information Methods: Synthesized lignin oligomers were analyzed using the developed MALDI National Science Foundation, Grant/Award method. Two matrix systems, DHAP and α‐cyano‐4‐hydroxycinnamic acid (CHCA), Number: OIA 1632854 and three cations (lithium, sodium, silver) were evaluated using a Bruker UltraFlextreme time‐of‐flight mass spectrometer. Instrumental parameters, cation concentration, matrix, sample concentrations, and sample spotting protocols were optimized for improved results. Results: The DHAP/Li+ combination was effective for dimer analysis as lithium adducts. Spectra from DHP and ferric chloride oligomers showed improved signal intensities up to decamers (m/z 1823 for the FeCl3 system) and provided insights into differences in the oligomerization mechanism. Spectra from a mixed DHP oligomer system containing H, G, and S units showed contributions from all monolignols within an oligomer level (e.g. -
Natural Isoprenoids Are Able to Reduce Inflammation in a Mouse
0031-3998/08/6402-0177 Vol. 64, No. 2, 2008 PEDIATRIC RESEARCH Printed in U.S.A. Copyright © 2008 International Pediatric Research Foundation, Inc. Natural Isoprenoids are Able to Reduce Inflammation in a Mouse Model of Mevalonate Kinase Deficiency ANNALISA MARCUZZI, ALESSANDRA PONTILLO, LUIGINA DE LEO, ALBERTO TOMMASINI, GIULIANA DECORTI, TARCISIO NOT, AND ALESSANDRO VENTURA Department of Reproductive and Developmental Sciences [A.M., L.L., A.T., TN, A.V.], Department of Biomedical Sciences [G.D.], University of Trieste, 34137 Trieste, Italy; Paediatric Division [A.P., A.T., T.N., A.V.], Institute of Child Health IRCCS Burlo Garofolo, 34137 Trieste, Italy ABSTRACT: Mevalonate kinase deficiency (MKD) is a rare ataxia, cerebellar atrophy, psychomotor retardation, and may disorder characterized by recurrent inflammatory episodes and, in die in early childhood (1). most severe cases, by psychomotor delay. Defective synthesis of HIDS patients usually are treated with anti-inflammatory isoprenoids has been associated with the inflammatory phenotype drugs and in particular corticosteroids; thalidomide is also in these patients, but the molecular mechanisms involved are still used but its effect is limited (2). In most severe cases, patients poorly understood, and, so far, no specific therapy is available for may benefit from treatment with biologic agents such as this disorder. Drugs like aminobisphosphonates, which inhibit the etanercept and anakinra (1,3–5). No treatment has been mevalonate pathway causing a relative defect in isoprenoids proven effective in curing the neurological symptoms in se- synthesis, have been also associated to an inflammatory pheno- type. Recent data asserted that cell inflammation could be reversed vere cases of MKD. -
Hop Aroma and Hoppy Beer Flavor: Chemical Backgrounds and Analytical Tools—A Review
Journal of the American Society of Brewing Chemists The Science of Beer ISSN: 0361-0470 (Print) 1943-7854 (Online) Journal homepage: http://www.tandfonline.com/loi/ujbc20 Hop Aroma and Hoppy Beer Flavor: Chemical Backgrounds and Analytical Tools—A Review Nils Rettberg, Martin Biendl & Leif-Alexander Garbe To cite this article: Nils Rettberg, Martin Biendl & Leif-Alexander Garbe (2018) Hop Aroma and Hoppy Beer Flavor: Chemical Backgrounds and Analytical Tools—A Review , Journal of the American Society of Brewing Chemists, 76:1, 1-20 To link to this article: https://doi.org/10.1080/03610470.2017.1402574 Published online: 27 Feb 2018. Submit your article to this journal Article views: 1464 View Crossmark data Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=ujbc20 JOURNAL OF THE AMERICAN SOCIETY OF BREWING CHEMISTS 2018, VOL. 76, NO. 1, 1–20 https://doi.org/10.1080/03610470.2017.1402574 Hop Aroma and Hoppy Beer Flavor: Chemical Backgrounds and Analytical Tools— A Review Nils Rettberga, Martin Biendlb, and Leif-Alexander Garbec aVersuchs– und Lehranstalt fur€ Brauerei in Berlin (VLB) e.V., Research Institute for Beer and Beverage Analysis, Berlin, Deutschland/Germany; bHHV Hallertauer Hopfenveredelungsgesellschaft m.b.H., Mainburg, Germany; cHochschule