- •Federal Agency of Education tambov state university named after g.R. Derzhavin
- •Biochemistry (part I)
- •Tambov 2012
- •I. Theoretical part The subject Of biological chemistry
- •1. Chemistry of proteins
- •1.1. Methods of exctraction and purification of proteins
- •1.2. Functions of proteins
- •1.3. Amino-acid composition of proteins
- •1.4. The structural organization of proteins
- •1.5. Physical and chemical properties of proteins
- •1.6. Classification of proteins
- •1.6.1. Simple proteins
- •1. Albumins and globulins.
- •2. Protamines and histones.
- •3. Prolamins and glutelins.
- •1.6.2. Conjugative proteins
- •1. Proteins containing non-heme iron.
- •Nucleic acids
- •The structure of nucleic acids
- •Test Questions
- •2. Enzymes
- •2.1. The chemical nature of enzymes
- •2.2. The mechanism of enzymes action
- •2.3. Kinetics of enzymatic reactions
- •2.4. Enzyme properties
- •2.5. Regulation of enzyme activity
- •1. Control of the enzyme amount.
- •2. Control of enzyme activity.
- •2.1. The influence of activators and inhibitors on the enzymes.
- •2.3. Chemical modification of the enzyme.
- •2.4. Allosteric regulation.
- •2.6. Classification and nomenclature of enzymes
- •2.7. Enzymes in medicine
- •Test Questions
- •3. Vitamins
- •3.1. Fat soluble vitamins
- •3.2. Water soluble vitamins
- •Vitamin-like substances
- •Test Questions
- •4. Basic principles of biomembranes’ organisation
- •4.1. Structure and functions of membranes
- •1. Phospholipids (90%) - glycerophospholipids and sphingophospholipids:
- •4.2. Transport of substances across membranes
- •2. Facilitated diffusion
- •Test Questions
- •5. Transmembrane transduction of the hormonal signal
- •Test Questions
- •6. Introduction to metabolism
- •6.1. Stages of catabolism
- •III. A common catabolic pathway.
- •6.2. Bioenergetics
- •6.3. Organization and operation of the respiratory chain
- •6.4. Uncoupling of oxidation from phosphorylation
- •6.5. Generation of free radicals in cells
- •6.6. Reactions of the common catabolic pathway
- •6.6.1. Oxidative decarboxylation of pyruvate
- •6.6.2. Citric acid cycle
- •7. Carbohydrate metabolism
- •7.1. Digestion of carbohydrates
- •7.2. Glycogen metabolism
- •7.3. Glycolysis
- •7.4. The inclusion of fructose and galactose
- •In glycolysis
- •7.5. The shuttle mechanisms
- •7.6. Cori cycle
- •7.7. Alcoholic fermentation
- •C6h12o6 → 2 ch3chohcooh
- •7.8. Pentose phosphate pathway (hexose monophosphate shunt)
- •7.9. Gluconeogenesis
- •Synthesis of glucose from the pyruvic acid.
- •Fructose bisphosphatase
- •Glucose-6-phosphatase
- •7.10. Regulation of carbohydrate metabolism
- •Glucose → glucose-6-phosphate.
- •Pyruvate → oxaloacetate → phosphoenolpyruvate
- •7.11. Violations of carbohydrate metabolism
- •Violation of hydrolysis and absorption of carbohydrates
- •Violations of the intermediate metabolism of carbohydrates
- •Quiz Questions
- •II. Laboratory practice Laboratory work 1. The analysis of amino acids and proteins
- •1. Qualitative analysis of amino acid mixtures by thing layer chromatography method.
- •2. Colour reaction of proteins.
- •2.1. Millon’s reaction.
- •2.2. Ninhydrin’s reaction.
- •3. Reactions of precipitation of proteins.
- •3.1. Precipitation of proteins with salts of heavy metals.
- •3.3. Precipitation of proteins with the help of concentrated mineral acids.
- •3.4. Precipitation of proteins by organic acids.
- •Test questions
- •Laboratory work 2. Conjugated proteins: glycoproteins and phosphoproteins
- •1. Phosphoproteins.
- •1.1. Proof of protein component’s present in the casein hydrolyzate.
- •1.2. Proof of phosphoric acid’s presence in the casein hydrolyzate.
- •1.3. Determination of the isoelectric point of casein.
- •2.4. Proof of carbohydrate’s presence in the egg albumin.
- •Test questions
- •Laboratory work 3. Conjugated proteins: nucleoproteins and chromoproteins
- •1. Nucleoproteins
- •1.1. Isolation of deoxyribonucleoproteins from the spleen.
- •1.2. Reaction with diphenylamine.
- •2. Chromoproteins.
- •2.1. Benzidine test for hemin group of hemoglobin.
- •Test questions
- •Laboratory work 4. Enzymes
- •1. Detection of peroxidase in potatoes.
- •2. Detection of pepsin in the gastric juice.
- •3. Hydrolysis of starch by α-amylase.
- •4. Specificity of amylase and sucrase enzymes action.
- •Test questions
- •Laboratory work 5. Identifying the activity of enzymes
- •1. The influence of activators and inhibitors upon activity of enzymes.
- •1. The influence of activators and inhibitors upon α-amylase.
- •1.2. Inhibitory effect of chloride ions on dehydrogenase complex of potatoes.
- •2. Identifying the activity of α-amylase according to Wolgemut.
- •Test questions
- •Inhibitor calimine
- •Laboratory work 6. Vitamins
- •Vitamin a (vitamin a, retinol)
- •Vitamin d (calciferol)
- •3.1. Reaction with concentrated nitric acid.
