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BIOINORGANIC CHEMISTRY Asim K. Das Chapter 1 Ww 12 13 14 15 16 WwW 18 + Bloclements, Biomolecules and Background Materials Essential and Trace Elements and Bioinorganic Chemistry. Periodic Survey of Essent ial and Trace Elements : Biological Importance and Relative At ‘bundance of the Elements. ‘The Cell and Distribution of the Elements in the Cell, Biomolecules : Background Materials : sugars; organic acids; amino acids, peptides and proteins; enzymes; purine and pyrimidine bases, nucleosides, nucleotides and nucleic acids; NAD", NADP+, FAD, FMN and quinones; lipids and phospholipids. Bicligands in Biocoordirfation Chemistry. Biological Fune: 's of Biometals (Summary), Chemistry of Physiological Butters. Probable Mecrianism of Carcinogenesis and Mutagenesis by Some Chemical Coniounds and Physical Agents like lonising Radiation Exercise Chapter 2 : Metal-Protein Interaction : Metalloenzymes : Role of Metal tons in Biological Functions 2.1 Metal-Protein Interaction : Metalloproteins and Metal-Protein Complexes 2.2 Metalloenzymes and Metal-Activated Enzymes, 23 The Role of Metal fons in Metal-Protein Systems : structural ynthesis of macrocyclic bioligands; blocking of Lewis acid catalysis in metalloenzymes; biological redox reactions; electron transport process. 2.4 The Role of Metal lons in Basic Biological Reactions, 2.5 Binding of Transition Metal Complexes with DNA as Nucleic Acid Structural Probes : different conformations of ONA, general features of DNA-metal complex interaction, enantioselective interaction. Exercise 0 1-33 34-58 Chapter. Blochemistry of Some Important Blometals, Storage, a ‘Transport and Activity 59.5, $1 Blochemistty of Iron and Iron-Metabolism : diiferent Fe-containi Proteins and enzymes and structural features of different Fe-proteing; ribonucleotide reductase (RR) and methane eppoxygenase (MMO); transport and storage in higher animals and lower organisms. 3:2 Biochemistry of Copper and Copper-Metabilism ; different Cu. Containing proteins and enzymes and their structural features; transport and storage of copper; microbial mining of copper, 53 Similarities between Copper and Iron in Biological Proces: 3.4 Biochemistry of Zine : different 2n-containing enzymes; chemistry behind nature's selection of Zn(l) in enzymatic activity; binding Atos of Znil) in proteins - catalytic and stroctures sites, 35° Vanadium, Chromium, Manganese, Cobalt, Molybdenum, Tungsten and Nickel in Biology, 36 Transport and Storage of the Metals other than Iron, 3.7 Biochemistry of Calcium : iological roles of calcium; binding sites of Ca? in proteins; storage of calcium; calmodulin (Ca? ion Carrion) Ga?*in muscle contraction; Cain blood Clotting process, 38 Comparison of Biochemistry of Ca?+ and Mg?*; Selectivity of Caz over Mg? in Biochemical Processes, Exercise Chapier 4 ; Transport Across the Membrane fon Pump lonophore 96-117 41 Active and Passive ‘Transport Across the Membrane, 42 ton Transport, 43° Crown Ethers and Cryptands ‘44° Naturally Occurring lonophores ; Naturally Occurring Antibiotics ~ diferent types; mechanism of ion transport; valinomycin; Ronactin; gramicidin, 45° Models of Active Transport of Cations Across the Biological Membrane through the lonophores, 46 Sodium-Potassium Pump and Na*-K*-ATP-ase, 47 Active Transport of Na* and K+ ‘ons and Nerve Impulse : Na* -and K+-channels, 48 Calcium Pump and Ca*-ATP-age, 49° Cotransnt of Sugars and Amino, ‘Acids Driven by Na*-Flow. Exercise Chapter 5 ; Onygen Transport and Oxygen Uptake Proteins 118-154 2): thermodynamic and kinetic aspects of activation of dioxygen through metal ions, 0) 5.2 Basic Requirements of Etfective Oxygen Cartiors, 5.3 Biological Oxygen Carriers. 5.4 Distribution of Oxygen Carrying Proteins in Biological System. 