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Nalluri Mallikarjuna Rao
Vishnu Dental College
30 PUBLICATIONS 61 CITATIONS
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BIOCHEMISTRY -
BIOCHEMISTRY -
BIOCHEMISTRY -
BIOCHEMISTRY -
Published by
HEAD OFFICE:
No. 225/B, 9th A Main, Vijayanagara, Bangalore - 560 040.
Phone : 080 23407999 Mobile : 9980396967, Fax : 080 23302032
Email: seekaypublications@gmail.com / seekaybooks@gmail.com
Website: www.seekaybooks.com
ISBN : 978-81-924169-3-9
BIOCHEMISTRY -
Preface
This book is written to help student in their preparation for
examinations. It meets needs of first year M.B.B.S., B.D.S.,
B.Sc.(N), B.P.T., M.Sc (Medical) and second year B.Pharm
students. Topics prescribed by Various Health Science,
Universities in India Vijayawada are included in the book. In
this book questions and answers are given for 21 topics.
Complex pathways are presented in a easy to remember way.
This book is written in such way that learning of questions and
answers given in each chapter makes student to acquire concept
or theme of that topic simultaneously. The book contains 495
questions. Of this answers are provided to 249 questions
remaining are model questions. Answers to 54 essay questions,
110 short questions and 85 very short or brief questions are
given in this book. Answers are given in simple language with
necessary diagrams or illustrations. Model questions given
enhances students ability to answer questions with alteration.
I am grateful to Sri K. Prasanna Kumar of Seekay Publications
for publishing the book.
BHIMAVARAM
BIOCHEMISTRY -
BIOCHEMISTRY -
Contents
1. Cell, Membrane and Transport
001
2. Carbohydrates
007
013
4. Lipids
029
5. Enzymes
039
058
7. Biological oxidation
068
8. Carbohydrate Metabolism
076
9. Lipid Metabolism
102
120
141
150
159
14. Vitamins
173
15. Minerals
189
199
205
18. Hormones
211
219
20. Xenobiotics
225
21. Cancer
229
BIOCHEMISTRY -
Chapter
Inner
Nuclear Membrane
Nuclear Pore
Mitochondria:
1. Like nucleus it is also surrounded by double layered membrane.
2. The inner membrane forms folds which are named as cristae.
3. Knob like structures are present in cristae.
4. Matrix is the name given to space within inner membrane.
001
BIOCHEMISTRY -
Chistae
Knob
Inner Membrane
Matrix
Endoplasmic reticulum: This membranous net work is divided into smooth endoplasmic
reticulum and rough endoplasmic reticulum.
Smooth endoplasmic reticulum: It is also
known as microsomal fraction of cell. It appears
smooth due to the absence of ribosomes. It is
site of hydroxylation reactions of drugs and
steroids etc.
Nucleus
Smooth
Endoplasmic
Reticulum
Nucleus
Ribosome
002
Golgi
Complex
Lysosomes: They are vesicle like membrane surrounded structure present in cytoplasm. They are
involved in hydrolysis of internalized foreign molecules as well as endogenous substances. Since
lysosomes are involved in the removal of endogenous substances they are called as suicide bags of
cell.
Peroxisomes: Are membranous vesicles found in cytosol. They are involved in hydrogen peroxide
metabolism.
Cytosol: Soluble portion of the cell is called as cytosol. It contains enzymes of glycolysis, HMP
shunt, aminoacid and fatty acid activation, fattyacid synthesis, and few enzymes of porphyrins
and urea synthesis.
PROTEIN
Protein
Lipid
Membrane
Bilayer
Cytosol
membrane bilayer.
3. The proportion of phospholipid and
glycolipid in membrane is different in
membranes.
003
BIOCHEMISTRY -
Membrane proteins:
1. There are two types of membrane proteins.
2. They are peripheral membrane proteins and integral membrane proteins.
3. The protein content is different in membranes.
4. The peripheral membrane proteins are present on membrane surface.
5. The integral membrane proteins occupy membrane bilayer.
Fluid mosaic model:
1. It is model proposed for membrane structure.
2. Membrane is of fluid in nature.
3. Lipids forms bilayer.
4. The membrane proteins float in the lipid bilayer.
5. Membrane proteins interact extensively with lipids present in bilayer.
6. Surface of the membrane appears as that of mosaic surface.
Mosaic Surface
Lipid Bilayer
Proteins
Protein
Fluid Mosaic Model
004
The solute molecule binds to carrier molecule at its binding site. This is followed by
conformational change in the carrier molecule which exposes solute to low concentration.
Solute molecule is released and carrier molecule comes back to native state.
Membrane
Conformational
Solute
Outside
inside
Change
Carrier
Examples:
Binding Site
2. Active transport: It transport solute molecules against concentration gradient i. e. from low
concentration to high concentration. It is accompanied by hydrolysis of ATP.
Examples:
1. Na+/K+ ATPase
2. Ca2+-ATPase of muscle.
3. H+/K+-ATPase of stomach.
3. Secondary active transport: In this type of transport energy required for movement of
solute molecule is derived from movement of another solute molecule down concentration
gradient. Hence it is called as cotransport. Carrier is symporter.
Examples:
005
BIOCHEMISTRY -
Facilitated transport
Active transport
concentration gradient.
2. Requires no energy.
2. Requires energy.
3. Carrier is saturated
3. No carrier saturation.
4. Influenced by hormones
006
CHAPTER - 2 | Carbohydrates
Chapter
Carbohydrates
1. Classify carbohydrates. Give examples for each class. Add note on the
function of each example.
A. Carbohydrates classification: Carbohydrates are classified into
a. Monosaccharides.
b. Oligo saccharides,
c. Polysaccharides based on their carbon chain length.
Monosaccharides:
1. Monosaccharides are carbohydrates which
HC
H C OH
CH2OH
C
Glyceraldehyde
CH2OH
Dihydroxy Acetone
CHO
H C OH
HO C H
CH2OH
CO
HO C H
intermediate.
7. Aldohexoses are glucose, galactose and mannose.
Fructose and sedoheptulose are ketohexose and
ketoheptose respectively.
H C OH
H C OH
H C OH
H C OH
CH2OH
CH2OH
Glucose
Fructose
007
BIOCHEMISTRY -
Monosaccharide
Monosaccharide
Glycosidic Bond
Disaccharide
Monosaccharide
Monosaccharide
Monosaccharide
Tri Saccharide
Glycosidic Bond
Disaccharides:
1. Disaccharide consist of two monosaccharide units.
2. Glycosidic bond joins individual monosaccharides. Maltose, lactose and sucrose are examples.
Name
Composition
Linkage
Source
Lactose
Glucose+ Glucose
(14)
Malt, barley
Maltose
Glucose+Galactose
(1 4)
Milk
Sucrose
Glucose+Fructose
, (1 2)
Homopolysaccharides:
1. They are made up of only one type of monosaccharide.
2. So building block of homopolysaccharide is only one type.
3. They are glycogen, starch, cellulose, inulin, dextrin etc.
Starch:
1. It consist of two components. A major amylose and minor amylopectin components.
008
CHAPTER - 2 | Carbohydrates
2. Amylose is a linear polymer of glucose in which monomeric glucose units are joined by (1, 4)
linkages. It has helical secondary structure.
3. Amylopectin has branched structure.
4. In the linear part glucose units are joined by (1, 4) linkage. At the branch point glucose units
are held by (16) linkage.
5. For every 20-30 glucose units a branch point is present in amylopectin.
6. The secondary structure of amylopectin is random coil due to branches.
7. Starch is common polysaccharide in our diet. It is a storage polysaccharide present in our food
stuffs like rice, wheat, pulses, tubers, grains etc.
AMYLOPECTIN
Glu
Glu
Glu
Glu
Glu
Glu
Glu
a (1 Z 4)
Glycosidic Bond
Glu
Glu
Glu
Glu
Glu
Glu
Glu
Glu
Glu
Glu
a (1 Z 6) Glu
Glycosidic Bond
Glu
a (1 Z 4)
Glycosidic Bond
Glu
Glu-Glucose
Glycogen:
1. The structure of glycogen is like that of amylopectin part of starch.
2. Glucose units are held by (14) likages in straight chain part and at branch point (16)
glycosidic bond is present between glucose units.
3. Though the glycogen structure is similar to amylopectin the number of branch points are
more.
4. Branching occurs for every 6 glucose units.
a (1Z6) linkage
a (1Z4) linkage
Glycogen
009
BIOCHEMISTRY -
Composition
Functions
1. Hyaluronicacid
- ( -glucuronicacid-
N-acetylglucosamine-)n
and in eye.
3. Heparin
Structural component of
Glucuronicacid sulfate-)n
Anti coagulant
( Iduronicacid- N-acetyl
Galactosamine sulfate)n
5. Keratan sulfate
( galactose-N-acetyl
Galactosamine sulfate-)n
CHAPTER - 2 | Carbohydrates
D Glucose
+52. 5
-D- Glucose
+19
Pyranose ring form.
011
BIOCHEMISTRY -
6. The solvent system consist of n-butanol, aceticacid and water in the ratio of 4:1:5.
7. The paper is dipped in the solvent system and solvent is allowed to flow over applied
sample.
8. The water is absorbed by filter paper and serve as stationary phase.
9. The organic solvent that moves over the paper is known as mobile phase.
10. Compounds which are more soluble in organic solvent move faster.
11. The relative mobility of the compounds during chromatography depends on the
partition coefficients of the compounds in two solvent phases.
12. So similar compounds which have different partion coefficients move to different
extents.
13. The ratio of the distance moved by compound to the distance moved by solvent is
known as Rf values.
14. Rf values are different for different solvent systems.
15. Compounds are identified by staining.
Sample Application
Galactose
Glucose
Fructose
Solvent Front
amino acids.
Other model questions are
012
Chapter
Examples
1. Heme proteins
Heme
Hemoglobin
2. Glycoproteins
Carbohydrate
Immunoglobulins
3. Flavoproteins
FMN or FAD
Succinate dehydrogenase
4. Nucleoproteins
Nucleicacid
Chromatin
5. Phosphoproteins
Phosphorus
Casein
6. Lipoporteins
Lipids
7. Metalloproteins
Metals
Cytochromes
c. Derived Proteins: Are those proteins that are derived from partial hydrolysis of
simple or conjugated proteins. Gelatin, Peptone and proteose are examples.
013
BIOCHEMISTRY -
Ala
Gly
Phe
Ala - Alanine
Gly - Glycine
Phe - Phenyl Alanine
Lys - Lysine
014
Tyr
His
Leu
Peptide Bond
Val
Gly
Lys
Leu
COOH
Tyr - Tyrosine
His - Histidine
Val - Valine
Leu - Leucine
CYS - Cysteine
CYS
|
S
|
S
|
CYS
A Chain
B Chain
INSULIN
Secondary structure of protein:
1. Two dimentional folding of polypeptide chain is known as secondary structure of
protein.
2. The folding of protein chain can be ordered or disordered.
3. The ordered secondary structures are -helix and -pleated sheet.
4. The disordered secondary structures are random coil and reverse turn or -turn.
H2N
Alpha ()Helix
It is the secondary structure found in -Keratin of hair, nails and
epidermis of the skin.
COOH
helix.
b. -helix is stabilized by intra chain hydrogen bonding.
c. Peptide bonds are involved in hydrogen bonding.
d. C=O and N-H groups of peptide bond participate in hydrogen bonding.
015
BIOCHEMISTRY -
Polypeptide Chain 1
Polypeptide Chain 2
Beta Pleated Sheet (Parallel)
Structural features of -Pleated Sheet
a. Polypeptide chains are fully extended along long axis in beta pleated sheet.
b. Inter chain hydrogen bonds stabilizes beta pleated sheet.
c. Based on direction -pleated sheet is divided into i. Antiparallel -pleated sheet and ii.
Parallel -pleated sheet.
d. In antiparallel -pleated sheet polypeptide chains run in opposite direction.
e. In parallel -pleated sheet polypeptide chains run in same direction.
f. Pleated sheet is found in many proteins. Albumin and hemoglobin of blood contains pleated sheet.
g. Antiparallel pleated sheet is found in -Keratin of silk fibroin, spider web and amyloid
protein found in the brain of Alzheimer's disease patients.
h. -pleated sheet content varies among proteins.
Tertiary structure of protein:
1. It is formed due to three dimentional folding of polypeptide chain of protein in space.
2. Tertiary structure of protein contains ordered and disordered secondry structures i.
e. -Helix, -pleated sheet, random coil conformation etc.
016
COOH
Sub Unit
NH2
Quaternary Structure
Tertiary
Structure
Amino Acid2
Peptide Bond
Amino Acid3
Amino Acid4
Amino Acidn
Protein (Polypeptide)
Functions of Proteins:
1. Proteins are present in body. They are structural components of tissues, cells etc.
2. Proteins function as hormones
3. Proteins functions as enzymes
4. Proteins regulate gene expression.
5. Proteins are involved in muscle contraction
017
BIOCHEMISTRY -
Heat
Protein
Denatured Protein
2. Denatured proteins exhibit properties which are not shown by native protein.
3. They are
A. Loss of biological function.
B. Solubility changes.
C. Susceptible to enzyme action.
D. Increased chemical reactivity.
E. Dissociation of subunits in case of oligomeric protein.
Methods of protein denaturation
By several ways proteins are denatured. They are
1. By exposing protein to extreme acidic or alkaline PH. 2. High temperature. 3. Use of
detergents like sodium dodecyl sulfate (SDS). 4. By treating with strong acids like
trichloroacetic acid (TCA), Tungstic acid and picric acid. 5. Exposing to ultraviolet
light. 6. Using salts like urea and guanidinium chloride at high concentration. 7.
Vigorous shaking. 8. Ultrasonication. 9. Heavy metal exposure like lead, arsenic,
mercury etc. 10. By organic solvents like acetone, alcohol etc.
018
Clinical Importance:
1. Protein denaturation is part of estimation of blood constituents.
2. Plasme protein separation involves protein denaturation.
3. Isolation of protein or enzyme from mixture of proteins involves denaturation.
Examples for protein denaturetion:
1. Exposure of egg albumin to high temperature leads to formation of coagulum.
2. Sweet tasting protein monellin loses its property on denaturation.
Identification of
amino Acid
Dinitrophenyl Derivative
Chromatography
Edman's meathod:
1. In this method also primary structure is elucidated from N-terminus.
2. However complete sequence of protein is obtained by repeating several times with
Edman's reagent.
3. Unlike Sanger's method Edman's reagent reacts with only one aminoacid and rest of the
aminoacids remain intact.
4. Edman's reagent (Phenylisothiocyanate)reacts with free aminogroup in presene of acid to
produce phenylthiohydantoins which are estimated by using chromatography.
PLASMA PROTEINS
019
BIOCHEMISTRY -
020
S-S
Light
Chain
Heavy
Chain
minor classes. Ig G, Ig A and IgM are major classes. Ig and IgE are minor
IMMUNOGLOBULIN
021
BIOCHEMISTRY -
also varies among various classes of immunoglobulins. Each class of immunoglobulin contains
unique H chain based on which they are named. The different H chains are g (Gamma),
(Alpha), (mu), (Delta) and (Epsilon). However in all five classes of immunoglobulins only
two types of L chains are found. They are (kappa) and (lambda).
1. Ig G Class
1
Ig G dimer
2. IgA Class
Structure: It consist of two alpha type H chains and two or type L chains. Hence it is
designated as 2 L2. It may exist as multimer of the basic unit. Polypeptide chains like SC
and J are also found. They are involved in joining of monomers.
Function: It accounts about 10-20% of immunoglobulins. It is chief of antibody of mucosal
cells, secretions of lungs and gut where it combines with antigen thus protecting them from
harmful antigens.
3. Ig M Class
Ig M Pentamer
Structure: It is made up of two type H chains and two C chains. It is designated as 2 L2.
Function: It is involved in alternate pathway of complement fixation. It accounts only 0.
5% of total immunoglobulins.
5. Ig E Class
Structure: It is made up of two type H chains and two L chains. It is designated as 2 L2.
022
H2O
H2N CH CONH CH COOH
|
|
R1
R2
Peptide Group
023
BIOCHEMISTRY -
AminoAcid1
AminoAcid2
Dipeptide
Peptide Bond
AminoAcid2
AminoAcid3
Tripeptide
Peptide Bond
Pentapeptide : Five aminoacids are linked by four peptide bonds. Enkaphains are examples.
15. Classify aminoacids based on side chain and ring structure giving
examples.
A. Aminoacids are classified into seven major classes based on side chains.
a) Aliphatic aminoacid s: Are those which contain aliphatic side chains. Glycine, alanine,
valine, leucine and isoleucine are examples for aliphatic aminoacids. The latter three
aminoacids are also known as branched chain aminoacids.
H
|
H2N C COOH
|
H
Glycine
H
|
H2N C COOH
|
CH3
Alanine
H
|
H2N C COOH
|
CH
CH3 CH3
Valine
H
|
H2N C COOH
|
CH2
|
CH
CH3 CH3
Leucine
024
b) Hydroxy aminoacids :Are those aminoacids that contain sulfhydryl groups in side
chain. Serine and threonine are examples for hydroxyl aminoacids.
H
|
H2N C COOH
|
CH CH3
|
CH2
|
CH3
H
|
H2N C COOH
|
CH2 OH
H
|
H2N C COOH
|
CH OH
|
CH3
H
|
H2N C COOH
|
CH2 SH
H
|
H2N C COOH
|
CH2
|
CH2 S
|
CH3
Isoleucine
Serine
Threonine
Cysteine
Methionine
H
|
H2N C COOH
|
CH2 CONH2
H
|
H2N C COOH
|
CH2
|
CH2 COOH
H
|
H2N C COOH
|
CH2
|
CH2 CONH2
Aspartate
Aspargine
Glutamate
Glutamine
d) Acidic aminoacids : Side chains of these aminoacids contain acidic groups or their
amides. They are glutamate, glutamine, aspartate and aspargine.
H
|
H2N C COOH
|
CH2
|
NH
CH2
|
CH2 NH C NH2
Arginine
H
|
H2N C COOH
|
CH2
|
NH
N
H
|
H2N C COOH
|
CH2
|
CH2
|
CH2
|
CH2 NH2
Histidine
Lysine
e) Basic aminoacids: Basic groups are present in side chains of these aminoacids. They
are arginine, lysine, hydroxyl lysine and histidine.
H
|
H2N C COOH
|
CH2
H
|
H2N C COOH
|
CH2
OH
Phenyl Alanine
Tyrosine
H
|
H2N C COOH
|
CH2
|
N
H
Tryptophan
025
BIOCHEMISTRY -
f) Aromatic aminoacids : Aromatic rings are present in the side chains of these
aminoacids. They are phenylalanine, tyrosine and tryptophan.
OH
N
H
COOH
Proline
N
COOH
H
Hydroxy Proline
g) Iminoacids: Are those aminoacids in which amino group is replaced by imino group.
They are proline and hydroxy praline.
Amino Group
H
|
H2N C COOH
|
R
Acid Group
R-Side Chain
Amino Acid
Functions: Free aminoacids are found in blood and cells of humans. Hormones, purines,
pyrimidines, heme, some vitamins, creatine etc found in body are derived from aminoacids.
026
A. Semi essential aminoacids: Semi essential aminoacids are synthesized in the body to some
extent. They are histidine and arginine.