- •3.2. Reaction with ferric chloride (III).
- •9.2. Reaction with methylene-blue.
- •Test questions
- •Laboratory work 7. Oxidoreductases. Common catabolic pathway
- •1. Comparison of redox-potentials of riboflavin and methylene blue.
- •2. Identifying of catalase activity according to a.N. Bach and а.I. Oparin.
- •Test questions
- •Laboratory work 8. Carbohydrate metabolism
- •2.1. Trommer’s test with copper hydroxide.
- •2.2. Discovery of fructosuria by Selivanov’s test.
- •2.3. Enzymatic method of semi-quantitative identification of glucose in urine with the help of "GlucoPhan" test strip.
- •Test questions
- •References
Test Questions
1. List the basic cell membrane structures.
2. What is the qualitative and quantitative composition of membranes?
3. What lipids are parts of biological membranes? What are their properties and functions?
4. What is the difference between peripheral and integral proteins of biological membranes?
5. What factors can cause changes in the structure and permeability of the membrane?
6. List types of substances transport through the membrane. Which of them require an expenditure of energy?
7. What is the role of ATP-ase in the functioning of biological membranes?
5. Transmembrane transduction of the hormonal signal
Hormones are substances of organic nature, which are produced in the specialized cells of the endocrine glands, enter into the bloodstream and have a regulating effect on the metabolism and physiological functions. The specific characteristics of the biological action of hormones: hormones exert their biological effects in very small concentrations (from 10-6 to 10-12 M); the hormonal effect is realized through protein receptors and intracellular second messengers; hormones increase the rate of enzyme synthesis de novo or change the velosity of enzymatic catalysis; the hormones effect in the whole organism is determined to some extent by controlling influence of the CNS.
Modern classification of hormones is based on their chemical nature.
1. Peptide and protein hormones include from 3 to 250 or more amino acid residues, for example, hormone of the hypothalamus and pituitary gland (growth hormone, corticotropin and others), and pancreatic hormones (insulin, glucagon).
2. Amino acid derivatives. These are adrenaline and thyroid hormones.
Hormones of these two groups are highly soluble in water.
3. Steroid hormones. All of them are formed from cholesterol. These are corticosteroids, sex hormones (estrogens and androgens), hormonal form of vitamin D. Steroid hormones are lipophilic substances, easily penetrating the cell membrane.
4. Eicosanoids are hormone-like substances that have a local effect. They are derived from polyunsaturated fatty acid – arachidonic acid.
Cell membranes due to the presence of specific receptors receive signals from the environment (for example, molecules of hormones, called primary messengers or intermediaries). The first stage of the hormone action on the target cell is its binding to the receptor, and then the signal is transmitted into the cell. By its chemical nature, almost all the receptors of biologically active substances are glycoproteins. A common property of all receptors is their high specificity towards one specific hormone.
Adenylatecyclase messenger system is the most studied system(Fig. 17). It involves: 1) hormone receptor, and 2) the enzyme adenylyl cyclase, and 3) G- protein, and 4) cAMP -dependent protein kinase 5) phosphodiesterase.
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Fig. 17. Adenylatecyclase messenger system.
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The molecules of the protein hormones (insulin), hydrophilic molecules (adrenaline) cannot pass through the cell membrane. Their receptors are located on the membrane. Binding of hormone (the primary messenger) to the receptor leads to structural changes in the receptor intracellular domain. It provides interaction of the receptor with GTP-binding protein (G-protein). G-protein is a mixture of two types of proteins: active Gs (from the Eng. stimulatory) and inhibitory Gi. They have three different subunits (α, β and γ). The function of G-protein is carrying out a hormonal signal at the plasma membrane. Hormone-receptor complex transforms Gs-protein in the activated state. It is activated by dissotiation of G-protein subunits. The active G-protein activates adenylate cyclase. Adenylate cyclase is almost inactive in the absence of G-protein.
Adenylate cyclase is an integral plasma membrane protein and its active site is oriented toward the cytoplasm. Adenylate cyclase catalyzes the reaction of synthesis of cAMP from ATP. cAMP is a second messenger.
Under the action of cAMP inactive protein kinase turnes into active form. This enzyme catalyzes the phosphorylation of intracellular enzymes or target proteins, changing their activity. This reaction goes with the participation of serine, threonine, tyrosine OH-groups. Phosphorylation and dephosphorylation of proteins with the participation of protein kinases is a common fundamental mechanism of secondary messengers within the cell.
Phosphodiesterase causes the breakdown of cAMP and thereby terminates the hormonal signal.
Steroid and thyroid hormones are lipophilic and can easily pass through cell membranes. The receptors of these substances are in the cytosol or nucleus of the cell (intracellular receptors).
Complex of hormone with a receptor is formed in the cytosol, and then enters the nucleus. Hormone-receptor complex passes into the nucleus and interacts with a regulatory nucleotide sequence in DNA. Accordingly, the rate of transcription of structural genes and the rate of translation are changed. Consequently, the amount of proteins, which may affect the metabolism and functional state of the cell, is also changed (Fig. 18).
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Fig. 18. Hormonal signals transduction through intracellular receptors.
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Complex "hormone - receptor" may be formed directly in the nucleus. Thyroid hormone receptors are always associated with DNA.
Hormones provide a communication (information exchange) between different cells and organs. As a result of these mechanisms, coordination of metabolism and functions of different cells and organs and adequate reaction to changes in the environment are achieved.
The role of extracellular signals not only hormones can performe, but also a number of other substances - cytokines, biogenic amines, neurotransmitters, etc.