5.5 Hemoglobin (Hb) and Myoglobin (Mb) in Oxygen Transport Mechanism : structural features of Hb and Mb; function of Hb and Mb; characteristics of O,-binding interaction with Hb and Mb — cooperativity, Hill-plot, allosteric effect; effect of Ht, Clr, CO, and 2,3-ciphosphoglycerate (DPG); mechanism of homotropic and heterotropic allosteric ‘effect; protection of heme {rom its irreversible oxidation by O,; model systems; role of distal and proximal histidine; function of globin protein; nature of Hb-O, binding: Poisioning towards Hb and Mb. 5.6 The Role ot Hemoglobin in Acid-B: Balance and Carbon Dioxide 5.7 Hemarythrin (Hr) — An Oxygen Uptake Motalloprotein, 5.8 Hemocyanin (Hc) — An Oxygen Uptake Metalloprotein. 5.9 Synthetic Oxygen Carriers : Coliman's compound; Vaska's complex; cobalt(ll)-schiff base complexes; pertluorochemicals (PFCs), 5.10 Hazards with Dioxygen in Biological System. Exercise Chapter 6: Metal-containing Enzymes in Hydrolysis, Decarboxylation and Group Transfer Reactions : Lewis Acidity of the Metal lons 155-175 61 Peptide Hydrolysis and Peptidases, 62 Carboxypeptidase A (CPA) — Structure and Reactivity. 6.3 Thermolysin — Structure and Reactivity. 64 Leucine Aminopeptidase — Structure and Reactivity. 65 Model Complexes of Peptidase Reactivity. 6.6 Adenosine Deaminase (ADA) and Cytidine Deaminase (CDA) — Structure and Reactivity. 6.7 Arginase — Structure and Reactivity. 6.8 —_ Urease — Structure and Reactivity. 6.9 Alkaline Phosphatase — Structure and Reactivity. 6.10 Purple Acid Phosphatase (PAP) — Structure and Reactivity. 6.11 Insulin Structure and Reactivity. 6.12 Hexokinase in Phosphorylation of Glucose and Enzymatic Reactivity of Some other Representative Kinase Enzymos. am 6.13 Carbonic Anhydrase (CA) — Structure and Reactivity, 6.14 DNA Polymerase — Structure and Reactivity. 818 — Carboxylaso and Docarboxylaso — Structure and Reactivity, Exercise Chapter 7 + Metal lons in Electron Transport Proteins and Redox Enzymes 176-235 7-1 Franck-Condon Principle and Designing of Electron Transport Agente in Biological System, 7.2 Won-Sulur Proteins : gonoral features; rubredoxin (Ad); ferredoxins (Fd) ~ 2F@-28, Rieske contros, 4F0-48, high potential iron proteins (HIP), 9Fe-48, 8Fe-8S; Fe-S model compounds; nonredox Fe-S Protein, 7.9 Blue Copper Proteins : electron transport proteins and oxidase Proteins — laccase, ceruloplasmin and ascorbic acid oxidase (AA), 74 Nonblue Copper Oxidase Proteins : galactose oxidase (GO) and ‘amine oxidase. 78 Cytochromes : structural features and classification; cytochrom: 7.8 Cytochrome c oxidase ~ Structure and Reactivity 7.7 Cytochrome P-450 ~ Structure and Reactivity, 7-8 Superoxide Dismutase (SOD) — Structure and Roactvity 79 Catalase and Peroxidase — Structure and Reactivity. 7.10 Comparison of the Mechanisms of Action of Catalase, Peroxidase and Cytochrome P-450. 7-41 Oxygenases and Hydroxylases ; dioxygenases and mono- oxygenase; catochol-1,2-dioxygenase (CTD) and protocatechuate. ‘-cesvomnpes (PCD); tyrosinase; methane monooxygenase (MMO). 7.12 Alcohol Dehydrogent + Liver Alcohol Dehydrogenase (LADH) 7-13, Molybdenum Containing Redox Enzymes : structural features and mechaniam of oxo-transfer activity; xanthine oxidase, suite end Oxidase; nitrate raductase; formate dehydrogenase (FDH); aldehyde oxid 7.14 Tungsten Containing Redox Enzymes — Some Representative Examples; Chemistry of Tungstoenzymes vs. Molybdoenzymes. 7.15 Some Important Organic Redox Couples. Exercise (iv) Enzyme Catalysed Hydrogen Production 236-275 8.1 Oxidative Phosphorylation and Respiratory Chain: eloctron carrors in toepiratory chain; respiratory chain and synthesis of ATP; Cnergetics of the process and detection of ATP gonarating sites: blocking of respiratory chain, 5.2 Nitrogen Fixation : thermodynamic and kinotic aspects; dintrogen Complexes and activation of dinitrogen, $3 Nitrogenase (Ny-a80) in Biologioal Niirogon (N,) Fixation : occurrence; composition of the enzyme; structural aspects; model dliforent types of substrates active towards nitrogenase; function Gifforent units in the activity of N,-a8e; possible reaction pathway of reduction of Np. Ablological Nitrogen Fixation through Complexation. Photosynthesis and Chlorophyll : reaction; light phase and dark Phase reactions; chlorophyll - structural fontures; role of Mg(ll); electron transport chain (Z-scheme); oxygen evolving complex (CEC); antenna chlorophyll and reaction centro. 