Unusual or rare aminoacids or Non protein aminoacids: These aminoacids are not found in
proteins. But they have other functions. Examples are i). Intermediates of urea cycle i. e.
ornithine. citrulline and argininosuccinate. ii). taurine. iii). Gamma aminobutyric acid
(GABA). iv). Beta ()-alanine. v). Pantothenic acid.
H
AlkalineP
Zwitterion
Neutral PH
cation
acidicPH
H
|
H2N C COO
|
R
+ H |
H3N C COO
|
R
+ H |
H3N C COOH
|
R
2. The isoelectric point of an aminoacid having one carboxyl group and one amino group is
obtained by dividing Pkvalues of these groups with 2.
3. At isoelectric point aminoacids or proteins have minimum solubility.
4. This is exploited for separation of proteins or aminoacids from mixture.
027
BIOCHEMISTRY -
amounts.
2. For example Pk of amino group of aminoacid is designated as Pkam. It is PHat which
dissociated (-NH2) and undissociated (-NH3+) are found in equal amounts.
3. Like wise Pk of acid groups of aminoacid is designated as Pka.
4. The Pk values indicates strength of groups.
5. Low Pkvalues indicates more ionizing power. High Pk values indicates less ionizing power.
028
CHAPTER - 4 | Lipids
Chapter
Lipids
1. Classify lipids. Give examples for each class along with functions.
A. Classification: Based on composition lipids are classified into
I. Simple lipids
II. Compound lipids and
III. Derived lipids.
I. Simple lipids : Esters of fatty acids with alcohol are known as simple lipids. Fats and
waxes are simple lipids.
a. Fats:
1. Are esters of fatty acids with glycerol.
2. Triglycerides, diglycerides and mono glycerides are fats.
3. Triglyceride is also called as tri acyl glyccrol.
4. In triglycerides three fatty acids are esterified to three hydroxyl groups of glycerol.
5. In diglycerides two of the hydroxyl groups of glycerol are esterified with glycerol.
6. Only one fatty acid is esterified to any one of hydroxyl group of glycerol in
monoglycerides.
Esterbond
CH2 OH
|
CH OH
|
CH2 OH
CH2 O COR1
|
CH O COR2
|
CH2 O COR3
CH2 O COR1
|
CH O COR2
|
CH2 OH
CH2 O COR1
|
CH OH
|
CH2 OH
Glycerol
Triglyceride
Diglyceride
Monoglyceride
029
BIOCHEMISTRY -
CHAPTER - 4 | Lipids
CH2 O COR1
|
CH O COR2
|
CH2 O Phosphoserine
CH2 O COR1
|
CH O COR2
|
CH2 O Phospho
Ethanolamine
Phosphatidyl Choline
Phosphatidyl Serine
Phosphatidyl Ethanolamine
Functions:
1. Phosphatidyl choline is major lipid present in cell membrane. It is also present in egg
yolk and plasma lipoproteins.
2. Cephalin is also component of cell membrane, lipoproteins and nervous tissue.
3. Cell membrane contains phosphatidyl inositol.
4. Inositol triphosphate (IP3) which is involved in signal transducution is derivative of
phosphatidyl inositol.
B. Sphingolipids: They consist of an aminoalcohol sphingosine, fatty acid, nitrogenous
base and additional groups.
They are subdivided into
a. Sphingomyelins.
b. Glycolipids
a. Sphingomyelins:
1. They are made up of fatty acid linked to sphingosine by amide bond and
phosphoryl choline which is esterified to sphingosine.
2. Due to presence of phosphate sphingomyelins are also considered as
phospholipids.
Sphingomyelin
Fatty acid
Sphingosine
Phosphate
Choline
Functions:
1. Sphingomyelins occur in myelin sheath of nervous tissue.
2. They are most abundant sphingolipids.
3. They are also present in grey matter.
4. Cell membrane also contain sphingomyelin.
b. Glycolipids: They are subdivided into two groups.
1. Cerebrosides.
2. Gangliosides.
031
BIOCHEMISTRY -
Cerebrosides:
a. They consist of sphingosine, fatty acid and carbohydrate or sugar.
b. Usually they are named according to sugar present.
c. For example if glucose is the sugar present in a cerebroside then it is called as
glucocerebroside.
d. Similarly galacto cerebroside contain galactose sugar.
e. In some cerebrosides sulfate is esterified to sugar moiety.
f. They are known as sulfatides or sulfolipids.
Cerebroside
Fatty acid
Sphingosine
Sugar
Sulfolipid
Fatty acid
Sphingosine
Sugar
Sulfate
Gangliosides:
a. They are most complex of all compound lipids.
b. They are made up of sphingosine, fattyacid, oligosaccharide and sialic acid.
c. The oligo saccharides contain aminosugar and acetylated aminosugars.
Ganglioside
Fattyacid
Sphingosine
Oligosaccharide
Sialicacid
Functions:
1. White matter of the brain and myelin sheath of nerves contain cerebrosides.
2. Grey matter contain gangliosides.
3. Gangliosides serve as receptors for toxins, hormones etc.
4. Cerebrosides and gangliosides are also present in non neural tissues.
5. Gangliosides are also involved in cell cell recognition, growth and differentiation
and carcinogenesis.
III Derived lipids : Hydrolysis of simple and compound lipids produce derived lipids. Fatty
acids, steroids, fat soluble vitamins and glycerol are examples for derived lipids.
Fatty acids : Hydrolysis of triglycerides yield fatty acids. They are acids containing
long hydrocarbon chain. Many fatty acids are identified in nature. They are subdivided
into
a. Saturated fatty acids.
b. Unsaturated fatty acids based on nature of hydrocarbon chain.
a. Saturated fatty acids:
1. The hydrocarbon chain of these fatty acids is saturated.
2. No double bonds occur.
3. Saturated fatty acids containing up to 20 carbons are identified.
4. More important are palmitic acid, stearic acid and arachidonic acids.
032
CHAPTER - 4 | Lipids
Acid Group
HO
Cholesterol
033
BIOCHEMISTRY -
7. Glucocorticids, mineralo corticoids, male sex hormones, female sex hormones are
derivatives of cholesterol.
034
CHAPTER - 4 | Lipids
Functions:
1. They are structural components of tissues like brain, muscle and heart.
2. Platelet activating factor is a plasmalogen.
3. In cancer cells plasmalogen content is more.
Apoprotein
CORE
Lipids
Lipoprotein
035
BIOCHEMISTRY -
Structure:
1. Lipoproteins have spherical to oval shaped structure.
2. Non polar hydrophobic lipids lies in the central core.
3. They are surrounded by more polar hydrophilic apolipo proteins and lipids.
4. The outer polar coat solubilizes inner non polar lipids in aqueous environment of
plasma.
8. Write separation, classification and functions of lipoproteins.
A. Separation and classification:
1. Lipoproteins are separated by ultracentrifugation and electrophoresis.
2. Ultra centrifugation separates lipoproteins based on their density.
3. Density of a lipoprotein is inversely related to lipid content.
4. So higher the lipid content of lipoprotein then lower its density.
5. Ultracentrifugation separates lipoproteins into 4 classes.
6. They are1. Chylomicrons. 2. Very low density lipoproteins (VLDL). 3. Low density
lipoproteins (LDL) and 4. High density lipoproteins (HDL).
7. Electrophoretic separation of lipoproteins is based on differences in mobilities.
8. The plasma lipoprotein electrophoresis gives four bands which corresponds to
chylomicrons, -lipoprotein, pre-lipoprotein and -lipoprotein.
LDL
VLDL
HDL
Lipoprotein
Electrophore sis
Chylomicrons b-Lipo
Protein
Preb
a-Lipo
Lipo Protein
Protein
Functions:
1. Chylomicrons are involved in the transport of dietary triglycerides from intestine to
liver.
2. Very low density lipoproteins (VLDL)are involved in the transport of endogenous
triglycerides from liver to peripheral tissues.
3. Low density lipoproteins (LDL) are involved in the transport of cholesterol from liver to
peripheral tissues.
4. High density lipoproteins (HDL) are involved in the transport of cholesterol form
peripheral tissues to liver.
036
CHAPTER - 4 | Lipids
5. Some apoproteins have functions other than structure. They act as activators or
inhibitors of enzymes of lipid metabolism.
Cyclo
Pentane
Ring
Sidechain 1
Sidechain 2
CH3
Prostanoic Acid
Functions:
1. Prostaglandins have several effects on cardiovascular system.
a. They act on heart and increases cardiac output and myocardial contraction.
b. They are involved in maintenance of arterial pressure and vascular tone.
c. Some prostaglandins act as antihypertensive agents. They lowers blood pressure.
2. Prostaglandins act on central nervous system. They are involved in sedation and
tranquilizing effect in cerebral cortex.
3. Prostaglandins influences excretory functions of kidneys. They facilitates elimination
of sodium, potassium and chloride ions. They also influences urine volume.
4. Prostaglandins act on respiratory system.
a. They dilates bronchi. b. They act as anti asthmatics. c. They relieve nasal
congestion.
5. Prostaglandins act on digestive system.
a. They decrease acid secretion in stomach.
b. They are useful in peptic ulcer treatment.
6. Prostaglandins have actions on reproductive system.
a. They cause contraction of uterine muscle.
b. They are useful in inducing abortions.
c. They have role in fertility.
7. Prostaglandins play role in metabolism. Through cAMP they mediate their action.
cAMP level alteration affects lipid as well as carbohydrate metabolism.
8. Some prostaglandins are involved in inflammation.
9. Haematopoietic system also influenced by prostaglandins.
a. They inhibit platelet aggregation.
037
BIOCHEMISTRY -
10. Define micelles, mixed micelles and Liposome and lipid bilayer.
Write the importance of each one.
A. These liquid structures are generated by amphipathic molecules which contain both
hydrophobic as well as hydrophilic parts.
Micelles : Are formed when amphipathic molecules are present beyond critical
concentration in aqueous medium. They are sphere shaped aggregates of amphipathic
molecules. Bile salts form micelles which are required for lipid digestion.
Mixed micelles: Are formed when micelles of one type of lipids combines with other lipids.
In the intestine bile salt micelles combines with products of lipid digestion to form mixed
micelles. Mixed micelle formation is essential for digestion and absorption of lipids.
Liposome: Is formed when a lipid bilayer cyclizes i. e. two ends of lipid bilayer joins. They
are used as carriers of drugs or genes in case of gene therapy.
Lipid bilayer:Is formed when phospholipids are present in water and oil mixture. Cell
membrane is a lipid bilayer.
Other model questions are
038
CHAPTER - 5 | Enzymes
Chapter
Enzymes
1. Classify enzymes. Give examples for each class along with reaction
and cofactors involved.
A. Classification: Based on the type of reaction they catalyzes enzymes are classified into
six major classes. All classes of enzymes with examples are given below.
1. Oxidoreductases: They oxidizes or reduces substrates using an hydrogen acceptor or
donor.
Glutamate dehydrogenase is an example which catalyzes below given reaction.
Glutamate+ NAD+H2O -ketoglutarate +NADH+H+ + NH4.
Succinate dehydrogenase that catalyzes below given reaction is another example.
Succinate +FAD Fumarate + FADH2.
2. Transferases: They transfer group between substrates.
Transaminase catalyze transfer of amino group from one aminoacid to ketoacid as shown
below.
Alanine+ -Ketoglutarate Pyruvate + Glutamate
Glucokinase catalyses transfer of phosphate from ATP to glucose as shown
Glucose +ATP Glucose-6-phosphate + ADP.
3. Hydrolases: These enzymes hydrolyzes glycosidic bond or ester bonds etc.
Amylase catalyzes hydrolysis of glycosidic bonds of starch.
Amylase
Starch +H2O
Hydrolytic products.
Hydrolytic products.
039
BIOCHEMISTRY -
HMG-CoA lyase
HMG-CoA
Acetoacetate+Acetyl-CoA.
Enzyme Product.
Enzyme properties:
Enzymes are proteins and they are not consumed in the reaction. Enzymes are usually
high molecular weight substance. Molecular weight of enzymes ranges form thousands to
millions. Enzymes are able to cut big molecules to small molecules. Conversely enzymes
form big molecules by joining small molecules. Enzymes are more efficient than man made
catalysts and they have enoromous power of catalysis.
040
CHAPTER - 5 | Enzymes
Transition
State
E
N
E
R
G
Y
Non Enzyme
catalyzed
Enzyme
Catalyzed
Ground State
Uncatalyzed
A
C
T
I
V
A
T
I
O
N
Progress of Reaction
Binding Site
Catalytic Site
041
BIOCHEMISTRY -
1. Lock and key model: As the name implies shape of the active site and substrate are
complementary like that of lock and key in this model. Complementary nature of active
site and substrate shape allows formation of tight enzyme substrate complex to yield
product and free enzyme. However this model fails to explain reversible enzyme
catalyzed reactions due to rigid shape of active site.
Active
site
Enzyme (E)
Substrate (S)
(ES) Complex
Enzyme
Product
2. Induced fit model: In this model rigid nature of active site is avoided. Enzyme active
site is flexible in this model. Further in the absence of substrate active site is not in
proper form. Binding of substrate to enzyme induces conformational change in enzyme
molecule. As a result precise active site forms to favour tight binding between enzyme
and substrate and catalysis. Since enzyme is unstable in induced conformation it
returns to native state in the absence of substrate. This model allows formation of
enzyme product complex to favour the formation of substrate in the case of reversible
enzyme catalyzed reactions.
Active
site
Enzyme (E)
Substrate (S)
(ES) Complex
Enzyme
Product
042
CHAPTER - 5 | Enzymes
Vmax
Vmax
2
Vo
O
Km
(S)
From this equation Michaleis constant is obtained. From Michaleis plot substrate
concentration that produces maximum velocity is difficult to obtain. But at least
substrate concentration that produces half maximal velocity is possible to know. So by
substituting this in Michaleis Menton equation we get.
Vmax
Vmax (S)
=
Km+ (S)
On cross multiplication
Km+2 (S)=S
i. e. Km= (S).
043
BIOCHEMISTRY -
100
Optimum
100
Optimum
Temperature
PH
Enzyme
Enzyme
Activity
Activity
50
50
37
Temperature (C)
70
7
PH
14
3. Hydrogen ion concentration: Like optimum temperature enzymes requires a particular PH for
optimum activity. This is known as optimum PH. For most of the enzymes optimum PH ranges
from 5-8 or PHof body or cell in which it occurs. However enzymes with alkaline optimumPH or
acidic optimum PHare known. When PH and enzyme activity are plotted a bell shaped curve is
obtained.
4. Enzyme concentration : The rate of product formation in an enzyme catalyzed reaction is
proportional to concentration of enzyme. The plot of enzyme concentration and rate of product
formation is straight line passing through origin.
5. i. Inhibitors: These substances if present in enzyme catalyzed reaction they inactivate
enzyme. As a result rate of product formation may decrease or not occur.
ii. Cofactors: Several enzymes can work only in presence of some non protein molecules. In
the absence of these molecules enzyme catalysis may be slowed down or not take place.
COMPETITIVE INHIBITION
1. It is a kind of reversible enzyme inhibition.
2. It occurs in presence of competitive inhibitor.
3. The competitive inhibitor is structurally similar to the substrate. Hence it competes with
substrate to bind at active site.
044
CHAPTER - 5 | Enzymes
ES
E+I
EI
E +P
I = Inhibitor
E+P
P = Product
Substrate
Only
Inpresence of
competitive
inhibitor
Vmax
2
Vo
O
Substrate
Competitive
Inhibitor
Competitive Inhibition
Km Km (S)
COOH
|
Succinate
CH2
Dehydrogenase
Succinate |
+ FAD
Fumarate + FADH2
COOH
CH2
(-)
|
(-) Inhibition
|
CH2
COOH
Competitive
Malonate |
Inhibtor
COOH
Applications
Competitive inhibitors are used in medicine as 1) Antibiotics, 2). Anti cancer agents 3). Drugs for
treating metabolic diseases.
Antibiotics : Competitive inhibitors used as antibiotics to treat bacterial infections are mainly
sulfonamides or sulfa drugs. Most of these drugs contains sulfanilamide an analogue of p- amino
benzoic acid. For growth bacteria need vitamin folic acid. p- amino benzoic acid is required for
formation of folic acid. Sulfonilamide competitively inhibit enzyme involved in synthesis of folic
acid using p- amino benzoic acid. This results in block in folic acid formation. Lack of folic acid
leads to arrest of bacterial growth.
045
BIOCHEMISTRY -
(-)
Sulfonila Mide
Arrest of Bacterial
Growth
Anti cancer agents: Several competitive inhibitors are used as anti cancer agents. Folic acid
analogs are most notable among them. Rapidly growing cancer cells requires folicacid for nucleic
acid formation. Dihydrofolate reductase is competitively inhibited by folic acid analogs like
aminopterin and amethopterin. They are used in the treatment of blood cancer. Inhibition of
dihydrofolate reductase results in block in folic acid formation. This in turn affect nucleic acid
synthesis. Lack of nucleic acids leads to arrest of cancer growth.
Reductase
Folic Acid (F)
FH4
Block in Nucleic
Acid Formation
(-)
Aminopterin
Arrest of Cancer
Growth
Competitive inhibitors in treatment of metabolic diseases: Competitive inhibitors are used in the
treatment of gout, atherosclerosis, hypertension etc. i) Gout is disease due to excessive production
of uric acid. It is treated using allopurinol, a competitive inhibitor of enzyme xanthine oxidase
involved in uric acid production. Inhibition of xanthine oxidase leads to decreased uric acid
production.
Hypoxanthine
xanthine
oxidase
(-)
Allopurinol
xanthine
x anthine
oxidase
(-)
Allopurinol
Reduced
Uric Acid
Formation
Gout Cured
ii) Lovastation is competitive inhibitor of enzyme HMG - CoA reductase involved in cholesterol
production. In atherosclerosis cholesterol is present in excess. When used lovastatin blocks
cholesterol production. This leads to arrest of advancement of atherosclerosis.
046
CHAPTER - 5 | Enzymes
HMG-CoA
Reductase
HMG-CoA
(-)
Lova Statin
Block in
Mevalonate
Formation
Reduced
Cholesterol
Formation
Arrest of
Atherosclerosis
Progress
iii) Captopril, lisinopril and enalapril are competitive inhibitors of angiotensin converting
enzyme involved in blood pressure regulation. They are used in the treatment of hypertension.
Normal
Blood Pressure
(-)
captopril, Lisinopril
NON COMPETITIVE INHIBITION
1. It is another type of enzyme inhibition.
2. Most of the cases are irreversible enzyme inhibition.
3. Non competitive inhibitors are not structural analogs of substrates.
4. They bind enzyme at site other than active site. Hence no competition occurs between
substrate and inhibitor to bind at active site.
5. Substrate can bind to enzyme inhibitor complex. Rate of formation of product from these
complexes is affected.
6. So in non competitive inhibition Km remains same but Vmax is altered.
7. The interaction of enzyme, substrate, inhibitor is written as
E+S
ES+I
ESI
E+S
ES
E+P
E+I
EI+S
EIS
Vmax
Substrate
Only
Vmax
In presence of
Non Competitive
Inhibitor
Vmax
2
Vmax
2
Vo
O
E
N
Z
Y
M
E
Substrate
(S)
047
BIOCHEMISTRY -
Examples
Several non competitive inhibitors irreversibly inactivate enzymes. So they are often known as
048
CHAPTER - 5 | Enzymes
Methionine + cobamide
Acyl-CoA+AMP+PPi
e. Nucleotide coenzymes : Many nucleotides function as coenzymes. They are ATP, GTP, CTP,
ADP, GDP, CDP, PAPS and SAM.