Neubrandenburg, Fachbereich Agrarwirtschaft und Lebensmittelwissenschaften, Neubrandenburg, Germany ABSTRACT KEYWORDS Hops are the most complex and costly raw material used in brewing. Their chemical composition depends Aroma; analysis; beer flavor; on genetically controlled factors that essentially distinguish hop varieties and is influenced by environmental gas chromatography; hops factors and post-harvest processing. The volatile fingerprint of hopped beer relates to the quantity and quality of the hop dosage and timing of hop addition, as well as the overall brewing technology applied. -
S-Abscisic Acid
CLH REPORT FOR[S-(Z,E)]-5-(1-HYDROXY-2,6,6-TRIMETHYL-4-OXOCYCLOHEX-2-EN- 1-YL)-3-METHYLPENTA-2,4-DIENOIC ACID; S-ABSCISIC ACID CLH report Proposal for Harmonised Classification and Labelling Based on Regulation (EC) No 1272/2008 (CLP Regulation), Annex VI, Part 2 International Chemical Identification: [S-(Z,E)]-5-(1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2- en-1-yl)-3-methylpenta-2,4-dienoic acid; S-abscisic acid EC Number: 244-319-5 CAS Number: 21293-29-8 Index Number: - Contact details for dossier submitter: Bureau REACH National Institute for Public Health and the Environment (RIVM) The Netherlands [email protected] Version number: 1 Date: August 2018 Note on confidential information Please be aware that this report is intended to be made publicly available. Therefore it should not contain any confidential information. Such information should be provided in a separate confidential Annex to this report, clearly marked as such. [04.01-MF-003.01] CLH REPORT FOR[S-(Z,E)]-5-(1-HYDROXY-2,6,6-TRIMETHYL-4-OXOCYCLOHEX-2-EN- 1-YL)-3-METHYLPENTA-2,4-DIENOIC ACID; S-ABSCISIC ACID CONTENTS 1 IDENTITY OF THE SUBSTANCE........................................................................................................................1 1.1 NAME AND OTHER IDENTIFIERS OF THE SUBSTANCE...............................................................................................1 1.2 COMPOSITION OF THE SUBSTANCE..........................................................................................................................1 2 PROPOSED HARMONISED -
Relationship to Atherosclerosis
AN ABSTRACT OF THE THESIS OF Marilyn L. Walsh for the degree of Doctor of Philosophy in Biochemistry and Biophysics presented on May 3..2001. Title: Protocols. Pathways. Peptides and Redacted for Privacy Wilbert Gamble The vascular system transports components essential to the survival of the individual and acts as a bamer to substances that may injure the organism. Atherosclerosis is a dynamic, lesion producing disease of the arterial system that compromises the functioning of the organ by occlusive and thrombogenic processes. This investigation was undertaken to elucidate some of the normal biochemical processes related to the development of atherosclerosis. A significant part of the investigation was directed toward developing and combining methods and protocols to obtain the data in a concerted manner. A postmitochondnal supernatant of bovine aorta, usingmevalonate-2-14C as the substrate, was employed in the investigation. Methods included paper, thin layer, and silica gel chromatography; gel filtration, high performance liquid chromatography (HPLC), and mass spectrometry. This current research demonstrated direct incorporation of mevalonate-2- 14Cinto the trans-methyiglutaconic shunt intermediates. The aorta also contains alcohol dehydrogenase activity, which converts dimethylallyl alcohol and isopentenol to dimethylacrylic acid, a constituent of the trans-methylgiutaconate Small, radioactive peptides, named Nketewa as a group, were biosynthesized using mevalonate-2-'4C as the substrate. They were shown to pass through a 1000 D membrane. Acid hydrolysis and dabsyl-HPLC analysis defined the composition of the Nketewa peptides. One such peptide, Nketewa 1, had a molecular weight of 1038 and a sequence of his-gly-val-cys-phe-ala-ser-met (HGVCFASM), with afarnesyl group linked via thioether linkage to the cysteine residue.