86 Hydrogenase : biological significance; molecular propertios of dihydrogen; composition of hydrogonase enzyme; hydrogenase Calatysed H,-prodluction — a source of anergy. 87 Carbon Monoxide Dehydrogenase (CODH) and Acetyl CoA Synthase (ACS). Exercise Chapter 9 = Phosphate Group Transfer and Metabolic Energy 276-304 ot Phosphate Transter : A Source of Metabolic Energy — ‘thermodyamic and kinetic aspects. 9.2 Phosphatases : General Mechanistic Aspects of Phosphate Group Transfer and Hydrolysis — studies on model complaxes, 9.3 Mechanism of Hydrolysis of ATP and Phosphate Group Tran from ATP : ATP-ase and Kinase Enzymes. 9.4 — Role of Phosphate in Glucose Metabolism : Glycolysis; tate of Pyruvate; citric acid cycle; glycogen synthe: Exercise Sbapter 10 : Vitamin B,,, Vitamin B, and Coenzymes 305-323 10.1, Vitamin By, and Coonzymes : structural feature; names of differant forms; chemistry of cobalamin; biochemical functions of cobalamins; models of vitamin B,,; special characteriatics of B,, coenzyme ) 10.2 Metnaneagenic Bacteria Factor (F-430 M), 103 Vitamin B, and Coanzymes : in the activity of transamination, cxidative deamination, decarboxylation and racomisation ot aming Acids; amino oxidase; lysyl oxidase, Exercise Chapter 11: Biochemistry of Nonmetals 324.33, 11.1 Biochemistry of nonmetals. 11.2 Nonmatals in Structural Uses : Examples of Biominoralisation, 11-3 Biological Rolo of Some Traco Nonmetals - boron; silicon: sultur: ‘selenium: arsenic ; fluorine; chlorine; bromina: iodine. 11.4 Biological Importance of Nitric Oxide (NO) Exercise Chapter 12 ; Metals and Chelation in Medicine 337-409 ‘12.1 Dependence of Biological Growth on the Concentration af Essential and Toxic Matas. 122 Disease duo to Moial Deficiency and its Treatment : Fe-, Zn-, Cu, Mo- deticiancy and treatment, 129° Motal ton Toxicity : sources of toxicity; goneral aspacis of mechanism of toxicity: importance of biomathytation in metal lon toxicology: chemical speciation of some metais in environments, 124 Toxic Elects of Matals : Fe-toxieity; Custoxicity and Wilson's disease; As-toxicity, Hg-toxicity; Pbstoxlelty; Cd-toxicity; Al-toxicity: Ca-tonscity: toxicity of other motals: radionuclide toxicity: metnis no carcinogens. 12.5 Natural Detoxiliation of Metal lon induced Toxicity and Cleanup of Toxic Metals by Plants, 12.6 Requirad Thermodynamic and Pharmacokinetic Properties of Chelating Drugs in Metal lon Detoxification. 12.7 Soma Representative Chelating Drugs used in Metal ion Detoxification : —SH group containing drugs: polyaming- ‘carboxylates; dosterrioxaminss; aurinetricarboxylic acid otc, 12.8 Limitations of Chelation Therapy in Matal lon Detoxification, 12.98 Radioprotective Chelating Drugs and Therapautic Activities of Some Special Chelating Agents by Inhibiting the Metalloanzymes, 12.10 Matal-Metal Detoxification : Antagonism and Synergism among the Essential Trace Elements. Anitimicrobial Activities of Metal Chelates and Cheiating Ligands ; ionophore antibiotics; tatracyclines; oxines; bleomycin; ‘As-, Sb- and Hg-compounds, ete, (vi) wi ary wa 1248 12.16 207 128 1209 Metal Chelation and the Activity of the Multipurpose Drug, Aspen, Mercunais as Ovuretics Antartrtic Gold Drugs and Chrysotherapy. Ant-ieftammatory Effects of Zinc and Copper Compounds. re Sak in the Treatment of Sickle Cell Anemia. Lamm Therapy in Psychiatric Mind Disorder. 12.20 Anticancer Activity of Some Other Metal Complexes. 22 Radioisotopes in Medicines. 12.22 Bamuth Compounds in Medicines. 1223 Vanadium a Insulin Mimetic Agents in the Treatment of Diabetes. 1224 Mirscs of Superoxide Dismutase (SOD) Enzymes as Therapeutic Agents in the Treatment of Oxidative Stress. induced Diseases ~ Synzymes. 