Metals
Enzymes in which metal is part of enzyme molecule are known as metalloenzymes and metal is
attached through coordinate bond. More over metal takes part in catalysis. Removal of metal
leads to loss of catalytic activity of enzymes. Cytochrome oxidase, catalase, succinate dehydrogenase are examples for iron metallo enzymes.
Metal dependent enzymes
Are those enzymes in which metal is not part of enzyme molecule but it is required for catalysis. It
act as bridge between enzyme and substrate. In the absence of metal enzyme is unable to form
enzyme substrate complex. Hexokinase, galactokinase and pyruvate kinase are dependent on
magnesium for activity.
Metal activated enzymes
In presence of metals activity of these enzymes is increased to many folds. In the absence of metal
they catalyze reaction but at low rate. Chloride is an activator of amylase and angiotensin
converting enzyme. Calcium is an activator of trypsin.
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BIOCHEMISTRY -
LDHI
H4 o H H H H
LDH2
H3M or H H H
LDH3
H2 M2 or H H M M
LDH4
HM3 or H MMM
LDH5
M4 or MMMM
Isoenzyme
Subunit Composition
Ck1
BB
Ck2
MB
Ck3
MM
050
CHAPTER - 5 | Enzymes
5. Glycogen synthase and glutamine synthatase are two enzymes whose activity is
regulated by attachment of phosphate and nucleotide respectively.
Glycogen synthase (High active)+ATP
Glutamine synthetase (More active)+ATP
051
BIOCHEMISTRY -
hepatitis. In lung disease both transaminases in serum are elevated. Skeletal muscle is
another organ that contain significant amount of ALT. Hence ALT level increases in
diseases affecting skeletal muscle like muscular dystrophy and muscle injury.
2. Alkaline Phosphatase: Normal level of this enzyme in blood is 20 -90 U/L. Rickets,
obstructive jaundice, hyper parathyroidism, bone cancer and cancer are some diseases
associated with increased level of this enzyme in blood. Liver secretes this enzyme into
bile. So block to flow of bile causes increase in blood level of this enzyme. Hence in
obstructive jaundice level of enzyme increases by ten fold. In intestinal disorders, lung
and kidney damage. Leukaemia, congestive heart failure and Hodgkins disease also
the enzyme level is more.
3. Lactate Dehydrogenase (LDH) : Normal level of this enzyme is 70 to 90 U/L. Serum LDH
level increases mainly in heart attack or myocardial infarction. The level of this enzyme
in serum increases within 24 hrs of heart attack and reaches maximum level in 2 to 3
days and returns to normal in 7 days. Acute hepatitis, pernicious anaemia,
megaloblastic anaemia, muscular dystrophy and blood cancer levels of this enzyme is
more.
4. Creatine Phosphokinase (CPK) : Normal level of this enzyme is 12 to 60 U/L. Skeletal
muscle contains more of this enzyme. Hence it is elevated in skeletal muscle diseases
like muscular dystrophy, muscle injury and Polio myositis. Severe muscular exercise
may raise plasma CPK level. It is also elevated in other than diseases of skeletal muscle
like hypothyroidism, tetanus, etc.
5. Acid Phosphotase : This enzyme is concentrated in prostate gland. Normal level of this
enzyme is 2. 5-12U/L. Its level is mainly elevated in prostate cancer. In bone diseases
and breast cancer also level of this enzyme is increased.
6. Gamma glutamyltranspeptidase (GGT): Normal level of this enzyme in plasma is upto
30U/L. Like alkaline phosphatase this enzyme is secreted into bile. Hence in liver
disease like obstructive jaundice, alcoholic cirrhosis level of this enzyme is increased.
In brain lesions level of this enzyme is elevated.
7. Isocitrate dehydrogenase (ICDH): Apart from plasma this enzyme is found in
cerebrospinal fluid (CSF) also. Hence measurement of this enzyme is useful in diseases
affecting brain. In the plasma normal level of this enzyme is upto 5U/L. In
inflammatory conditions level of this enzyme is elevated. In acute infective hepatitis
and toxic hepatitis level of this enzyme is increased. However in obstructive jaundice
level of this enzyme is more elevated than in brain tumors.
8. Amylase: This is a secretory enzyme. It is secreted by pancreas and parotid gland.
Normal level of this enzyme in plasma is 800- 1800U/L. It is mainly elevated when
there is block in its secretory route. So in acute pancreatitis and parotitis level of this
052
CHAPTER - 5 | Enzymes
enzyme is more. Further in intestinal obstruction and mumps also the enzyme level is
increased in plasma.
9. Lipase:It is secreted by pancreas along with amylase. The level of this enzyme in
plasma is about 150U/L. It is mainly increased in diseases affecting pancreas like acute
pancreatitis and cancer of the pancreas. In other abdominal diseases also level of this
enzyme is elevated. They are abdominal lesions, peritonitis, intestinal obstruction,
perforated peptic ulcer etc. ,
053
BIOCHEMISTRY -
Allosteric Activator
Substrate only
Allosteric Inhibitor
V
(S)
054
CHAPTER - 5 | Enzymes
Trypisn
Prothrombin Thrombin
Pepsingen Pepsin
pH 1.5
055
BIOCHEMISTRY -
A.
16. Define cofactors. Classify. Give examples. Write reaction for each
example.
17. Explain competitive inhibition with examples.
18. Describe enzyme inhibition.
19. How competitive inhibitors are useful in clinical medicine?
20. Write a note on influence of substrate concentration on enzymatic
reaction.
21. Define Km. Write its importance.
22. Explain effect of the following on enzymatic reaction
A. Hydrogen ion concentration. B. Temperature.
23. Write about competitive inhibitors used as chemotherapeutic
agents.
24. In what diseases following enzymes level in blood is more
A. SGOT
B. Alkaline phosphatase
25. Write about enzyme poisons.
26. Write an essay on clinical enzymology.
27. Write a note on non competitive inhibition.
056
CHAPTER - 5 | Enzymes
057
Chapter
Adenine
Ribose
Guanosine
Guanine
Ribose
Cytosine
Thymine
Ribose
Uridine
Uracil
Ribose
Ribose
Sugar
Phosphate
Purine nucleotides:In these nucleotides nitrogenous base is purine. They are adenosine
monophosphate (AMP), adenosine diphosphate (ADP)and ATP. Like wise guanosine
monophosphate (GMP), guanosine di phosphate (GDP) and GTP.
Adenine
Sugar
Phosphate
AMP
058
Sugar
Phosphate
CMP
059
BIOCHEMISTRY -
060
061
BIOCHEMISTRY -
NUCLEIC ACIDS
31
Hydrogen Bonds
A : Adenine
A====T
G : Guanine
C : Cytosine
T : Thymine
C====G
31
51
14. The base pairs are stacked. The pitch of the helix is 34 Aand contain ten base pairs. The width
of the helix is 20 A.
062
15. Due to the presence of hydrogen bonds through out molecule DNA is highly stable.
16. Major and minor grooves are present on the double helix.
17. Watson- Crick model DNA is known as B-DNA.
Functions
1. DNA is genetic material of living organisms. It contains all the information needed for the
development of entire organism or individual.
2. DNA is transferred from parent to offspring or generation to generation.
3. DNA contains information required for formation of individuals proteins.
4. Information is present in DNA in the form of genes.
5. Amount of DNA present in the cell of an organism depends on complexity of organisms.
6. Human cells contain more DNA than bacterial cells or viruses.
7. DNA amount in given cell is independent of nutritional or metabolic state of the organism.
8. DNA flows from generation to generation in any given species.
9. DNA determines physical fitness of an organism or susceptibility to disease.
10. How many types of RNA are there? Name them. Write structure
and function of each one.
A. There are three types of RNAs in cells. They are present in prokaryotes as well as
eukaryotes.
They are
1) Messenger RNA or mRNA
2) Transfer RNA or tRNA
3) Ribosomal RNA or rRNA.
Messenger RNA
1. Majority of mRNA molecules are linear polymers.
2. They contain about 1000-10, 000 nucleotides.
3. They have 3' or 5' free or phosphorylated ends
4. Life span of m RNA
molecules varies from few
Hair pin
Loop Poly A Tail
minutes to days.
5. Some RNAs have secondary
cap
structure.
6. Intra strand base pairing
31
m
GTP
among complementary
bases leads to folding of
linear molecules into hair pin like secondary structure.
063
BIOCHEMISTRY -
A31
C
51
DHU
Arm
D
H
U
Extra Arm
Anticodon Arm
064
C Arm
Functions
1. It serve as adaptor molecule in protein biosynthesis. It carries aminoacids to site of protein
synthesis.
2. For every aminoacid one specific tRNA molecule exist.
3. Stability of eukaryotic and prokaryotic tRNA varies.
Ribosomal RNA (rRNA)
It is found in combination with proteins in ribosomes. It contains about 100-600 nucleotides.
Prokaryotic and eukaryotic ribosomes contain several RNA that differ in sedimentation
coefficient. Due to intra strand base pairing between complementary bases secondary structures
are found in rRNA molecules. They are known as domains. 16S rRNA with 1500 nucleotides has
four major domains.
Functions
1. It is involved in initiation of protein synthesis.
2. It is required for the formation of ribosomes.
Linker DNA
Chromosome
Histone
Bead is a nucleosome in which DNA is coiled around basic protein histone octamer. The
nucleosomes are joined by linker DNA as well as histones.
065
BIOCHEMISTRY -
Heat
Cool
Strands
DNA
Separation
DNA
B. Mitochondrial DNA
It is DNA present in mitochondria of eukaryotic cell. It is different from DNA present in
nucleus. Mitochondrial DNA base composition differs from nuclear DNA. Usually
mitochondrial DNA is circular double stranded molecule.
RNA
pyrimidine bases.
A+G=C+T
A+G C+T
occurs.
7. Resistant to alkaline hydrolysis.
50S
30S
21 Proteins + 16 S RNA
70S
The 70S ribosome contains a large 50S sub unit and small 30S subunit. The 50S sub unit
consist of 34 proteins and two RNAs or 23S and 5S RNA. The 30S subunit contains 21
proteins and one 16S RNA. The 80S ribosome contains a large 60S subunit and small 40S
subunit.
pBR322
16. Name nucleoside and nucleotides of adenine and cytosine. Write their
importance.
17. Define nucleoside. List purine and pyrimidine nucleosides.
18. Give examples for cyclic nucleotides. Write their importance.
19. Write a note on tRNA.
20. List purine nucleotides and their functions.
21. Give examples for pyrimidine nucleotides. Mention their functions.
22. Write a note on mRNA.
23. Write about synthetic purine and pyrimidine analogs of clinical
importance.
24. Define chromatin and nucleosome. Explain how they are related?
25. Write the functions of nucleic acids.
26. Purine and pyrimidine bases.
067
Chapter
Biological Oxidation
1. Define biological oxidation. Write its importance. Explain the role of
oxygen in this process.
A. Biological oxidation is related to utilization of respiratory oxygen (O2) in living organisms.
Biological oxidation is a major way of regenerating coenzymes which are reduced in
metabolic pathways. It is final aspect of all energy yielding compounds in the body
Oxygen act as final electron acceptor in the respiratory chain and get reduced to water.
Oxygen is directly associated with biological oxidation reactions in the body. Formation of
several new compounds and removal of toxins are dependent oxygen. . Oxygen is a source
for the formation of reactive oxygen species (ROS) and super oxide etc. However oxygen is
extremely toxic to cells at high concentration. This property of oxygen is exploited in cancer
therapy by combining with radiation.
ATP
Reaction
Endergonic
ATP
ADP+Pi
reaction
068
So ATP is link between energy yielding and energy consuming reactions. In addition
energy released on ATP hydrolysis is used for muscle contraction, cell motility,
transport of ions across membrane etc. GTP, GDP, CTP, CDP, TTP, TDP ; UTP and
UDP are nucleoside di and triphosphates that serve as high energy compounds in living
systems.
2. Acyl phosphates : They are formed from two types of acids. For example 1, 3bis
phosphoglycerate is the combination of glyceric acid and phosphoric acid. So it is mixed
anhydride. On hydrolysis it yields about 12 kcal /mol energy and 3- phosphoglycerate is
product.
OH O
|
||
P - Phosphate
1, 3-Bis phosphoglycerate
3. Enol phosphates: They are esters of enols with phosphoric acid. Phospho enol pyruvate
(PEP) is an example for enol phosphate. On hydrolysis it yields about 15 kcal / mol
energy and pyruvate is product.
O P
|
CH2= C COOH
PEP
4. Thio esters: They are esters of thiol with acid. Acetyl CoA is an example for thiol ester.
On hydrolysis 7. 5 kcal /mol energy is released and acetic acid is product.
O
||
CH3 C ~ S-CoA
5. Phosphocreatine: It is a guanidinium group containing high energy compound present
in skeletal muscle. On hydrolysis it yields 10 kcal / mol energy and creatinine is
product.
NH
H
||
P N C N CH2 COOH
|
CH3
Creatine phosphate
069
BIOCHEMISTRY -
070
6. Define redox reactions and redox potantial. Write the symbol for
redox potential. What is its importance in respiratory chain?
A. Redox reactions: Oxidation and reduction reactions are known as redox reactions. The
oxidant and reductant of redox reactions are known as redox pair.
Redox potential:Electromotive force (e. m. f) of a redox pair is known as redox potential.
It is indicated with symbol Eo1. Redox potential of a redox pair indicates ability of redox pair
to either gain or loose electrons.
Further redox potential has critical role in arrangement of components of respiratory
chain. Location of specific component of respiratory chain depends on its redox potential.
Starting components of respiratory chain have negative redox potential where as terminal
components of respiratory chain have positive redox potential. Further ATP synthesis in
respiratory chain also depends on redox potential difference between redox pair of
respiratory chain. Approximately 0. 15volts potential difference is required for one ATP
formation.
FMN
CoQ
Cyt b
Cytc1
Cyt c
Cyt a
Cyt a3
O2.
Recent research indicated presence of complexes in electron transport chain rather than
individual components. Respiratory chain consist of four complexes and three mobile
carriers. They are complexes I to V and mobile carriers are NAD, CoQ, cyt c and molecular
oxygen. Complex I. is NADH- dehydrogenase or NADH CoQ reductase. This complex also
contains iron sulfur centers and FMN. So electrons collected by NAD from substrates is
transferred to CoQ by this complex I through FMN and iron sulfur centre. This results in
071
BIOCHEMISTRY -
Complex
CoQ
Complex
Cyt C
Complex V
H2O
Oxidative phosphorylation
Synthesis of ATP using energy released when electrons flow in the respiratory chain from NAD+
to oxygen is oxidative phosphorylation. It consist of two processes an oxidation and
phosphorylation. These two processes are coupled. It is different from substrate level
phosphorylation with respect to location, mechanism, susceptibility to inhibitors etc. Substrate
level phosphorylation is not combination of two processes and hence it does not involves coupling.
Further it is insensitive to inhibitors. It occurs in metabolic pathways and located outside of
mitochondria and does not involve electron transfer. In constrast ATP synthesis in respiratory
chain is associated with three complexes of respiratory chain which is present in mitochondria.
Complex or NADH CoQ reductase, complex or CoQ cyt c reductase and com plex V or
cytochrome oxidase of respiratory chain are involved in ATP synthesis. Flow of electrons through
these complexes causes synthesis of ATP.
ATP Synthase
When electrons flow in respiratory chain from NAD to
oxygen ATP is generated. ATP synthase or F0F1 ATPase
IN
MEM
OUT
F0
F1
SIDE
ATP Synthase
SIDE
BRANE
072
Electron
Transport Chain
ATP
Synthase
in side
(H+) Protons
ADP+Pi
ATP
Energy that is released when electrons pass through F0 subunit of ATP synthase is used by
F1subunit for the synthesis of ATP. This proton extrusion occurs at the three complexes of
respiratory chain. About 3 to 4 protons are extruded at each complex. This gives rise a
PHdifference of about 0. 05 units across inner mitochondrial membrane. This is equal to 0. 15 volts
potential difference at each complex which is sufficient for ATP formation. Since there are three
complexes in respiratory chain electrons flow from NAD to oxygen generates 3ATP molecules.
Latest research indicates synthesis of 2. 5 ATP only
P:O Ratio: It is ratio of number of ATP formed in the electron transport chain per atom of oxygen
consumed. When electrons flow from NAD to O2 3 ATP are formed per atom of oxygen consumed
hence P, O ratio is 3. Like wise P, O ratio is 2 when electrons flow from FAD to O2 (oxygen).
According to new research P, O ratio is 2. 5 and 1. 5 respectively
Inhibitors of Respiratory chain
Respiratory chain is inhibited by two types of inhibitors. They are a) Inhibitors of oxidative
phosphorylation. b) Uncouplers.
a) Inhibitors of oxidative phosphorylation: Inhibitors specific to each complex (site) of oxidative
phosphorylation are found. Amytal, a sedative; rotenone a fish poison and piericidin an
antibiotic inhibits oxidative phosphorylation at complex or site 1. Antimysin A an antibiotic
and BAL an antidote for arsenic poisoning inhibit oxidative phosphorylation at complex or
site 2. Cyanide, carbon monoxide, hydrogen sulfide and azide inhibit oxidative
phosphorylation at complex V or site 3.
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074
Peroxidase
Catalase
2H2O
2H2O + O2
H2O2 + H2
2H2O
O2 + e
Superoxide O
2O2 + 2H
O2 + H2 O2
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BIOCHEMISTRY -
Chapter
Carbohydrate Metabolism
1. Name food carbohydrates. How they are digested and absorbed ? Add a
note on diseases associated with these processes.
A. Food carbohydrates :
Carbohydrates present in food are polysaccharides, disaccharides and very small amounts of
monosaccharides. Polysaccharides are present in plant and animal diets. Cereals like rice,
wheat, vegetables and roots like potato, tapioca contain starch, dextrin and inulin. Glycogen is
present mainly in animal meat. Milk, cane sugar and malt contain disaccharides like lactose,
sucrose and maltose. Bakery products, honey, sweets and fruits may contain
monosaccharides.
Carbohydrate digestion: Is a process that hydrolyzes food polysaccharides to their constituent
monosaccharides.
In the mouth : Carbohydrate digestion is initiated in mouth by salivary amylase present in
saliva. Though its action is limited it converts polysaccharides like starch, glycogen and
dextrin to maltose and oligosaccharides by hydrolyzing 1, 4 glycosidic bonds. It has optimum
PH of 7. 0 and requires chloride for optimum activity.
Amylase
Starch or glycogen or dextrin
Amylase
Amylopectin
Glucose + Fructose.
Glucose+Galactose.
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LUMEN
ENTEROCYTE
MEMBRANE
Glucose
Enterocyte
Cytosol
Sodium
In the initial stage it is present on external surface or luminal side of enterocyte. There are two
binding sites on this carrier protein one glucose binding site and another for sodium binding.
When these sites are occupied by glucose and sodium it moves to cytosolic side and releases
sodium and glucose into cytosol. Glucose and galactose diffuses into blood from cytosol.
