- •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
9.2. Reaction with methylene-blue.
Pour 2 drops of 10% methylene-blue solution, 2 drops of 10% sodium hydrocarbonate solution, 10 drops of vitamin C solution into a test tube and heat. The liquid becomes transparent.
Test questions
1. What substanses belong to vitamins? What is their general function in an organism?
2. List the biochemical functions of the vitamins which were identified in the laboratory work.
3. Define the terms: avitaminosis, hypovitaminosis and hypervitaminosis.
Laboratory work 7. Oxidoreductases. Common catabolic pathway
1. Comparison of redox-potentials of riboflavin and methylene blue.
The redox-potentials are the measure of molecules’ ability to exchange electrons. The substance with high redox-potential oxidizes the substance with less redox-potential. For methylene blue (±2 е) Е'о is +0,011 V, for NAD+ (±2 е) - 0,320 V, for riboflavin (±2 е) - 0,208 V, for cytochrome с (±е) + 0,260 V. Comparing standard redox-potentials of these systems, one can make a conclusion, that methylene blue can be used for identifying the redused forms of nicotinamide and flavine oxidoreductases.
Pour 5 - 6 drops of water, 1 drop of riboflavin solution into a test tube. Add drops of methylene blue till the mixture turns green-blue. Throw a piece of zinc into the colored mixture and add a drop of concentrated hydrochloric acid.
Hydrogen is released and methylene blue and riboflavin are reduced. The first of them is reduced faster, that is why the color of the mixture first turns green, then – green-yellow and finally – pale-yellow or pinkish. Pour the liquid into another test tube and observe the color changes. The reduced form of riboflavin transmits electrons and ions of hydrogen through methylene blue to aerial oxygen, and the solution turns yellow. After this leucomethylene blue oxidizes and the contents of the test tube changes color through green into blue.
2. Identifying of catalase activity according to a.N. Bach and а.I. Oparin.
Take water extract of carrots which contains the enzyme catalase for identifying. Pipette 25 ml of 0,1 n hydrogen peroxide solution into a conical flask. Then pipette 20 ml of enzyme extract there. In 30 minutes stop the action of the enzyme by adding 5 ml of 10% sulphuric acid solution and titrate the mixture by 0,1 n. potassium permanganate solution (till you see the fixed pink coloring during approximately 1 minute).
Simultaneously put control with inactivated warming in the boiled water bath for 5 minutes enzyme solution (20 ml.). After cooling add 25 ml of 0,1 n hydrogen peroxide solution to this solution. Leave the mixture for 30 minutes and then add 5 ml of 10% sulphuric acid solution and titrate by 0,1 n potassium permanganate solution. By difference between the test and control titrating identify the quantity of permanganate, equivalent to the quantity of the hydrogen peroxide decomposed by the enzyme.
The quantity of hydrogen peroxide, decomposed by the enzyme is counted according to the reaction equation:
5Н2О2 + 2КМnО4 + 3H3SO4 2MnSO4 + K2SO4 + 5О2 + 8Н2О,
according to which 1 ml of 0,1 n potassium permanganate solution corresponds to 1,7 mg of hydrogen peroxide.
An
example of calculation: 100 ml of catalase extract is prepared from
1,25 g of carrots. 15,5 ml are used for experiment test titrating,
30,2 ml of 0,1 n
potassium
permanganate solution are used for control test titrating. The amount
of the decomposed
hydrogen
peroxide in the test is equivalent (30,2 - 15,5) 14,7 ml. 0,1 n
potassium permanganate solution and therefore, is equal (14,7 - 1,7)
24,99 mg 1 g of raw carrots contains the amount of catalase, able to
decompose
99,96 mg
of hydrogen peroxide for 30 minutes, and (99,96:30)
3,33 mg – for a minute. As 1 mcmole of hydrogen
peroxide is 0,034
mg, 1 g of carrots contains (3,33:0,034)100 U of catalase.
Experiment 2. Quantitative determination of pyruvic acid in urine.
Pyruvic acid is one of the intermediate products of carbohydrate metabolism. Under anaerobic conditions (hypoxia) it is reduced into lactic acid, and under aerobic ones it undergoes oxidative decarboxylation and is converted into acetyl-coenzyme A. Pyruvic acid is one of the main sources for gluconeogenesis. As a result of high rate of the conversion pyruvic acid is present in tissues and biologic liquids in little amounts. In blood its amount is 0,5-1 mg/100 ml. The amount of pyruvate in urine is normally 2 mg/100 ml, its daily excretion with urine is - 10-25 mg.
The most rapid increase of pyruvate concentration in blood and as a consequence in urine is noticed during muscular work and В1 vitamin deficiency. This phenomenon is also noticed during hepatic disorders, diabetes, cardiac decompensation, toxicosis, etc.
The method principle: pyruvate and 2,4-dinitrophenylhydrazine form a colored compound 2,4-dinitrophenylhydrazone of pyruvate. It is extracted from the reaction mixture by toluene. When alkali alcohol solution is added, it gradually turns red-orange; the optical density of the solution is directly proportional to the quantity of pyruvic acid.
pyruvic acid 2,4-dinitrophenylhydrazine dinitrophenylhydrazone of pyruvic acid
Course of work: Pour 0,5 ml of 0,1% 2,4- dinitrophenylhydrazine up to 0,5 ml of urine, mix and add 2,5 ml of water-saturated toluene after 5 minutes. After shaking for 1 minute leave the solution for water and toluene demixing. Take a 1 ml test from the upper toluene layer with a dry graduated pipette and place it into a dry test tube, add 3 ml of potassium hydroxide alcohol solution. Process the test with 1 ml of standard solution of pyruvate in the same way as the experiment test. In the chemical reagents control the urine is substituted by 1 ml of water. After 10 minutes photometer the tests against the chemical reagents control with the wave length of 400-415 nm using photoelectric colorimeter.
The calculation is made according to the formula: Х=(De*50mg)/Ds, where: De – is optical density of the experimental solution, Ds – is optical density of the standard solution, 50 mg – is the concentration of pyruvic acid standard, Х – is the concentration of pyruvate in urine.