12.28 Chelation and Role of Metal Complexes in Conventional Orug Resistant Malaria 1228 Metais and Chelation in Medicine — Summary Exercise Bibography/References (consulted) & Acknowledgement (wi) 12 O-Cry Bioelements, Biomolecules and Background Materials 1,1 ESSENTIAL AND TRACE ELEMENTS AND BIOINORGANIC CHEMISTRY The presence of about 40 different elements has been established in living bodies. The eleven most abundant elements in biological systems are H, O, C, N, Na, K, Ca, Mg, P, S, and Cl Among these, the first four elements, |.e. H, O, C and N, constitute about 99% of the total ‘atoms of a living body. These elements are involved to produce the biomolecules like water, carbohydrate, protein and fat The next eight most abundant elements are Mo, Mn, Fe, Co, Cu, Zn, F and |, These eight elements are present at trace quantities. These elements are called ‘essential trace elements but the term trace Is not well defined, For example, Fe is present in few g Iwhile Mo is present in few mg in an adult healthy body, but both are called trace elements. In fact, in his group, except for F (ca. 2.6 g per 70 kg body weight in human being) Fe and Zn, all other lessential trace elements are present in mg scale in a living body. The next eight important ‘elements are Li, Si, V, Cr, Se, Br, Sn and W. These elements are required at ultratrace concentrations (|.¢. at the level of parts per ten thousand million). The biometals are classified as essential metals and beneficial metals. In the absence of tial metals, the living system cannot survive and it eventually dies. On the other hand, in the ince of beneficial metals, the life process gets hampered but it cannot lead to death Essential metals : Na, K, Mg, Ca, Mn, Fe, Co, Cu, Zn, Mo. Beneficial metals : Li, V, Cr, Ni, Sn, W. ‘The approximate metal contents in a healthy human body (ca. 70 kg body weight) are as follows Na (100 g), K (200 g), Mg (35 g), Ca (1500 g), V (15 mg), Cr (2 mg), Mn (15 mg), Fe (5-7 g), Co {1.5 mg), Ni(S mq), Cu (200-300 mg), Zn (2-3 g), Mo (10 mg), The amount indicated does not measure the importance of the metal. The decreasing abundance of the transition metals in living organisms is : Fe, 2n, Cu, Mo, Cr, V and Ni. The total metal content shown here accounts for only ca, 2% of the total body weight. Excluding the metals Na, K, Mg and Ga, other metals ‘collectively weigh just a few grams (ca. 10 g) in a healthy body of ca. 70 kg. But these metals are extremely essential for the survival of life process : At biological pH, all these biometals (except for Na, K, and Ca to ‘CONNOL exist as free fons, They should form insoluble hydroxides and phosphates. By bioligands. these biometals form soluble complexes 00m ta, oro thr mn tr Ch ‘Sone "AL en som saan rate ad Fe ar ens te wee Sdots enum sh se sums of Oy me sno and he emergence ‘Seen, TieFeS00 sa Mo SOD ae se ty ese etl on, le (Sec Dna Ore sts CoZn S00 ey ae ant oes nota Sertpal cotore."Thn Cr2r 500 wa mth eer sept ee of Op 1.3 TE CHLL AND DISTRRUTION OF THE HEMENTS 1 THE CLL sey staunch cl nd oa ae iW ‘trea ramose nes more hour use! heer we ‘ela arto of posh i ser gon prone 9 mane Sten renee hae ey hs by 8 ees Fld Morley ‘Sines. Tey maa ges apo Ucar to seca ‘sr ag cnaraten el tre nares Se. 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METAL-PROTEIN INTERACTION : METALLOPROTEINS ‘AND METAL PROTEIN COMPLEXES mere cn of en ve tre om alton nh Tha, pentane es an 4 31) ocarna nay pro ey pro he Peereeti eat extol (C0. ane (NP), ro (OF, lS, Bez gta te Thee hnctoel ip canparpate competion with te met ‘Bed onthe sent fran tern, he me cen ae on Ds ne Sa elec cng mtalloeny wd metloctoted Prot ere combece Inaiy meactted errs) Ba tere 670 sharp Fert re regex nos of he eum onset the metal ro iteracon ty are auricles + apoprcten =" talon en 1 vey ie, the teraction leno mtllopsen and K reat sa leno metalctated pon DMalloprotctns Here the rt oe 50 Bln ith te poten ta te et can ened eran ner part ofthe protein srctre tc css, he tion ca pest creme chem arch. The tans ery mach pectic ch ‘The acaty ofthe mop tf be cncrd etl remove Metabacthated Precis: ich cos, tert en reves combined wt he ‘ed hepealinncan hema ine dsr of te met, he poten ec | Gite oqin echucl yt wean che mol on. 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