However sodium is extruded by pump mechanism which is dependent on ATP. The carrier
molecule returns to its original place to transport another glucose molecule.
Disorders of carbohydrate digestion and absorption
They are due to either defective enzymes or defective transporters. Some of them are given
below.
Lactose intolerance:It is due to deficiency of lactase. Hence patients of this disease fail to
utilize lactose present in diet. Acumulation of lactose in the intestine leads to diarrhoea and
abdominal pain, flatulence etc. due to fermentation of lactose by intestinal bacteria.
Isomaltase and sucrase deficiency: It occurs in childhood. Isomaltase and sucrase are
deficient.
Disacchariduria:It is characterized by excretion of disaccharides in urine. It is due to
deficiency of disaccharidases.
Malabsorption syndromes of monosaccharides: They are due to defective transporter. Due to
defective transporter absorption of monosaccharides is impaired.
078
glucokinase is present. However it phosphorylates glucose only after a meal when blood
glucose level is more.
2. Isomerization of glucose -6-phosphate of first reaction to fructose -6-phosphate is
second reaction and this reaction is freely reversible.
Phosphoglucoisomerase catalyzes this reaction.
Glucose
+ ATP
Hexokinase
Glucose-6-phosphate + ADP
Mg2+ (1)
Phosphoglucose
Glucose-6-phosphate
Fructose-6-phosphate
Isomerase (2)
3. Another ATP dependent phosphorylation of fructose -6- phosphate occurs in the third
reaction which is catalyzed by phosphofructo kinase. Fructose -1, 6-bis phosphate is
product and like first reaction this is also an irreversible reaction requiring ATP and
magnesium ion. Up to this stage of glycolysis two high energy bonds are utilized.
4. Aldolase A splits fructose-1, 6-bis phosphate to two triose phosphates namely
glyceraldalhyde-3- phosphate and dihydroxy acetone phosphate.
Phosphofructokinase
Aldolase A
Fructose-6-phosphate +ATP
Fructose1, 6 bisphosphate
2+
Mg
(3)
(4)
ADP
Glyceraldehyde-3-phosphate + Dihydroxy acetone phosphate
5. A reversible isomerization converts dihydroxy acetone phosphate to glyceraldehyde 3- phosphate which is catalyzed by triose phosphate isomerase.
Triose phosphate isomerase
Glyceraldehyde -3-phosphate
dihydroxy acetone phosphate
(5)
Thus one glucose molecule is converted to two three carbon glyceraldehyde-3phosphate molecules.
6. An NAD+ dependent glyceraldehyde -3- phosphate dehydrogenase catalyzes oxidation
and phosphorylation of glyceraldehyde-3-phosphate to an high energy 1, 3-bis
phosphoglycerate. It is a reversible reaction and inorganic phosphate is required.
Glyceraldehyde3-phosphate dehydrogenase
Glyceraldehyde-3-phosphate+ NAD+
1, 3Pi
(6)
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BIOCHEMISTRY -
7. The high energy 1, 3-bis phosphoglycerate serve as source of energy for formation of
ATP from ADP in this irreversible reaction catalyzed by magnesium dependent
phosphoglycerate kinase. 3-phosphoglycerate is product of this reaction. Substrate
level phosphorylation occurres.
8. A mutase shifts phosphate of 3- phosphoglycerate to the 2nd positition in this reversible
reaction.
Phosphoglyceratekinase
1, 3-bis phosphoglycerate+ADP
3-Phosphoglycerate
Mg2+ (7)
ATP
Phosphoglycerate mutase
2-phosphoglycerate.
(8)
9. A high energy compound is generated in this reaction from 2- phosphoglycerate by
enolase. Phospho enol pyruvate is product of this reversible reaction. Manganese or
magnesium ions are required. Another substrate level phosphorylation occurres here
10.
Synthesis of ATP from ADP once again occurs in this reaction of glycolysis. The
reaction is irreversible and requires magnesium. Phosphoglyceratekinase catalyzes
this reaction and pyruvate is product of this reaction. If glycolysis ends with pyruvate
then it is called as aerobic glycolysis.
2-phosphoglycerate
11.
Enolase
Pyruvatekinase
phosphoenol pyruvate
Pyruvate +ATP
2+
2+
Mg (9)
(10) Mg
ADP
Lactate + NAD+
Dehydrogenase (11)
-2
Net 2
080
-2
Net 8
Thus the aerobic glycolysis generates 8 ATP molecules. According to new research only
7 ATPs are generated.
S
and E2-Lipoamide
SH
The first one is reduced form and latter one is oxidized form. The third enzyme is
dihydrolipoyl dehydrogenase and contains FAD as cofactor. It is written as E3 FAD. The
first enzyme decarboxylates pyruvate and remaining hydroxyethylidine moiety is bound
to TPP.
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(1)
Pyruvate+E1-TPP
E1-TPP- hydroxyethylidine+CO2.
The second enzyme transfers hydroxyethylidine to one of sulfur of oxidized lipoamide and
releasing E1-TPP. It also shifts acetyl group to coenzyme A to form acetyl CoA and
reduced lipoamide.
E1-TPP
S
S-Acetyl
E1-TPP-hydroxyethylidine+E2-lipoamide
E2-lipoamide
S
(2)
SH
S-Acetyl
E2-lipoamide
SH
+CoA
SH
Acetyl-CoA+E2 lipoamide
(2)
SH.
The third enzyme regenerates oxidized lipoamide by transferring hydrogen to NAD via
FAD.
SH
E2-lipoamide
SH
E3 FADH2 + NAD+
(3)
+E3 FADH2
S
E3-FAD+NADH+H+
(
3)
Fate of NADH: It is oxidized in respiratory chain. Three ATP (2. 5)s are generated.
Citrate + CoASH.
(1)
2. In the second reaction citrate is isomerized to isocitrate via cis aconitate and involves
loss and addition of water. This reaction is catalyzed by aconitase an iron containing
protein. It is a reversible reaction.
Aconitase
Citrate
Aconitase
Cis-aconitate
Isocitrate
2
H2O
082
H2O
-ketoglutarate+Co2
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BIOCHEMISTRY -
1
Total 12
There fore 12 ATPs are produced in citric acid cycle when one acetyl- CoA is oxidized.
Only 10 ATPs are produced as per latest research.
Regulation: Citrate synthase, isocitrate dehydrogenase and -ketoglutarate
dehydrogenase are regulatory enzymes. They are subjected to allosteric regulation.
ATP and NADH are allosteric (regulators) or inhibitors and ADP is allosteric activator.
So Citric acid cycle rate depends on cellular levels of ATP and NADH.
Significance: It is final common metabolic pathway for oxidation of carbohydrates,
lipids and proteins. Intermediates of TCA cycle are used for anabolic reactions. Fatty
acids, cholesterol, aminoacids and porphyrins are compounds formed from citric acid
cycle intermediates.
084
phospho gluco
UDPG- Pyro
mutase
Phosphorylase
Glucosse-6-phosphate
Glucose-1-phosphate
UDP- glucose (UDPG)
(1)
(2)
UTP ppi
3. UDP-glucose or active glucose serve as donor of glucose units. A glycogen primer
accepts glucose from UDP- glucose which is catalyzed by glycogen synthase and
involves glycosidic linkage of type 1, 4. The action of glycogen synthase continues until
glycogen primer is elongated by 6-11glucose residues.
Glycogen
Synthase
Primer glycogen +UDP-glucose
UDPG UDP
primer glycogen
(n+1)residues
(3)
(3)
UDP
Elongated primer glycogen.
4. Now new branch is created in primer glycogen by transferring oligosaccharide
containing six glucose residues from newly formed fragment to adjacent chain of
primer glycogen. This reaction is catalyzed by branching enzyme. It involves hydrolysis
and formation of glycosidic linkages of 1, 4 type and 1, 6 type respectively.
Branching Enzyme
Elongated primer glycogen
primer glycogen with new branch.
(4)
5. Further elongation of new branch by glycogen synthase and further branching by
branching enzyme leads to formation of glycogen molecule.
Glycogen Synthase
Primer glycogen with new branch
Elongation of new branch of glycogen.
(5)
Further
Glycogen with elongated new branch
Glycogen.
Branching
elongation
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Phosphorylase
Glycogen
Glucose -1- phosphate +glycogen shorter by one glucose residue
(1)
Pi
Glycogen with one glucose less
(1)
With 4 glucose residues on either side of branch point.
2. In this reaction a trisaccharide chain containing 3glucose units of partly hydrolyzed
branch is transferred to adjacent branch to expose 1, 6 glycosidic bond at branch point.
It is catalyzed by glucan transferase. It involves breaking as well as formation of
glycosidic bonds.
3. A debranching enzyme hydrolyzes 1, 6 glycosidic bond. This results information of
glycogen with one branch less.
4. Now further action of phosphorylase continues on another branch and this is followed
by glucan transferase and debranching enzyme. Thus the combined action of these
enzymes results in degradation of glycogen to glucose 1-phosphate.
Glucan transferase
Glycogen with glucose 4 units on either side of branch point
Debranching
Enzyme
Glycogen with exposed
glycogen with one branch short
Branch
3
Glucose- 1- phosphate
lactate.
Muscle
(6)
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BIOCHEMISTRY -
6-
(3)
Co2
088
Trans aldolase
Sedoheptulose-7-phosphate+glyceraldehyde -3- phosphate
Erythrose -4phosphate+ Fructose -6-phpsphate.
(7)
8. This is another trans ketolase catalyzed reaction. Erythrose -4- phosphate is converted to
fructose -6-phosphate by transferring 2 carbons fragment from xylulose -5-phosphate by
transketolase. The remaining three carbon fragment of xylulose -5-phosphate is released
as glyceraldehyde -3- phosphate. TPP and magnesium ions are required.
Transketolase
Erythrose -4-phosphate +xylulose -5 phosphate
Glyceraldehyde-3-phos
TPP Mg2+
(8)
Phate + Fructose -6-phosphate.
Thus pentose phosphates generated are converted to fructose -6-phosphate and
glyceraldehyde-3-phosphate which enters glycolysis for further utilization.
Significancte:
1. NADPH produced is used for the biosynthesis of fatty acids, cholesterol. deoxyribonucleotides, bile acids, glutamate, hormones and detoxification by cytochrome P450 hydroxylase.
2. In erythrocytes NADPH is used for removal of hydrogen peroxide by glutathione and
conversion of methemoglobin to normal hemoglobin.
3. In neutrophils NADPH is used for superoxide biosynthesis.
4. Pentose phosphates are used for nucleic acid and nucleotide biosynthesis.
5. This pathway convertes glucose to directly Co2 and hence it is called as direct oxidative
pathway of glucose.
6. Pentose of nucleic acid breakdown are used for energy production after they are converted
to intermediates of glycolysis by this pathway.
7. Xylulose of uronicacid pathway is either converted to glucose or intermediates of this
pathway.
8. Glucose -6-phosphate dehydrogenase deficiency:It is sex linked inherited disease of HMP
shunt pathway. In these individuals a tenfold less active glucose -6-phosphate
dehydrogenase is produced in erythrocytes. They appear normal until they are exposed to
certain drugs. In presence of antimalarial drug primaquine, sulfonamide antibiotics and
painkiller aspirin the less active enzyme becomes inactive. As a result NADPH production
is blocked and susceptibility of erythrocytes to hemolysis increases. Therefore affected
individuals develop hemolytic anaemia on exposure to those drugs. Fava beans also cause
this disease. However favism is the name given to this disease.
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BIOCHEMISTRY -
Enolase
Phosphoenol pyruvate
(5)
2-phosphoglycerate.
(6)
GDP
7. Another enzyme of glycolysis phosphoglycerate mutase converts 2-phosphoglycerate to 3phosphoglycerate.
8. Phosphoglyceratekinase of glycolysis converts 3- phosphoglycerate to 1, 3bisphosphoglycerate.
Phosphoglycerate
phosphoglycerate
Mutase
kinase
2-phosphoglycerate
3-phosphoglycerate
1, 3-bis Phosphoglycerate.
(7)
(8)
ATP ADP
9. Glyceraldehyde -3-phosphate dehydrogenase of glycolysis forms glyceraldehyde-3phosphate from 1, 3-bisphosphoglycerate.
10. Triose phosphate isomerase of glycolysis converts a molecule of glyceraldehyde-3phosphate to dihydroxy aectone phosphate.
Glyceraldehyde-3-phosphate
Dehydrogenase
(10)
1, 3-bisphosphoglycerate+NADH+H+
Glyceraldehyde-3-phosphate
9
Pi
Isome
+
Dihydrooxyacetone phosphate.
NAD
rase
11. Reversible action of aldolase of glycolysis generates fructose-1, 6-bisphosphate from
glyceraldehydes -3-phosphate and dihydroxy acetone phosphate.
Aldolase
Glyceraldehyde -3-phosphate +Dihydroxyacetone phosphate
Bis phosphate.
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14.
Glucose + Pi
(14)
H2o
Hydrolase
Glucuro
(2)UDP nic acid
NAD+
L-gulonate
(3)
3-keto-L(4)
NADP+
Gluconate +NADH+H+.
5. A decarboxylase converts 3-keto L-gulonate to L-xylulose by removing a carbon of
3- Keto L- gulonate as carbon dioxide.
6. An NADPH dependent reduction of L-xylulose to xylitol by dehydrogenase is sixth
reaction.
092
3-Keto- L- gulonate
Decarboxylase
Dehydrogenase
L-xylulose
Xylitol+NADP+
(5)
(6)
CO2
NADPH +H+
Xylulose kinase
D-Xylulose
Xylulose-5-phosphate
(7)
(8)
+ ADP
+
NADPH+H
ATP
Fructose-6-phosphate
Fructokinase
Fructose+ATP
(1)
ADP
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BIOCHEMISTRY -
Dihydroxyacetone phosphate+glyceraldehyde.
(2)
Gluconeogenesis
Glucose
Galactose-1-phosphate
Uridyl transferase
Galactose+ATP
Galactose-1-phosphate
UDP
(1)
(2)
ADP
UDP-Glucose
-Galactose +Glucose-1-Phosphate.
Galactokinase
Epimerase
4-keto-UDP-galactose+NADH+H
(3)
(3)
UDP-Glucose+NAD+.
4. From UDP-glucose, glucose is liberated as glucose -1-phosphate after in corporation
into glycogen followed by phosphorylase action.
(4)
UDP-glucose
(4)
glycogen
Glucose.
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Dietary carbohydrates keep blood glucose level with in limits up to 3hours after food in
take. Liver glycogenolysis meets blood glucose requirements up to 10 hour after food in
take.
Liver gluconeogenesis meets blood glucose requirements up to 36 hours after food in take
and beyond that period if food is not taken.
Blood glucose removal: Pathway of carbohydrate metabolism uses glucose in various ways.
a. Glycolysis use glucose for energy b. Glycogenesis use glucose for glycogen formation. c.
HMP shunt use glucose for NADPH and pentose production. d. Uronic acid pathway use
glucose for uronic acid production. e. Glucose is used for fat formation.
A finely regulated homeostatic mechanism maintains stable blood glucose level in which
liver, extra hepatic tissues and various hormones are involved. They maintain stable
glucose level either by affecting glucose sources or glucose removal.
Role of liver:Liver plays crucial role in maintenance of stable blood glucose level. Live rcells
(hepatocytes)are freely permeable to glucose. Movement of glucose across hepatocyte
membrane is not influenced by insulin. When blood glucose level rises liver brings down to
normal level by converting excess glucose into glycogen, fat and pentoses. Similarly when
blood glucose level is below normal liver rises blood glucose level to normal by forming
glucose from glycogen (glycogenolysis) and non carbohydrate sources (Gluconeogenesis).
Extra hepatic tissues involved in blood glucose regulation or homeostasis are skeletal
muscle, kidney and erythrocytes. These extra hepatic tissues are not freely permeable to
glucose.
Skeletal muscle:When the blood glucose level rises skeletal muscle lowers by converting
glucose to glycogen. If the blood glucose level falls below normal it indirectly contributes to
blood glucose by supplying lactate. During starvation muscle aminoacids particularly
alanine is used for glucose formation.
Kidney:When blood glucose level falls below normal kidney contributes to blood glucose
through gluconeogenesis. If the blood glucose level is above normal kidney brings down to
normal by eliminating glucose in urine.
Erythrocytes:When the blood glucose level is high they remove glucose through HMP
pathway, 2-3-bis phosphoglycerate cycle and glycolysis. If glucose level falls it contributes
to blood glucose by supplying lactate.
Hormones:Many hormones are involved in maintenance of stable blood glucose level.
Based on their action on blood glucose level they are divided in to two types. They are 1.
Hypoglycemic hormones and 2. Hyper glycemic hormones.
096
Hypoglycemic hormone
As the name implies this hormone lower blood glucose level. Insulin is the only known
hormone of this category.
Insulin :Insulin is secreted by beta cells of islets of Langerhans in response to increased
blood glucose level or hyperglycemia. Insulin plays crucial role in the regulation of blood
glucose level. It lowers blood glucose level by
a. Increasing up take of glucose by peripheral tissues like skeletal muscle and adipose
tissue. In the muscle excess glucose is converted to glycogen and in adipose tissue fat is
synthesized.
b. Increasing utilization of glucose by various pathways. Insulin increases rate of
glycolysis, HMP shunt, fatty acid synthesis, pyruvate dehydrogenase complex and
glycogenesis. At same time it decreases rate of glycogenolysis and gluconeogenesis.
Activitives of enzymes of glycolysis, HMP shunt, glycogenesis, fatty acid synthesis is
increased by insulin. Activities of enzymes of gluconeogenesis and glycogeneolysis are
decreased by insulin.
Hyper glycemic hormones
As the name implies these hormones raises blood glucose level. Glucagon, epinephrine
(norepinephrine), glucocorticoids, anterior pituitary hormones and thyroid hormones are
hyperglycemic hormones.
Glucagon:It is another hormone produced by pancreas. Alpha cells of islets of Langerhans
secretes this hormone in response to hypoglycemia. It is an antagonist of insulin. It
increases blood glucose level by a. Promoting gluconeogenesis in liver. b. Inhibiting
glycogenesis.
Epinephrinc (Nor epinephrine) : Adrenal medulla secretes these hormones in response
to hypoglycemia. It increases blood glucose level by a. Increasing gluconeogenesis in liver.
b. Inhibiting glycogenesis. c. Stimulating glycogenolysis.
Glucocorticoids: Adrenal cortex secretes glucocorticoids into blood stream. They
increase blood glucose level by a. Reducing glucose utilization by peripheral tissues. b.
Enhancing gluconeogenesis by inducing formation of enzymes of gluconeogenesis.
Anterior pituitary hormones:Anterior pituitary gland increases blood glucose level by
secreting two hormones. They are growth hormone and adereno corticotrophic hormone
(ACTH).
Growth hormone:Secretion of growth hormone occurs as response to hypoglycemia. It
increases blood glucose level by i. Inhibiting uptake of glucose by peripheral tissues. ii.
Promoting fat mobilization. iii. Liver gluconeogenesis.
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BIOCHEMISTRY -
ACTH: It increases blood glucose level by producing glucocorticoids and acting on glycogen
metabolism.
Thyroid hormone:Thyroxine increases blood glucose level by i. Affecting glucose
utilization by peripheral tissues. ii. Affecting glucose absorption in intestine.
1, 3 bis phosphoglycerate
2, 3-bis phosphoglycerate.
3-phosphoglycerate
Glycolysis.
Blood
Lactate
Liver
Lactate
Gluconeogenesis
Glycolysis
Glucose.
Blood
19. Define Diabetes mellitus. Classify. Write about each class. Mention
clinical and biochemical symptoms.
A. Diabetes mellitus is disease due to lack of action of insulin and characterized by elevated
blood glucose level and glucose in urine. There are two types of diabetes mellitus.
I. Type Diabetes mellitus or insulin dependent diabetes mellitus (IDDM) or Juvenile onset
diabetes mellitus :As the name implies it appears in young people. The age of affected
people is always below 30 years. It accounts about 20% of diabetic cases. Usually
individuals of this disease are thin or lean and appears as under nourished. It is due to
absence of insulin. Hence patients of this disease are treated with insulin injections.
098
ii. Type diabetes mellitus or non insulin dependent diabetes mellitus (NIDDM)or Adults
on set diabetes mellitus :As the name implies it appears in adults. The age of affected
people is always above 30years. It accounts about 80% of diabetes cases. Usually
individuals of this disease are obese. It is due to lack of insulin action i. e. insulin is
present but due to lack of insulin receptors its action is lost. Hence patients of this
disease cannot be treated with insulin injections.
Biochemical and clinical symptoms: In acute diabetic patients following biochemical
and clinical symptoms are seen. a. Hypoglycemia b. Glycosuria c. Polyuria d. Increased
hunger (Polydipsia) e. Increased thrist (polyphasia) f. Ketosis in type diabetes g. Weight
loss h. Delayed wound healing. i. Keto acidosis. j. Coma and death.
Severe Diabetes
200
Blood
Glucose
mg%
150
Mild Diabetes
100
Normal
50
0
30
60
90
Time
120
150
Normal glucose tolerance (response):The fasting blood glucose level is with in range of 6090mg%. The blood glucose level reaches a peak with in 30 to 60 minutes after consuming
glucose test dose. The peak value is 110-130mg%. The initial rise is due to absorption of
glucose. However increased blood glucose level returns to normal at the end of 2 hours due
to increased glucose utilization. None of the urine samples contain glucose because the
blood glucose level is below renal threshold for glucose which is 175mg%.
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BIOCHEMISTRY -
Decreased glucose tolerance :Diabetes mellitus is mainly responsible for the diminished
glucose tolerance. Fasting blood glucose values are above 120mg % and depends on
severity of disease. After test dose of glucose, blood glucose level rises sharply and extent of
increase is more than that seen in normal people. The most striking is high blood glucose
level even after 2 hours. In mild diabetes minimum one urine sample contains glucose. All
urine samples contain glucose in the case of severe diabetes. Decreased glucose tolerance
also occurs in Cushing's syndrome, thyrotoxicosis, hyper activity of pituitary gland and in
liver disease.
Increased glucose tolerance: Increased tolerance is seen in addison's disease, myxedema,
cretinism, hypopituitarism etc. In cases with impaired glucose absorption also increased
tolerance occurs. Sprue, celiac disease, and idiopathic steatorrhea are some intestinal
disorders associated with increased tolerance. Usually a flat glucose tolerance curve is
obtained.
101
Chapter
Lipid Metabolism
1. Name lipids present in diet. Explain how they are solubilized, digested
and absorbed?
A. Lipids present in the diet are triglycerides, phospholipids, Cholesterol and its esters, fatty
acids, glycolipids, carotenes and sterols other than cholesterol. They are present in plant
and animal food stuffs. They are vegetable oils, or cooking oils of plant origin and eggs,
meat, cheese, milk, butter and fat of animal origin.
Solubilization of lipids: Since lipids are insoluble in aqueous environment of lumen
digestion of lipids requires their initial solubilization. Bile salts present in bile are
responsible for solubilization of dietary lipids. Bile salts form emulsion with dietary lipids.
They increases surface of lipid at water inter phase for the action of enzymes.
Digestion of lipids
Lipid digestion : Hydrolysis of triglycerides, phospholipids and cholesterol esters to
glycerol, free fatty acids, mono acylglycerol and cholesterol is known as digestion of lipids.
In mouth :Due to lack of favourble conditions no digestion of lipid occurs in the mouth.
In the stomach :Mechanical emulsification of food lipids allows action of gastric lipase to
some extent. However acidic environment limit action of enzymes on lipids.
In the small intestine :Major part of lipid digestion occurs in small intestine by pancreatic
enzymes. Pancreatic juice contains lipase, cholesterol esterase and phospholipase. Lipase
as such not able to interact with emulsion particle containing dietary lipids. Colipase
which is also present in pancreatic juice and bile salts aids lipid digestion by lipase.
Pancreatic lipase hydrolyzes ester bonds of 1, 3 carbons of triglycerides. 2monoacylglycerol and free fatty acids are formed.
lipase
Triglyceride
Majority of 2-monoacylglycerol about 72% comes out of emulsion particle and forms mixed
micelles. The remaining about 28% is converted to 1-mono acylglycerol by an isomerase.
102
2-monoacylglycerol
mixed micelles
72%
Isomerase
2-monoacylglycerol
1-monoacylglycerol.
28%
Lipase act on 1-monoacylglycerol and hydrolyzes about 22% of monoacylglycerol to
glycerol and free fatty acids. The remaining 6%monoacylglycerol is absorbed as such.
Lipase
Absorbed
1-monoacylglycerol
6%
Cholesterol esters are hydrolyzed by cholesterol esterase to cholesterol and free fatty acids.
Phospholipase A2 hydrolyzes phospholipids ester bond on 2 carbon to form
lysophospholipid and free fatty acids.
cholesterol
Cholesterol ester
Phospholipase A2
Phospholipids
Lysophospholipase act on lysophospholipid and forms glycero phocholine and fatty acid.
Lysophospholipase
Lyso phospholipids
Lipid absorption
In the proximal part of jejunum 2-monoacyglycerol, free cholesterol, fatty acids,
lysophospholipids interact with bile salt micelles and forms mixed micelles. To the brush
border membrane mixed micelles carry these products of digestion where they are
absorbed through specific transporter present in enterocyte membrane.
Bile
Lysophospholipids + monoacylglycerol + cholesterol+ Free fatty acids
Salts Micelles
Specific
Mixed micelles
Brush border
Cytosol of enterocyte
Membrane
Transporter
2. Write the fate of absorbed lipids in intestine. Explain how they enter
circulation?
A. In the enterocyte of intestine mono acylglycerol, free fatty acids are converted to
triglycerides. Lysophospholipids are converted to phospholipids by esterification.
Cholesterol esters are formed from cholesterol and free fatty acids.
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BIOCHEMISTRY -
Triglycerides
Phospholipid
Cholesterol ester
In the enterocyte triglycerides, phospholipids and cholesterol ester formed combines with
proteins to form lipoproteins chylomicrons. These chylomicrons are released into lymph of
intestinal lymphatics. Due to absorption of dietary lipids intestinal lymph appears milky
and is called as chyle. Finally chylomicrons enters systematic circulation through thoracic
duct.
apo
Triglycerides, phospholipids, cholesterol ester
Chylomicrons
Lipoproteins
Intestinal lymphatics
Thoracic duct
Blood.
For the triglycerides and cholesterol ester synthesis only long chain fatty acid are used.
So absorbed short and medium chain fatty acids with glycerol directly enters portal venous
blood.
i. Fatty acid activation :It involves conversion of fatty acid into corresponding CoA form.
Acyl-CoA synthetases converts fatty acids to acyl-CoAs using ATP, CoASH and
magnesium ions. They are also called as thiokinases. They are present in outer
mitochondrial membrane. ATP is converted to AMP and pyrophosphate (PPi).
Pyrophosphatase converts pyrophosphate to phosphate.
Acyl-CoA
Pyro
Synthetase
phosphatase
Acyl-CoA + PPi
2Pi
Mg +
AMP
ii. Transport of acyl-CoAs into mitochondria : Acyl - CoAs are impermeable to inner
mitochondrial membrane. Carnitine translocates activated fatty acids from out side to
matrix of mitochondria. It begins with transfer of acyl-CoA to carnitine catalyzed by
carnitine acyl transferase- (CAT-) present in outer mitochondrial membrane. Acyl
carnitine is product of this reaction. Carnitine- acylcarnitine transloc present in inner
mitochondrial membrane translocates acyl-carnitine into matrix of mitochondria. In
the matrix of mitochondria carnitine-acyl transferase (CAT-) transfers acyl
residue to CoA from acyl carnitine and free carnitine is released. To complete the
translocation process translocase pumps back carnitine to out side of mitochondria.
Carnitine acyl trans
ferase- (CAT-)
Acyl-CoA+carnitine
Acyl-carnitine + CoA
Outer mitochondrial
Membrane
Trans locase
Acyl-carnitine
carnitine acyltransferase-
(CAT-)
Acyl-carnitine+CoA
Acyl-CoA+ carnitine.
Matrix of mitochondria
Translocase
Carnitine
iii. Beta oxidation of fatty acids : As the name implies fatty acid oxidation involves
sequential removal of two carbon fragments from carboxy terminus by cleaving fatty
acid at beta carbon. An acyl-CoA shorter by two carbon atoms and an acetyl-CoA are
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BIOCHEMISTRY -
Beta oxidation
Acetyl CoA + Acyl-CoA shorter by two carbons
Beta Oxidation
Acetyl-CoA.
Reactions :
1. First reaction of beta oxidation is dehydrogenation of acyl-CoA by FAD dependent acyl
CoA dehydrogenase. Acyl CoA is converted to enoyl-CoA and FAD H2 isformed.
2. Hydratase catalyzes addition of water across double bond in the second reaction.
hydroxyacyl-CoA is product.
Acyl-CoA
Dehydrogenase
Acyl-CoA+FAD
Hydratase
Enoyl CoA
-Hydroxy acyl-CoA.
(1)
(2)
FADH2
H2o
-ketoacyl-CoA+ NADH+H+
(3)
-ketothiolase
-ketoacyl-CoA+CoA
Acyl-CoA shorter by two carbons enters beta oxidation reactions and thus the cycle
continues until acetyl-CoA is produced from the acyl- CoA.
Energetics of beta oxidation: Energy production by beta oxidation process taking
palmitic acid as an example. Since palmitic acid is 16 carbon saturated fatty acid it
under goes beta oxidation process seven times and produces 8 Acetyl-CoA s, 7FADH2
and 7 NADH. Acetyl CoA is completely oxidized in citric acid cycle. FADH2 and NADH
are oxidized by respiratory chain.
Amount of ATP generated when palmitic acid is oxidized by beta oxidation.
106
08x12 = 96
07x02 = 14
07x03 = 21
131
-2
Net =
129
Therefore complete oxidation of palmitic acid produces 129 ATP molecules. As per
latest concepts only 106 ATPs are generated.
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BIOCHEMISTRY -
Reactions :
1. Ketogenesis begins with condensation of two acetyl Co A molecules catalyzed by
thiolase. Acetoacetyl-CoA is product.
Thiolase
2 Acetyl CoA
acetoacetate+ Acetyl-CoA.
2a
Acetone+CO2.
(4)
Significance : Under certain conditions citric acid cycle is unable to produce energy
from entire acetyl-CoA generated either from beta oxidation or pyruvate. This
excess acetyl CoA are converted to ketone bodies in liver. . Liver distributes ketone
bodies thus generated among various organs. So ketogenesis allow distribution of
108
excess fuel (Acetyl CoA) among organs. These ketone bodies produced in liver
reaches various organs through systemic circulation. They are taken by peripheral
tissues for utilization.
Ketolysis : Ketolysis is the degradation of ketone bodies. It occurs in cardiac
muscle, brain, kidney and to some extent by skeletal muscle.
Utilization of acetoacetate
Reactions :
1. Activation of aceto acetate is first reaction of its utilization. Acetoacetyl-CoA synthase
an ATP and magnesium dependent enzyme converts aceto acetate to corresponding
CoA. AMP and PPi are products. PPi is further hydrolyzed by pyrophospahtase.
2. Thiophorase or acetoacetate- succinyl-CoA transferase transfer CoA from succinyl
CoA to acetoacetate. This is another mode of activation.
Acetoacetyl-CoA
Synthase
Acetoacetate+ ATP +CoA
Acetoacetyl CoA + AMP+PPi
Pyro phosphatase
(1)
PPi
2Pi.
(1)
Thiophorase
Acetoacetate+succinyl- CoA
Acetoacetyl-CoA+ succinate.
(2)
A thiolase cleaves acetoacetyl CoA to two molecules of acetyl-CoA. These acetylCoA s are utilized by citric acid cycle.
Thiolase
AcetoacetylCoA+
2 acetyl CoA
CoA
(3)
TCA cycle
Energy
NADH+H+Aceto acetate
(1)
TCA
Cycle.
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BIOCHEMISTRY -
Synthetase
Dehydrogenase
- hydroxybutyryl -CoA
Acetoacetyl CoA.
(2)
(2)
CoA
The acetoacetyl-CoA is converted acetyl-CoA as described above.
-hydroxybutyrate
Utilization of Acetone
Utilization of acetone by peripheral tissues is slow. Usually it is removed in urine or as Co2
through lungs.
Significance : Some tissues like cardiac tissue and kidney prefers ketone bodies for energy
production than glucose. Ketone body utilization for energy production is more significant
in prolonged starvation.
Regulation of ketone body metabolism :
1. Ketogenesis largely depends on mobilization of free fatty acids.
2. CAT- is mainly involved in controlling ketone body formation. In fed conditions CAT
activity is more so more acetyl CoA is formed from beta oxidation. Hence ketogenesis
is more in starvation.
Medical importance :
1. Normal blood ketone body level is 1mg%. Under normal conditions ketone body
formation is balanced by their utilization. So ketone body level in blood remains
constant.
2. Ketosis: If ketogenesis is more than ketolysis accumulation of ketone bodies in blood
occurs. It is known as ketonemia. Excess ketone bodies are excreted in urine. It is
known as ketonuria. Ketonemia and ketonuria gives rise to ketosis. Symptoms are
headache, vomiting and coma. Kotosis occurs in i. Prolonged starvation. ii. Diabetes
mellitus iii. von Geirke's disease iv. Fever. v. Severe muscular exexcise.
3. Ketoacidosis: It occurs in uncontrolled diabetes mellitus and in prolonged starvation
due to depletion of blood bicarbonate. To maintain normal blood pH ketone bodies are
usually neutralized by bicarbonate buffer. But ketone bodies are produced in excess in
uncontrolled diabetes mellitus. So more bicarbonate is needed for neutralization and
blood bicarbonate depletion occurs. This leads to decreased blood PH i. e. Acidosis. The
condition is called as keto acidsis because acidosis is due to more ketone bodies.
110
ATP:Citrate
Synthase
lyase
AcetylCoA+ oxaloacetate
Citrate+CoA
Acetyl-CoA +
ATP
(2)
Oxaloacetate + ADP + Pi
3. Oxaloacetate is converted to malate by cytosolic malate dehydrogenase.
4. A cytosolic malic enzyme converts malate to pyruvate in presence of NADP+.
Malate
Dehydro
Malic
genase
enzyme
Oxaloacetate
Malate
(3)
+
(4)
+
NADH+H NAD
NADP
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BIOCHEMISTRY -
Monomer-1
Monomer-2
Cys
Pan
SH
SH
SH
SH
Pan
Cys
Malonyl-CoA+ ADP+ Pi
Biotin
Fatty acid synthase reactions :The availability of acetyl CoA, NADPH initiates fatty acid
synthase dependent reactions of de novo fatty acid synthesis.
1. First reaction of fatty acid synthase complex is transfer of acetyl CoA to Cysteine-SH
of fatty acid synthase complex which is catalyzed acetyl trans acylase.
Acetyl trans
Acylase
Acetyl CoA + Fatty acid synthase complex
Acetyl enzyme complex + CoA
(1)
2. A molecule of malonyl CoA is transferred to pan-SH of other monomer of fatty acid
synthase complex. Malonyl trans acylase catalyzes this reaction.
Malonyl trans
Acylase
Acetyl enzyme complex + malonyl CoA
Acetyl malonyl enzyme +CoA.
(2)
3. A condensing enzyme - ketoacyl synthase catalyzes condensation of acetyl and
malonyl groups. A keto acyl enzyme complex is formed. Cysteine SH group of the
monomer becomes free
ketoacyl Synthase
Acetyl molonyl enzyme complex
ketoacyl reductase
-ketoacyl enzyme complex +NADPH +H+
- hydroxyl acyl enzyme +NADP.
(4)
5. In this reaction a water molecule is removed from -hydroxyacyl enzyme by hydratase.
Enoyl enzyme is formed.
6. Another NADPH dependent reaction of enoyl reductase generates butyryl enzyme. The
four carbon butyryl moiety is on the phosphopantotheine-SH of enzyme complex.
Hydratase
Enoyl Reductase
- hydroxyacyl enzyme
Enoyl enzyme
Butyryl enzyme +NADP+.
(5)
(6)
H2O
NADPH+H+
7. All of the above multi enzyme reactions are repeated six times incorporating malonyl
CoA each time to generate palmitoyl moiety.
8. Finally palmitoyl moiety is released from multi enzyme complex by last enzyme of
complex thioesterase.
Thioesterase
Butyryl enzyme
palmitoyl enzyme
(7)
palmitic acid + fatty acid synthase complex.
(8)
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BIOCHEMISTRY -
The former reaction is catalyzed by kinase and latter is catalyzed by NADH dependent
dehydrogenase.
Glycerokinase
Glycerol
Dehydrogenase
Glycerol-3-phosphate
Dihydroxy acetone phosphate
(1)
ATP
(1)
NAD+
ADP
NADH+H+
2. Now incorporation of fatty acids into glycerol-3- phosphate occurs. Activated long chain
fatty acids of both saturated and unsaturated are used. Lysophosphatidate is product. Acyl
transferase catalyzes this reaction.
3. Another fatty acid incorporation leads to phosphotidate formation.
Acyl
Transferase
Glycerol-3- phosphate
Acyl
Transferase
Lysophosphatidate
(2)
Acyl-CoA CoA
phosphatidate.
(3)
Acyl-CoA CoA
Triglyceride+CoA.
(6)
Acyl-CoA
Mono or diglyceride
Mono or diglycerides
Glycerol+ free fatty acids.
Lipase.
Triglyceride breakdown is more in energy deficient and stress conditions. In starvation
and diabetes also triglyceride breakdown is more.
Action of hormones on lipolysis
Hormones like insulin, glucagon, epinephrine, nor epinephrine, glucocorticoids, growth
hormone etc. affects triglyceride breakdown. Glucagon, epinephrine and glucocorticoids
stimulates lipolysis. Insulin antagonizes lipolysis. As the name implies these hormones
affect activity of hormone sensitive lipase. It exist in two forms an active form and an
inactive form. Lipolytic hormones keeps this enzyme in active form by promoting cAMP
dependent phosphorylation. In contrast, insulin suppresses lipolysis by inhibiting
cAMP dependent phosphorylation.
Phosphorylation
Hormone sensitive lipase (inactive)
(+)
Epinephrine, glucagon etc
phosphorylation
(-)
of hormone sensitive
insulin
lipase
(+) activation (-) inhibition
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BIOCHEMISTRY -
Mevalonate
Reductase
Mevalonate phosphotransferase
(3)
2NADPH+2H
Mevalonate-52NADP
ATP
phosphate+ADP
6. An ATP dependent decarboxylation catalyzed by decarboxylase converts mevalonate5- pyrophosphate to isopentenyl pyrophosphate (IPP).
116
Decarboxylase
Mevalonate-5- pyrophosphate +ATP
Isopentenyl pyrophosphate +ADP +
(6)
Pi + Co2
7. Isomerization of isopentenyl pyrophosphate to dimethyl allyl pyrophosphate (DMAP)
by an isomerase occurs in this reaction.
Isomerase
Isopentenyl pyrophosphate
Squalene
mono Oxygenase
Squalene
Squalene-2, 3(10)
(11)
PPi
NADPH+H+O2
epoxide+NADP++H2O.
12. Formation of lanosterol by cyclization of squalene-2, 3 epoxide occurs in this
reaction. It is catalyzed by squalene oxidocyclase.
Squalene oxido
Squalene-2, 3- epoxide
cyclase
Lanosterol.
(12)
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BIOCHEMISTRY -
13. Removal of three methyl groups and double bond shifting leads desmosterol
formation from lanosterol.
14. Finally cholesterol is formed from desmosterol
Lanosterol
Desmosterol
(13)
cholesterol.
(14)
15. In the skin cholesterol is formed from lanosterol via 7-dehydro cholesterol.
Lanosterol
7- dehydrocholesterol
(15)
cholesterol.
(15)
The cholesterol ester formed migrates into core of HDL and transported to liver. In the
liver cholesterol is eliminated as bile acids. This cholesterol transport is known as
reverse cholesterol transport. HDL cholesterol is known as good cholesterol because
transport of peripheral tissue cholesterol by HDL to liver lowers plasma cholesterol
level.
118
119
10
Chapter
Proteoses + peptones.
pH 1. 5-2. 5
In the infant stomach rennin is present. It causes coagulation of milk.
In the small intestine : Small intestine is the major site of protein digestion. Succus
entericus of small intestine and pancreatic juice contains several proteases and peptidases.
These enzymes converts peptones and proteoses to amino acids. Proteases present in
pancreatic juice are trypsin, chymotrypsin, elastase, collagenase and carboxy peptidase.
Except carboxy peptidase all other proteases are endopeptidase. They act on peptones and
proteoses and convert them to oligopeptides.
Trypsin
Proteoses
chymotrypsin
Oligopeptides, peptones
Oligopeptides.
120
carboxy terminus and release one amino acid and polypeptide shorter by one amino acid.
The action of carboxy peptidase continues until a di peptide is formed.
Carboxy
Protein
carboxypeptidase
Di peptide
+Amino acids
Aminopeptidase is an exopeptidase and hydrolyzes peptide bond of oligo peptide from
amino terminus and releases an amino acid and oligopeptide shorter by one amino acid.
The action of amino peptidase continues on oligo peptide until it is converted to dipeptide.
Aminopep
Oligopeptide
Amino acids.
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BIOCHEMISTRY -
c. Hartnup disease : In this condition aromatic amino acid carrier in the intestine is
defective. So their absorption is blocked.
d. Pancreatitis : In this condition protein digestion is affected due to block in flow of
pancreatic juice which contains enzymes of protein digestion.
Pyruvate + glutamate
P. Po4
Aspartate
Aspartate +-ketoglutarate
Oxaloacetate + glutamate.
Transaminase
The amino group that is collected is removed from glutamate as ammonia by oxidative
deamination catalyzed by glutamate dehydrogenase.
Glutamate
Dehydrogenase
Glutamate +H2O + NADP+
-ketoglutarate + Ammonia + NADPH +H+.
B. Oxidative deamination :This type of deamination of amino acids is catalyzed by amino
acid oxidases. They are of two types.
a. D-amino acid oxidase b. L- amino acid oxidase. L- amino acid oxidase catalyzes
oxidative deamination of all amino acids except glycine and it is FMN dependent
enzyme. D- amino acid oxidase acts on glycine and it is an FAD dependent enzyme.
These enzymes first oxidizes amino acid to an imino acid which is followed by
hydrolytic loss of ammonia. Further they produce hydrogen peroxide.
122
L-Amino acid
oxidase
L- Amino acid
Imino acid
FMN FMNH2
D-Amino acid
oxidase
D- Amino acid
Imino acid
FAD FADH2
H2O
FMNH2 + O2
FMN + H 2 O2
FADH2 + O2
pyruvate + Ammonia
dratase
Cysteine
Cysteine
desulfhydrase
Threonine
Threonine
- ketobutyrate +Ammonia.
dehydratase
dehydrogenase
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BIOCHEMISTRY -
Alanine
Glutamate+ pyruvate
Transaminase
From the brain and other peripheral tissues ammonia produced is transported to liver in
the form of glutamine. Glutamine synthetase catalyzes this reaction.
Glutamine
Glutamate + ammonia +ATP
Glutamine +ADP+Pi.
Synthetase
Glutamate+Ammonia
Pyruvate +glutamate
-ketoglutarate +NH3.
124
2. Carbamoyl phosphate condenses with ornithine in the second reaction. The reaction
is catalyzed by ornithine trans carbamoylase and citrulline is the product.
Ornithine trans
Carbamoylase
Carbamoyl phosphate +ornithine
Citrulline +Pi.
(2)
Since cytosol is the site for remaining reactions of urea cycle citrulline comes out of the
mitochondria through a transporter present in mitochondrial membrane.
3. In the cytosol condensation of citrulline and aspartate yields arginino succinate. It is
catalyzed by arginino succinate synthetase and two high energy bonds are used. ATP is
hydrolyzed to AMP and PPi.
Arginino Succinate
Synthetase
Citrulline +aspartate + ATP
2Pi.
(3)
Arginine +Fumarate.
(4)
Urea +ornithine.
(5)
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BIOCHEMISTRY -
126
Glycine + -ketoglutarate.
P. Po4
127
BIOCHEMISTRY -
Serine dehydratase
Serine
pyruvate
hydroxymethylase
3. Oxidative deamination of glycine by D- aminoacid oxidase is third route of glycine
degradation.
Oxidative
D-amino acid
Glycine
decarboxylation
Glyoxalate
Formate
Oxidase
Co2
Biologically important Compounds formed form glycine
Glycine is required for the formation of many important compounds. They are 1. Heme
formation 2. Purine ring formation 3. Creatine formation. 4. Glutathione formation 5.
Hippuric acid formation. 6. Bile acid formation. 7. Collagen synthesis 8. Serine formation.
9. Glucose formation. 10. One carbon pool.
Diseases of glycine metabolism
Some inherited diseases are due to defective glycine metabolism. Deficiencies of enzymes
of Glycine metabolism affects glycine metabolism. Defective enzymes are produced by
defective genes. Some inherited diseases of glycine metabolism are
1. Glycinuria :In this rare genetic disorder glycine is excreted in urine even though
plasma glycine level is normal. Re absorption of glycine in renal tubules is defective due
to defective trans porter. Hence glycine excreted in urine.
2. Primary hyper oxaluria :In this condition excess amount of oxalate about 15-60mg/ day
is excreted in urine even though dietary oxalate is as usual. Glyoxalate utilization by
transaminase as well as its conversion to formate is blocked. Hence glyoxalate
accumulates and get oxidized to oxalate which is excreted in urine. Calcium present in
urine combines with oxalate to form calcium oxalate crystal. These crystals deposit in
the kidney and urinary tract. Therefore symptoms are bilateral urolithiasis due to
stones in both ureters, nephro calcinosis due to stones in kidney and recurrent urinary
tract infections. Affected individual die at child hood or early adult life due to renal
failure or hypertension.
3. Non ketotic hyper glycinemia :This condition is characterized by excess glycine in blood
and urine. Glycine synthase is defective in this condition. Symptoms are severe mental
retardation and death of affected occurs in infancy.
128
10.
Urocanase
Urocanic acid
4-Imidazolone-5- propionate.
(1)
(2)
NH4
H2O
129
BIOCHEMISTRY -
Hydrolase
(3)
Glutamate.
(4)
Formimino FH4
Pyruvate + sulfite.
2i
130
Transaminase
Cysteine sulfinate + -ketoglutarate
Desulfinase
Sulfinyl pyruvate
pyruvate + sulfite.
(2 ii)
(2 i)
ii. In another route sulfur of mercapto pyruvate is released as hydrogen sulfide.
(2 ii)
Mercapto pyruvate
Fate of sulfur of cysteine : In liver and kidney sulfide is converted to sulfite. Sulfite
oxidase present in liver mitochondria oxidizes sulfite to sulfate. This enzyme is coupled
to cytochrome c of electron transport chain through cytochrome b5. The sulfate is
excreted in urine
Sulfite oxidase
Sulphide
Sulfite
Sulphate
(1)
Urine.
(2)
O2
Some part of sulphate is converted to active sulphate PAPS. PAPS is donor of sulphate
for formation of sulfo lipids and glycosamino glycans. PAPS is also donor of sulphate
involving conjugation reactions of steroids, drugs etc. After conjugation with sulfate
they are excreted in urine and contributes to organic or ethereal sulfate of urine.
Sulfate +ATP
Urine
Steroids
PAPS
Sulfolipids
PAPS
Drugs
PAPS
Glycosamino glycans
Urine.
131
BIOCHEMISTRY -
2Pi.
(1)
2. Methyl transferase transfers methyl groups of SAM to an acceptor to form
S-adenosyl homo cysteine (SAH).
Methyl Transferase
S-adenosyl methionine +Acceptor
(SAH)
Methylated acceptor.
3. In this reaction an hydrolase converts S- adenosyl homo cyteine to homo cysteine
and adenosine.
Hydrolase
S-adenosyl homocysteine (SAH) +H2 O
132
Cystathionine
Synthase
Homocysteine+ Serine
Cystathionine.
P. Po4 (4)
Cysteine +Homoserine.
P. Po4 (5)
ketobutyrate + ammonia.
(6)
Propionyl- CoA+CO2.
(7)
16.
Succinyl-CoA
TCA cycle.
A. 1. Methyl groups of active methionine is used in the synthesis of several compounds and
detoxification reactions. Transfer of methyl group of active methionine by methyl
transferase to an acceptor is called as trans methylation. Examples of compounds
synthesized by trans methylation are given below.
1. Guanido acetate
Creatine.
2. Nor epinephrine
Epinephrine.
3. Acetyl serotonin
Melatonin.
4. Ethanolamine
Choline
5. DNA, RNA
BIOCHEMISTRY -
THB+NADP+
(1)
2. Tyrosine undergoes trans amination in this reaction. Para hydroxy phenyl pyruvate
is product.
Transaminase
Tyrosine+ -ketoglutarate
phydroxy phenyl pyruvate +glutamate.
(2)
134
135
BIOCHEMISTRY -
kynurenine +Formate.
H2 O (2)
136
kynureninase
Alanine +3- hydroxy anthranilic acid.
(4)
5. A dioxygenase opens phenyl ring of hydroxy anthranilate and inserts two oxygen atoms
to yield 2- amino -3- carboxymuconic acid semialdehyde.
Dioxygenase
3-hydroxy anthrarilic acid +o2
2-Amino-3-carboxy muconic acid semi
aldehyde.
(5)
6. Decarboxylation of product of above reaction by decarboxylase yield 2-Aminomuconic
acid semialdehyde. Co2 is released.
Decarboxylase
2-Amino-3-carboxy muconic acid semialdehyde
2- Amino muconic acid semi
(6)
aldehyde +Co2.
7. Semi aldehyde is converted to 2- amino muconic acid by NAD+ dependent
dehydrogenase.
dehydrogenase
2- amino muconic acid semi aldehyde +NAD+
2- Amino muconic acid
(7)
+NADH+H+
8. NADPH dependent reduction of 2- Amino muconic acid by a reductase yield -keto
adipic acid.
Reductase
2- Amino muconic acid +2NADPH+ 2H
-ketoadipic acid +2 NADP+.
(8)
+
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BIOCHEMISTRY -
-ketoacid
Dehydrogenase
-ketoadipate + CoA + NAD+
10.
11.
12.
An hydratase adds water to crotonyl CoA to yield beta hydroxy butyryl CoA.
This reaction is analogous to - oxidation reaction.
Decarboxylase
Glutaconyl CoA
Hydratase
Crotonyl CoA
-hydroxybutyryl-CoA.
(11)
(12)
Co2
13.
H2O
14.
2Acetyl-CoA
CoA
TCA cycle.
(14)
138
Transmethylase (SAH)
Transamidinase
Arginine
Creatine.
(1)
(2)
Glycine
SAM
Creatinine
Blood
Urine.
Pi
139
BIOCHEMISTRY -
140
11
Chapter
colorless molecules.
4. Light absorption : All porphyrins absorb light at 400nm as well as in visible region.
Light absorption property is used in identification of porphyrins.
141
BIOCHEMISTRY -
(l b)
CoA
Aminolevulinic acid + co2.
2. Formation of first pyrrole porphobilinogen (PBG) is the second reaction. It is catalyzed
by ALA dehydratase. It forms pyrrole ring by eliminating a water molecule from two
molecules of ALA.
ALA Dehydratase
-Aminolevulinic acid + Aminolevulinic acid
Porphobilinogen
(2)
(PBG)
H2o
3. Uroporphyrinogen synthase or porphobilinogen deaminase (PBG Dase) condenses
four PBG molecules in a step wise manner to form hydroxymethyl bilane.
PBGD ase
4porphobilinogen
Uroporphyrinogen
(4)
142
Uroporphyrinogen .
Coproporphyrinogen +4co2.
(5)
Protoporphyrinogen IX +2CO2.
(6)
Protoporphyrin IX.
(7)
8. Heme formation occurs in this reaction. Heme synthase catalyzes formation of heme
from protoporphyrin IX by inserting Fe2+ (Iron) in to protoporphyrin IX.
Heme synthase
2+
Protoporphyrin IX + Fe
Heme.
(8)
143
BIOCHEMISTRY -
144
Biliverdin Reductase
Bilirubin+ NADP+
Bilirubin formed in reticulo endothetial cells (REC) is released into circulation. Since free
bilirubin is insoluble in plasma albumin combines and forms complex. Further metabolism
occurs in liver. At sinusoidal surface of hepatocyte bilirubin dissociates from albumin and
enters hepato cyte which is mediated by a transporter present in membrane of hepatocyte.
Thus bilirubin enters cytosol of hepatocyte.
Albumin
Bilirubin
A
Sinusoidal Surface
Bilirubin Albumin complex
Bilirubin
albumin.
Transporter
Bilirubin
Now in the cytosol bilirubin is bound to ligandin and z or y protein which carries bilirubin
to microsomes where it is detoxified by conjugation with glucuronic acid.
Ligandin
Bilirubin in cytosol
Bilirubin in microsomes.
Z or y protein
First one molecule of glucuronic acid is transferred from UDP glucuronic acid catalyzed
by UDP glucuronyl transferase. Bilirubin monoglucuronide is product.
Transferase
Bilirubin +UDP glucuronic acid
BMG is converted to bilirubin diglucuromide (BDG) by adding one more glucuronic acid.
Transferase
BMG + UDP-Glucuronic acid
Intestinal metabolism of bilirubin
145
BIOCHEMISTRY -
Bilirubin + glucuronide.
Hydrolases
Bacterial
Enzymes
Bilirubin
Circulation
Urobilinogen
kidney
Urine.
Feces
Urobilinogen
Stercobilinogen
146
b. Hepatic jaundice: It is also known as hepato cellular jaundice. Because liver cell
damage is the main cause for this type of jaundice. Viral infections, toxins, chemicals
damage liver cells. Hepatitis virus, mushroom poisons, chloroform, carbon tetra
chloride and phosphorus damage hepatocytes. Antibiotics use and in cirrhosis also
hepatocytes are damaged. Functions of damaged hepatocytes are impaired. So
hepatocytes may not be able to conjugate or secrete bilirubin though the bilirubin
production is normal. If conjugation is impaired plasma level of unconjugated bilirubin
is elevated. If secretion of conjugated bilirubin is affected its level in plasma is
elevated. Hence in hepatic jaundice both conjugated and free bilirubin levels are
increased.
Post hepatic jaundice : It is also known as obstructive jaundice. Bile duct obstruction
causes this disease. Stones in gall bladder and cancer of head of pancreas cause bile
duct obstruction. Due to block in bile flow conjugated bilirubin secreted into bile
returns to blood. Hence conjugated bilirubin level is elevated in obstructive jaundice.
7. Write principle and types of van den Bergh reaction. How it is useful
in jaundice diagnosis.
A. van den Bergh Reaction
It is based on Ehrlich's reaction. It is used for measurement of plasma bilirubin. In this
reaction a purple red color is produced. It is due to coupling of bilirubin with diazo reagent
or diazotized sulphanilic acid.
Two types of van den Bergh reactions are known.
a. Direct van den Bergh reaction :It measures conjugated bilirubin only. In this reaction
purple color is produced when conjugated bilirubin reacts directly with diazo reagent.
b. Indirect van der Bergh Reaction :It measures un conjugated bilirubin only. In this
reaction purple color is produced when un conjugated bilirubin reacts with diazo
reagent in presence of methanol.
van den Bergh Reaction is used in differential diagnosis of jaundice. Since un conjugated
bilrubin is more in hemolytic jaundice indirect van den Bergh reaction is obtained with
this serum. In contrast direct van den Bergh Reaction is obtained with obstructive
jaundice serum. Therefore a positive indirect van den Bergh Reaction is used to confirm
hemolytic jaundice and positive direct van den Bergh reaction is used to confirm
obstructive jaundice.
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BIOCHEMISTRY -
tetramer. It consist of 4 polypeptide chains of two types. They are chains two and
chains two. Each polypeptide chain is attached to one heme group. chain consist of 141
amino acids and -chain consist of 146 amino acids.
Total 574 amino acids are present in hemoglobin molecule. It has molecular weight of
about 64, 400 daltons.
In each sub unit hydrophobic amino acids are present in interior. Hydrophilic amino acids
are present on outer surface which makes it soluble in water. Heme is in hydrophobic
interior. The sub units inter act in a unique way unlike sub units like 1, 1 and 2, 2 inter
act extensively and like sub units i. e 1, 2 ; 1, 2 interacts weekly. Over all shape is
spherical.
Function : It transports oxygen from lungs to tissues. One molecule of hemoglobin carries 4
molecules of oxygen molecules. Hemoglobin also transports co2 from tissues to lungs.
Hemoglobin serve as major blood buffer.
148
hemoglobin with altered composition. Only composition of and chains of globin part
is altered and prosthetic group remains unchanged. They are due to mutations in genes
coding Alpha and beta chains. Hemoglobin with altered composition is called as
abnormal hemoglobin or hemoglobin variant. In homozygous individuals only
abnormal hemoglobin is produced where as in heterozygous individuals both normal
and abnormal hemoglobins are produced. Production of abnormal hemoglobin triggers
hemolysis. Hence moderate to severe hemolytic anemia occurs in susceptible people
like infants, children, young girls and in pregnant women. Hb S, Hb E and Hb D are
some abnormal hemoglobins seen in hemoglobinopatheis.
b) Thalassemias are group of inherited diseases in which total synthesis of one of the
globin chain is blocked. Hence they are named according to synthesis of chain blocked.
They are of two types 1) - Thalassemia 2) - Thalassemia
1) - Thalassemia : In this condition - chain synthesis is blocked. So Hb A is not
formed. The -chain form abnormal HbH (4). So it is also known as HbH disease.
Further formation of abnormal HbH triggers hemolysis and anemia develops in
affected individuals.
2) - Thalassemia : In this condition -chain synthesis is blocked. Hence synthesis of
HbA is affected. The - chain is unable to form tetramer but forms large inclusion
(Heinz) bodies which triggers hemolysis leading to anemia in affected individuals.
The condition is called as Cooley's anemia or -thalassemia major in homozygotes
and -thalassemia minor in heterozygotes
Other model questions are
149
12
Chapter
Nucleotide Metabolism
1. Describe denovo synthesis of purine nucleotides.
A. Denovo purine nucleotide biosynthesis
Site:Liver cytosol contains all the enzymes required for purine nucleotide biosynthesis.
Purine nucleotide formation involves construction of purine ring on ribose phosphate.
Sources of purine ring : Purine ring is generated by incorporating carbon and nitrogen
atoms from various sources. Carbons 4, 5 and 7 are derived from glycine ; carbon 2 and 8
are derived from N-10 formyl FH4 and N-5, 10 methenyl FH4 respectively ; carbon dioxide
contributes to carbon 6, nitrogen 1 is from aspartate ; nitrogen 3 and 9 are from amide of
glutamine.
Aspartate
7 Glycine
N
6
C
Co2
1N
5C
2C
4C
C8
FH4
N3
FH4
N9
Glutamine
Reactions :
1. Phosphoribosyl pyrophosphate (PRPP) formation from ribose -5- phosphate is the first
reaction. PRPP synthetase catalyzes this reaction. ATP and Mg2+ are required. AMP is
formed from ATP.
PRPP
Synthetase
Ribose -5-phosphate +ATP
Mg 1)
2. Phosphoribosyl amido transferase catalyzes formation of phosphoribosyl amine by
transferring amide of glutamine.
150
Amido
Transferase
5-phosphoribosyl pyrophosphate +glutamine
Phosphoribosyl amine +
(2)
Glutamate +PPi.
51- phosphoribosyl 5-
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BIOCHEMISTRY -
51(9)
inosine
(11)
Adenylo succinase
Adenylo succinate
AMP + Fumarate.
(2)
152
dehydrogenase
IMP +NAD+ + H2O
GMP synthetase
XMP+ ATP +glutamine
GMP + glutamate +AMP +PPi.
(2)
Formation of ADP, GDP and ATP, GTP.
AMP +ATP
ATP; ADP
dADP
dATP
GMP +ATP
GTP ; GDP
dGDP
d GTP.
Dihydroorotate + H2o.
(3)
(4)
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5. Orotidine monophosphate (OMP) is formed from orotic acid in this reaction. Orotate
phosphoribosyl transferase catalyzes transfer of ribose -5- phosphate to orotate from
PRPP.
Phosphoribosyl
Transferase
Orotate +PRPP
Pyro phosphatase
PPi
2Pi.
6. First pyrimidine nucleotide uridine mono phosphate (UMP) is generated from OMP
by decarboxylase.
Decarboxylase
Orotidine mono phosphate
ADP +UDP
UDP +ATP
UTP + ADP.
d UDP
d UMP
d TMP
dTDP
dTTP.
GMP +PPi.
AMP + PPi.
AMP +ADP.
kinase
154
Guanosine
Guanosine + ATP
GMP +ADP.
kinase
TMP +PPi
Uracil +PRPP
UMP+ PPi
2Pi.
UMP +ADP
Deoxythymidine +ATP
deoxycytidine +ATP
dCMP +ADP.
d TMP +ADP.
155
BIOCHEMISTRY -
b) Lesch Nyhan syndrome :HGPRT ase is deficient in this condition. More of purine
nucleotides are produced. Symptoms are self mutilation, mental retardation, anemia
and hyper uricemia.
AMP
Nucleic acids
GMP
(1)
2. AMP is converted to inosine by two routes.
a. Deamination of AMP by adenylate deaminase followed by dephosphorylation.
Adenylate
Dephosphory
Deaminase
lation
AMP
IMP
Inosine + Pi.
2a
2a
NH3
deaminase
Adenosine
2b
Inosine +NH3
2b
pi
3. A nucleotidase converts GMP to guanosine.
Nucleotidase
GMP
guanosine +Pi.
3
4. Now inosine and guanosine are converted to xanthine by two separate routes.
a. Transfer of ribose by nucleoside phosphorylase followed by oxidation. Xanthine
oxidase (XO) catalyzes latter reaction.
Nucleoside
Phosphorylase
Inosine +Pi
156
Xanthine
Oxidase
Hypoxanthine + o2 + H2 O
Xanthine + H2 O2.
(4b)
Guanase
Guanine
Xanthine + NH3.
(4b)
5. Finally uric acid which is end product of purine degradation is formed from
xanthine by action of xanthine oxidase.
Xanthine oxidase
Xanthine + H2 O + O 2
8. Write normal plasma uric acid. Write about conditions with raised uric
acid level.
A. Normal plasma uric acid level is below 6mg%.
Gout : It is common disease of purine nucleotide degradation. Plasma uric acid level is
elevated which is characteristic sign of gout.
Symptoms : Deposition of uric acid crystals occurs in soft tissues because uric acid is less
soluble in aqueous environment of body fluids. Tophi is the name given to urate crystals
that are found in joints, cartilage of fingers and toes. Arthritic type gouty attacks occurs in
affected individuals.
Causes :
1. Over production of uric acid causes gout. Increased purine nucleotide production leads
to excessive uric acid production. It occurs in HGPRT ase deficiency, Hyper active
PRPP synthetase, leukaemia, von Gierke's disease and polycythemia.
2. Impaired removal of uric acid by kidneys causes gout. It is called as renal gout. It
occurs due to defective
glomerulonephritis.
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adenosine deaminase deficiency. Due to lack of this enzyme DNA synthesis is decreased
and lymphocytes do not mature. Affected persons are susceptible to infections.
158
13
Chapter
dna B
DNA dna A
Unwinding of DNA.
dna C
3. Single strand binding proteins (SSBP) bind to unwound DNA and stabilizes single
strand by preventing rewinding.
SSBP
DNA with a unwinding strand
4. Un winding of DNA creates super coils and prevent further unwinding. DNA gyrase
removes super coils by creating negative super coils which facilitates replication.
DNA gyrase
DNA un winding
Replication Favoured.
5. Another strand of DNA is also stabilized by SSBP. A replication fork is created.
Binding of SSBP
DNA with one
to another strand
Replication fork.
Unwound strand
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RNA poly
Replication
Fork of DNA
DNA polynease
RNA primer at
merase
replication fork
51 direction.
DNA polymeraseI
okazaki fragment
dNTPS
Gaps filled
11. RNA primers are removed by exonuclease activity of DNA polymerase .
REPLICATION FORK
3
Leading Strand
DNA
Polymerase
III
1
160
DNA
3
5
Okazaki Fragments
RNA Primer
unwinding
of Template strand.
3. RNA polymerase has two binding site. One for purine nucleotides and another for any
nucleotide. Assuming that ATP binds to purine nucleotide site and pyrimidine
nucleotide UTP binds to another site first phosphodiester bond formation occurs
between ATP and UTP. Thus chain growth is initiated. After this the sigma factor is
released.
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BIOCHEMISTRY -
ATP, UTP
Unwound Template strand
subunit released.
sigma
Elongation :
1. RNA polymerase continues polymerization of ribo nucleotide triphosphates
(rNTPs)as directed by template strand. DNA unwinds ahead of new RNA chain and
newly formed RNA or nascent RNA is base paired to templates strand.
RNA polymerase
New chain of RNA growth
Formation of new RNA or nascent RNA.
rNTPS
2. Rewinding of DNA leads to dissociation of nascent RNA from template strand
during elongation.
Rewinding of DNA
Nascent RNA
Dissociation of nascent RNA from template strand.
Termination :
1. Certain regions of DNA serve as signals for termination of RNA synthesis. They are
known as termination signals.
2. Formation of hair pin loop in nascent RNA occurs when termination signal is
transcribed by RNA polymerase.
Termination
Nascent RNA
Hairpin loop formation in nascent RNA.
Signal
Specific terminator protein Rho (e) recognizes hair pin loop in nascent RNA. This
terminator protein has helicase activity also. So it separates base paired nascent
RNA from template strand of RNA. This type of termination of RNA synthesis is
known as Rho (e) dependent termination. On terminatipon of RNA synthesis RNA
polymerase leaves DNA molecule.
Rho protein
Nascent RNA with
Separation of nascent RNA
Hair pin loop
transcription
Termination of
5
31
DNA
31
rm
y Fo
51
162
l
New
NA
ed R
51
31
RNA Polymerase
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4. Some codons do not code for any amino acid and they cause termination of protein synthesis.
They are known as termination codons or nonsense codons. They are UAA, UAG or UGA.
5. The codon is universal. Codon of an amino acid is identical in all species.
6. A codon codes only one amino acid. However an amino acid may have more than one codon.
7. Genetic code is comma less.
8. Base pairing occurs between bases of codon and anticodon.
2Pi.
Mechanism of Translation
Initiation:
1. It begins with binding of initiation factors (IFs) to 30S ribosomal subunit. Three initiation
factors are required. They are IF-1, IF-2 and IF -3. First IF-3 binds with 30S subunit. IF-2
combines with GTP to form IF-2-GTP complex. IF-1 and IF-2-GTP complex binds to IF-3
containing 30S ribosomal subunit.
30S ribosomal subunit +IF-3
30S-IF-3 -IF-1-IF-2-GTP.
IF-2-GTP.
2. Now mRNA and aminoacyl-tRNA (AA-tRNA)can bind to 30S ribosomal subunit containing
GTP and initiation factors. The mRNA
tRNA containing first amino acid AA1 -tRNA joins mRNA -30S subunit complex through
codon anti codon base pairing to form initiation complex. Release of IF-3 accompanies this
complex formation.
164
AA1- tRNA
30S-IF-3 -IF-1-IF-2-GTP+mRNA
m RNA-30S-IF-3-IF-1-IF-2-GTP
AA1-tRNA-mRNA-30S-IF-1-IF-2-GTP + IF-3
Initiation complex.
The initiation complex has high affinity to wards 50S ribosomal subunit and binds to one of
50S subunit from pool. Joining of 50S subunit with initiation complex causes hydrolysis of
GTP to GDP and Pi and release of IF-1 and IF-2 and leading to formation of 70S initiation
complex. In the 70S initiating complex peptidyl site or P site of ribosome is occupied by
initiating amino acyl-tRNA (AA1-tRNA)and aminoacyl site or A site of ribosome is free.
AA1-tRNA-mRNA-30S-IF-1-IF-2-GTP+50S
AA1-tRNA (P site)-A site (Free)-70S mRNA + GDP + Pi + IF-1 + IF-2
Initiation complex.
Elongation : By sequential addition of aminoacids new polypeptide chain is elongated. t RNA s
carry aminoacids. Elongation factors EF-Tu, EF-Ts, EF-G and GTP are required.
1. tRNA carrying second aminoacid (AA2-tRNA) to be incorporated cannot directly combine
with 70S initiation complex. It requires elongation factor EF-Tu and GTP. AA2 tRNA
combines with EF-Tu-GTP complex and interacts with 70S initiation complex. A site of
70S ribosome is occupied by AA2 tRNA with concomitant hydrolysis of GDP and Pi. EFTu-GDP complex dissociates from 705 ribosome.
AA2 -tRNA
AA1-tRNA (Psite)-A site -70S mRNA + EF-Tu-GTP
AA1 tRNA (Psite)-AA2 tRNA (Asite)-70S-m RNA + EF-Tu-GDP + Pi.
2. Presence of two aminoacyl tRNA s on P and A sites of 70S ribosome respectively leads to
first peptide bond formation. Peptidyl transferase activity of 50S ribosome subunit
catalyzes peptide bond formation between AA1 and AA2 Aminoacids. It is accompanied by
shifting of dipeptide (AA1-AA2) to A site of ribosome. The empty tRNA remains in P site.
Peptidyl
AA1 tRNA (Psite)-AA2-tRNA (Asite)-70S-mRNA
Transferase
tRNA (Psite)-AA1- AA2- tRNA (Asite)-70S-mRNA.
3. The incoming tRNA carrying third amino acid (AA3 tRNA) cannot bind to Psite. It can
bind only to Asite of 70S ribosome. So tRNA carrying dipeptide (dipeptidyl-tRNA or AA1AA2 tRNA)is translocated to free Psite in presence of elongation factor EF-G and GTP.
First EF-G combines with GTP to form EF-G-GTP complex. This complex inter acts with
70S ribosome. This leads to release of free tRNA from Psite and shifting of dipeptidyl tRNA
from Asite to Psite. During this shifting mRNA also moves by three nucleotides and third
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BIOCHEMISTRY -
codon appears in Asite. Hydrolysis of GTP to GDP and Pi provides energy for this process
and EF-G is released.
EF-G+GTP
EF-G-GTP complex.
EF-G-GTP
EF-Ts-EF-Tu + GDP
EF-Tu-GTP +EF-Ts.
leads to continuation of
elongation process is repeated many times adding one aminoacid each time until
termination codon is encountered in Asite.
Elongation repeated n times
AA1 AA2 - tRNA (Psite)-Asite -70S-mRNA
AA1 AA2 ------------- AAn tRNA (Psite)-A site -70S-mRNA
Termination :
1. Exposure of termination codon on Asite signals termination of polypeptide formation.
Releasing factors (RF)and GTP are required. There are three releasing factors RF-1,
RF-2 and RF-3. They recognizes termination codon on A site and bind to site where
tRNA binds.
2. Polypeptide chain is separated from tRNA by hydrolysis of ester bond. Ribosomal
peptidyl transferase activity of ribosomes causes this hydrolysis. Further GTP is
hydrolyzed to GDP and Pi. This results in release of mRNA and tRNA from ribosomes.
Dissociation of ribosomes to 30S and 50S subunits takes place immediately.
AA1- AA2 .............. tRNA (Psite)-Asite 70S mRNA + RF + GTP
AA1 AA2 .............. AAn-tRNA (Psite)RF- GTP (Asite)-70S-mRNA.
AA1- AA2 .............. + tRNA + 50S + 30S + mRNA + RF + GDP + Pi.
Polypeptide (Protein)
166
AA1
AA1
AA2
AA2
AA1
tRNA
AA2
31
5
Translocation
Elongation
51
lex
n Comp
itiatio
70S In
AAn
New Polypaptide
AA1
AA2
AAn
mRN
31
+
Termination
+
tRNA
31
51
AA3
30 S
50 S
51
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Regulato
Promo
Ry gene
operator
Structural genes
DNA segment
When repressor molecule is produced it binds to operator gene and prevents transcription
of structural genes by RNA polymerase. So enzymes of lactose metabolism are not
produced or repressed. This occurs in the absence of lactose. Therefore absence of lactose
causes repression of enzymes that utilize it. When the lactose is present it combines with
repressor molecule and form complex. This prevents binding of repressor to operator gene.
So operator gene is free. RNA polymerase binds to operator gene and transcribes genes of
lactose metabolism. As a result enzymes of lactose metabolism are produced or induced
and cells use lactose. Therefore in presence of lactose (inducer)enzyme induction occurs.
168
Restriction
Enzyme
Human DNA
Human DNA
with Stick ends
DNA
Ligase
Rest of DNA
Restriction
Enzyme
Recombinant DNA
Bacterial DNA
Bacterial DNA
with Sticky ends
Applications:
1. Recombinant DNA technology is popularly known as genetic engineering. It is used to
produce pharmaceuticals or drugs.
2. Hormone insulin, interferons, growth hormones, blood clotting factors etc. are produced using
recombinant DNA technology.
3. It is used for development of DNA vaccines.
4. Gene therapy is another area where principles of recombinant DNA is utilized.
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BIOCHEMISTRY -
4. PCR is used for prenatal diagnosis of genetic diseases a which are due to alterations in DNA
like sickle cell anaemia, hemophilia etc.
5. PCR is used to detect certain cancers like leukemia, thyroid cancer etc.
6. PCR is used for tissue typing which is essential for organ transplantation.
7. In the forensic work amplification of little DNA recovered from the suspect or from the crime
site by PCR allows generation of sufficient DNA for finger printing.
8. DNA recovered from archaelogical materials (sites) is amplified by PCR and used to study
evolution or civilization.
9. PCR can be used to create extinct animals like dinosaurs by amplifing DNA recovered from
fossil materials.
DNA to be
Amplified
Strand
Separation
Primers
Taq DNA
Polymerase
2nd Cycle
3rd Cycle
4 Strands
16 Strands
8 Strands
170
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BIOCHEMISTRY -
172
CHAPTER - 14 | Vitamins
14
Chapter
Vitamins
1. Define vitamins. Classify. Give examples for each class.
A. Vitamins are small organic molecules which are not synthesized in the body and hence
must be present in diet. They are classified into
a. Fat soluble vitamins and b. Water soluble vitamins.
Fat soluble vitamins are Vit. A, Vit. D, Vit. E and Vit. K. Water soluble vitamins are Vit.
C and members of Vit. B complex. B complex vitamins are thiamine or Vit. B1,
riboflavin, niacin, pyridoxine, folic acid, cyanocobalamin or Vit. B12, Biotin and
pantothenic acid.
BIOCHEMISTRY -
Isomerism : Due to presence of double bonds in side chain Vit. A exhibits isomerism. The two
isomeric forms are all trans retinol and 11-cis retinol.
CH2OH
RETINOL
Nerve impulse.
Photons
The all trans retinal is reduced to all trans retinol by NAD dependent reductase. A small amount
of all trans retinal may be isomerized to 11-cis retinal by an isomerase.
Isomerase
11-cis-retinal
Reductase NADH
Rhodopsin
However for normal vision this small amount of rhodopsin is inadequate so constant supply of Vit.
A1 is required for total regeneration of rhodopsin. From circulation rod cells take up all trans
retinol and isomerize to 11-cis retinol by isomerase
rod cells
Diet
174
Blood
11-cis-retinol.
CHAPTER - 14 | Vitamins
In retina an NAD+ dependent alcohol dehydrogenase converts 11-cis- retinol to 11-cis retinal.
Dehydro
Genase Retina
+
11-cis-retinal + NADH+ + H +
11-cis-retinol +NAD
With availability of 11-cis- retinal in sufficient quantities more of rhodopsin is formed in retina.
Retina
11-cis-retinal+opsin
Rhodopsin
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BIOCHEMISTRY -
vegetables like carrot, pumpkin, sweet potato, tomato and bottle gourd are good sources. Yellow
fruits like mangoes, papaya, pineapple, jackfruit, bananas, oranges also contain vit. A.
Animals : In animal foods vit. A is present as retinol esters. Fish liver oils like halibut liver oil,
shark liver oil and cod liver oil are excellent sources. Liver of poultry and farm animals contain
vit. A. Dairy products buttermilk and eggs also contain vit. A.
Daily allowance : Adults : 2500 International units, one international unit=0. 3g; 750ug of
retinol or 3mg carotene.
CH2
CH2
HO
HO
Ergocalciferol Vit. D2
Functions :
1. 1, 25-dihydroxy cholecalciferol is physiologically active form of vit. D. It is also known as
calcitriol.
Synthesis of calcitriol : In liver cytochrome P450 dependent hydroxylase forms 25-hydroxy
cholecalciferol from cholesterol.
Liver
Cholecalciferol + NADPH+O2
1, 25-dihydroxy
176
CHAPTER - 14 | Vitamins
2. Calcitriol increases calcium and phosphate absorption in the intestine. In the intestine
calcium absorption by calcitriol is promoted by two mechanisms.
a. In the intestine calcitriol increases synthesis of calcium binding proteins (CBP)which
promotes calcium absorption. From the plasma calcitriol enters intestinal cells. In the
cytosol of enterocyte it combines with receptor to form complex.
Receptor
Plasma
Enterocyte
calcitriol
This complex migrates into nucleus and interacts with DNA. As a result expression of gene
of calcium binding protein occurs.
Nucleus
Calcitriol- receptor
Transcription
mRNA of CBP
complex.
Translation
mRNA of CBP
Lumen
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BIOCHEMISTRY -
Daily allowances : Adult : 5ug of vit. D or 200 international units. Pregnant and lactating
women : 10ug or 400 international units.
HO
a - Tocopherol
Functions :
1. Vit. E functions as biological antioxidant. It is present in high concentrations in tissues
that are exposed to high oxygen tension like lungs, eyes and erythrocytes. It act as free
radial scavenger. It is present in membranes of cells, cell organelles and in cytosol. Protects
membrane lipids particularly poly unsaturated fatty acids (PUFA) from peroxidation by
peroxy radical. Peroxyradical is formed from PUFA in the membrane. PUFA peroxy
radical initiates free redial chain reaction. Tocopherol eliminates peroxy radical and thus
protects membrane lipids.
Peroxy radical + Tocopherol
CHAPTER - 14 | Vitamins
3. Vit. E Deficiency causes muscular dystrophy in animals like rat, rabbit, lamb etc.
Sources : Vegetable oils like ground nut oil, rice bran oil, sunflower oil, cotton seed oil, mustard
oil, palm oil and cereal germ oils like wheat germ oil, corn germ oil are good sources.
Daily requirement : Adults : About 10mg of vit. E per day. In pregnancy and lactation about 1213 mg of vit E is required pe day.
2 retinal.
O2
cholecalciferol.
3
Vit. K1
Functions :
1. Vit. K is required for post translational modifications of blood clotting factors like
prothrombin, proconvertin, stuart factor and christamas factors.
2. It is required for carboxylation of these blood clotting factors. Gamma carbon of glutamate is
site of carboxylation. Hence it is also known as g- (Gamma) carboxylation. A carboxylase adds
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BIOCHEMISTRY -
carbon dioxide to gamma carbon of glutamate (glu) residue of clotting factors in presence of
reduced vit. K1 to form gamma carboxylated glutamate (gla). Vit. K1 is converted to epoxide.
Carboxylase
Glutamate (glu) + Reduced vit. K1 + co2 + o2
This post translational modification is essential for blood clotting. It promotes binding of
calcium to gamma carboxyl groups of prothrombin. This leads to conversion of prothrombin to
thrombin. This vit. K dependent Carboxylation is known as vit. K cycle.
3. Another calcium binding protein osteocalcin in bone also under goes vit. K dependent gamma
carboxylation of glutamate residues. A vit. K dependent carboxylase catalyzes this reaction.
Vit. K deficiency symptoms
1. Rare in adults. However in pre Mature babies vit. K deficiency occurs. Main symptom is
haemorrhage due to increased prothrombin time.
2. Prolonged use of antibiotics may produce vit. K deficiency in adults.
Sources : Green leafy vegetables like cabbage, spinach, turnipgreens, cauliflower, green peas
and soybean peas are good sources. Poultry products like eggs, liver dairy products like cheese
and butter are also good sources.
Daily requirement : Adults : 70-140mg/day, pregnancy and lactation 150-200 mg/day.
Dehydroascorbic acid
High temperature, acid and alkali promotes oxidation. Oxidized vit. C is functionally
less active.
180
CHAPTER - 14 | Vitamins
Functions :
C
|
HO C
O
HO C
|
C
|
HO C H
|
CH2OH
Ascorbic Acid
or Vit. C
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BIOCHEMISTRY -
S
CH3 N
Thiamin Diphosphate (TDP)
a- ketoadipate
Succinyl CoA
TPP
Glutaryl-CoA.
TPP
Transketolase
sedoheptulose-7- phosphate
TPP
182
CHAPTER - 14 | Vitamins
CONH2
N
Niacin
Adenine Ribose O P O P O Ribose - Nicotinamide (Niacin)
Nicotinamide Ademine Dinucleotide (NAD)
a. Some NAD dependent enzymes are malate dehydrogenase, isocitrate
dehydrogenase, glyceraldehyde-3- phosphate dehydrogenase etc.
b. NADP dependent enzymes are glucose -6- phosphate dehydrogenase, glutamine
reductase etc.
Deficiency symptoms :
1. Pellagra is deficiency symptom of niacin in man. It is common in maize eating
countries. Dermatitis, diarrhea and dementia are characteristic symptoms of pellagra.
2. Niacin deficiency in experimental animals causes black tongue.
3. In some cases stomatitis and glossitis i. e. Inflammtion of oral cavity and tongue.
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BIOCHEMISTRY -
CH2OH
CHO
CH2OH
HO
H3C
Pyridoxine
CH2-O-(P)
HO
H3C
Pyridoxal Phosphate
184
CHAPTER - 14 | Vitamins
H2N
CH2 N
H
C N Glutamate
H
OH
Folic Acid
Synthesis of FH4 : An NADPH dependent dihydrofolate reductase reduces folic acid to
tetrahydrofolic acid in two steps. Dihydrofolic acid is intermediate.
Reductase
+
Reductase
Dihydrofolic acid
Tetrahydrofolic Acid.
FH2
NADP
NADPH+H+
FH4 + NADP+.
1. FH4 actas carrier of one carbon units. It carries one carbon moieties like methyl, formyl,
formimino and formate groups. In degradative pathways FH4 with one carbon unit is
generated. In anabolic pathways one carbon is transferred to an acceptor.
Transferase
a. Formimino glutamate+FH4
b. Methyl FH4 +cobalamin
c. Formyl FH4
C -2 of Purine ring
d. Methenyl FH4
Deficiency symptoms :
1. Megaloblastic anaemia is major folic acid deficiency in man. Folic acid deficiency
affects rapidly growing cells like bone marrow cells, intestinal cells because nucleotide
formation requires folic acid.
2. Thrombocytopenia
3. Macrocytic hyperchromic anemia and leucopenia
4. Diarrhoea and weakness
5. Growth impairment, intestinal ulceration and anemia are deficiency symptoms in
experimental animals.
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BIOCHEMISTRY -
Co
Methyl Cobalamin
Through a receptor mediated mechanism this complex is absorbed in the ileum. The
complex dissociates in ileal cells to IF and Vit. B12.
Receptor
Vit. B12 IF
Vit. B12 IF
Ilealcells
Vit. B12 + IF
A Vit. B12 Transport protein known as transcobalamin in ileal cells transport Vit. B12 to
various tissues of the body.
Transcobalamin
Vit. B12 in ileal cell
Functions :
Tissues
cobamide coenzymes. Two cobamide common enzymes are methyl cobamide or methyl
cobalamin and deoxy adenosyl cobamide or deoxy adenosyl cobalamin.
1. Methyl cobalamin is coenzyme of methionine synthesis.
Methionine Synthase
Homocysteine +Methyl-cobalamin
Methionine +cobalamin.
2. Methyl malanonyl CoA mutase requires deoxy adenosyl cobalamin as coenzyme.
Methylmalonyl CoA
186
Succinyl CoA.
CHAPTER - 14 | Vitamins
Deficiency Symptoms :
1. Megaloblastic anemia with neurological disturbances is main symptoms of Vit. B12
deficiency. In Vit. B12 deficiency methionine sythesis is blocked. So neurotransmitter
formation is affected. This results in neurogical problems like numbness in feet and
hands and spinal cord degeneration.
2. Since Intrinsic factor is required for Vit. B12 deficiency lack of this factor also causes vit.
B12 deficiency. However it is called as pernecious anemia. Here also three systems like
erythropoietic, gastro intestinal and neurological system are affected.
Sources : Vit. B12 is present mainly in animal sources. Organ meat like liver, kidney,
brain, dairy products eggs and fish are good sources. Milk and milk products also
contain this vitamin.
Daily requirement : 3mg per day.
Cysteinylation
phosphopantothenate
De carboxylation
Phosphopanto theinyl cysteine
Adenosylation
Phosphopantotheine
DephosphocoenzymeA
phosphopantotheine
Dephosphocoenzyme A
coenzymeA (CoA).
Deficiency : Burning feet, fatigue, restlessness and abdominal cramps are noticed in
experimentally deficiency induced human subjects.
2. In other animals experimental pantothenic acid deficiency causes dermatitis, growth
impairment and neurological symptoms.
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CHAPTER - 15 | Minerals
15
Chapter
Minerals
1. Define minerals. Classify. Give examples for each class.
A. Minerals are small inorganic molecules. They are not produced in the body. So diet is main
source. Based on requirement they are classified into.
a. Bulk minerals : Are those minerals that are required in more than 100 mg per day.
They are calcium, phosphorus, sodium, potassium, chloride and magnesium.
b. Trace minerals : Are those minerals that are required in less than 100 mg per day.
They are iron, iodine, fluorine, manganese, copper, zinc, selenium, molybdenum, cobalt
and chromium.
BIOCHEMISTRY -
1. Calcium binding protein (CBP) : In the intestinal cells calcium binding protein is
synthesized. Calcitriol promotes synthesis of this protein. This protein is known as
calbindin and increases calcium absorption in the intestine.
2. Dietary calcium and phosphorus ratio affects calcium absorption. High phosphate
decreases calcium absorption.
3. High fibre in diet interferes with calcium absorption.
4. PH or hydrogen ion concentration : Calcium absorption requires acid or neutral PH.
Calcium absorption is less under alkaline or high PHconditions.
5. Calcium absorption depends on fat digestion and absorption. If fat digestion and
absorption are impaired then calcium absorption is decreased.
6. Calcium absorption is affected by protein content in diet. Low protein in diet
decreases calcium absorption. High protein in diet increases calcium absorption.
7. Calcium absorption is decreased in presence of salts of oxalates. Because calcium
combines with oxalates and forms insoluble calcium oxalate.
8. Calcium absorption is decreased if phytic acid is present. Cereals of diet contains
phytic acid.
Functions : Calcium is involved in several important physiological processes.
1. Calcium is required for muscle contraction.
2. Neurotransmission is dependent on calcium.
3. Bone and teeth formation requires calcium. Calcium is major constituent of bone and
teeth.
4. Blood clotting is another process depends on calcium. During blood clotting calcium is
required for conversion of prothrombin to thrombin.
5. Actions of several hormones are mediated through calcium. Hence calcium is known as
secondary messenger of hormone action.
6. Calcium is required for cell motility involving cellular activities like mitosis, migration etc.
7. It is required for action of cytosolic calcium dependent proteases calpains.
8. Many enzymes requires calcium for their action. For example enzymes of HMP shunt like
glucose -6- phosphate dehydrogenase, lactonase, phosphogluconate dehydrogenase etc.
9. Enzyme activation also dependent on calcium. For example trypsin activation occurs in
presence of calcium.
10. In some marine organisms calcium triggers bioluminescence. Jelly fish exhibits this
property.
11. Calcium is involved in membrane structure and function.
12. Membrane transport requires calcium. Membrane integraty is maintained in presence of
calcium.
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CHAPTER - 15 | Minerals
release of PTH.
Low plasma calcium level
Calcium receptors
G- Protein
G-proteins
Calcium stores
Phospholipase C
Inositol triphosphate (IP3)
Increased
Calcium channels
Calmodulin
Intracellular calcium
calcium calmodulin
More cAMP
PTH release.
complex.
Para thyroid actions : A receptor present in membrane surface transport PTH into target
cells. PTH target tissues are bone, kidney and intestine. It increases plasma calcium level by
acting on these organs In bone it increases movement of calcium from bone by promoting
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BIOCHEMISTRY -
dissolution of bone matrix. This action of PTH is mediated by cAMP. By acting on adenylate
cylase PTH increases cAMP. In the kidney PTH increases calcium reabsorption. In the
intestine PTH
calcitriol also promotes calcium absorption in the kidney. Thus the combined actions of PTH
and calcitriol raises plasma calcium level to normal. With restoration of plasma calcium level
to normal actions of PTH and calcitriol are inhibited.
PTH
bone
PTH
calcitriol
Calcitriol
kidney
Release of calcium
192
CHAPTER - 15 | Minerals
8. Formation of some water soluble vitamins coenzymes involves phosphate like TPP,
pyridoxal phosphate etc.
9. Several cellular functions as well as enzyme regulation involves addition or removal of
phosphate.
10. Degradation of several compounds involves phosphate containing intermediates.
11. Second messenger molecules cAMP, cGMP are phosphate containing substances.
12. Milk protein casein is phosphoprotein i. e. phosphate containing conjugated protein.
BIOCHEMISTRY -
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CHAPTER - 15 | Minerals
Acidic pH
Plant foods iron
vit. C
ferric iron
Ferrous iron
Enterocyte
Anlmal food iron
ceruloplasmin
Ferrous iron
Ferric iron
Transferrin
Apo transferrin
Storage of iron : Liver. spleen, bone marrow and intestine are the organs where iron is
stored. These tissue contain iron storage protein apo ferritin. It combines with ferric iron to
form ferritin and stored.
Fe3+
Apoferritin
Ferritin
storage.
Functions :
1. Iron is required for the formation of hemoglobin, myoglobin and cytochromes.
2. Hemoglobin and myoglobin transport oxygen. Oxygen is attached to iron of these
molecules.
3. Cytochromes iron is involved in electron transfer or oxidation reduction reactions.
4. Iron is required for the formation of iron sulfur proteins.
5. Iron of these proteins participate in oxidation reduction reactions.
6. Iron is constituent of several enzymes.
7. Tryptophan dioxygenase, homogentisic acid oxidase, xanthine oxidase, catalase,
cytochrome p 450 hydroxylase enzymes etc are examples for iron containing enzymes.
8. Lactoferrin present in milk is iron containing protein.
Deficiency : Since iron is essential for production of blood anemia is main symptom of iron
deficiency. Popularly it is called as iron deficiency anemia. Skin of affected people acquires
pale yellow color. Microcytic hypochromic erythrocytes are seen in blood. Usually children,
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pregnant women, adolescent girls are susceptible to this disease. Other clinical symptoms
are fatigue, breathlessness and giddiness. It is major nutritional problem in developing
countries.
Sources : Green leafy vegetables like spinach, coriander leaves, palak etc and cereals,
legumes and jaggary are good sources. Organ meat like liver, kidney, spleen etc and farm
products like eggs and fish are fair sources.
Daily requirement : 10mg/day, females : 18mg/day. In pregnancy and lactation it is about
30mg/day.
Mental disturbances, hypothyroidism and iodine induced hyper thyroidism are other
symptoms of iodine deficiency.
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CHAPTER - 15 | Minerals
BIOCHEMISTRY -
Skeletal fluorosis : Knock knees or genu valgum is main skeletal deformity seen. Major joints
becomes stiff and painful. Neurological disturbances due to spine deformities also occurs.
Defluoridation : It is process used to remove excess fluorine present in drinking water. Several
defluoridation equipments and portable units are developed by various agencies. Most of them
use absorbents and activated charcoal to eliminate excess fluorine from water.
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16
Chapter
BIOCHEMISTRY -
elimination of water through kidney. These mechanisms bring back water content to
normal state. Thus the body water content of healthy adult is maintained.
Diseases of water balance :
1. Edema : Excess water in body leads to edema. It is also known as over hydration. It
occurs in excess secretion of ADH, water intoxication, cancer, drugs and overdose of
intravenous fluids.
2. Dehydration : In this condition water content of body is decreased. It occurs in vomiting,
diarrhoea, hypothalamus lesions, diabetes insipidus etc.
The carbonic acid formed is weak acid compared to acetoacetate. So blood pH changes very
little and ratio of bicarbonate and carbonic acid alters. This is restored to normal level or
ratio by eliminating carbonic acid from lungs. Thus the ratio of bicarbonate and carbonic
acid returns to normal and blood pH remains 7. 4.
2. Phosphate buffer and protein buffer : These buffers are present in blood at low
concentrations. Hence their role in blood pH regulation is limited. However at normal
blood pH phosphate buffer is found as more effective than bicarbonate buffer.
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Filtrate
H2CO3
H2O + Co2
In tubular cells carbonic anhydrase rehydrates carbon dioxide to carbonic acid which
dissociates to bicarbonate and proton. The bicarbonate diffuses into blood.
Carbonic
Co2 + H2 o
H2CO3
An Hydrase
HCO3
H
Blood plasma
202
mono sodium dihydrogen phosphste (NaH2 PO4) which is excreted in urine. Due to this the
urine pH becomes acidic in distal tubules lumen.
HCO3NaHPO4
Distal tubular cells
H2CO3
NaH2 PO4
Urine
luman
Ammonia excretion : By eliminating ammonia in urine kidney plays important role in acid
base balance. In renal cells ammonia is released from glutamine by the action of
glutaminase enzyme. Glutamine enters renal cells from blood plasma.
Plasma
Glutamine
Glutaminase
renal cells
Ammonia
Glutamate
Ammonia formed in renal cells diffuses into lumen where it combines with proton to
form ammonium ion. The presence of ammonium ion makes urine acidic.
Proton
Ammonia
Ammonium ion
Urine
Acidic Urine.
Lumen
Thus kidney regulates blood pH by absorbing bicarbonate, eliminating hydrogen ion and
excreting ammonium ion. Further kidney also recover sodium along with bicarbonate.
Therefore kidneys are not only involved in acid base balance but also in electrolyte balance.
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1. Metabolic acidosis : Most common acid base disturbance is metabolic acidosis. More
acids are produced by metabolism. This leads to decreased bicarbonate concentration.
It occurs in uncontrolled diabetes mellitus and starvation. Loss of bicarbonate due to
diarrhoea and vomiting also cause metabolic acidosis. Increased elimination of
bicarbonate by kidneys also leads to metabolic acidosis. Ingestion of acids and
decreased elimination of proton by kidneys also leads to metabolic acidosis.
2. Respiratory acidosis :
Plasma partial carbon dioxide pressure is more due to abnormal lung function.
Decreased respiration or hypoventilation occurs due to depression of respiratory
centre. Sedatives like morphine and barbiturates depress respiratory centre.
Hypoventilation also occurs due to obstruction to air passage. In pnumonia,
emphysema, asthma air passage is narrowed. Therefore respiratory acidosis occurs
in diseases of lung and respiratory centre depression.
b. Alkalosis : It occurs due to high blood pH. It is due to accumulation of alkali. It is further
subdivided into 1. Metabolic alkalosis 2. Respiratory alkalosis.
1. Metabolic alkalosis : Bicarbonate concentration is more in blood. It occurs due to
loss of HCl. More HCl is lost in prolonged vomiting. Excessive excretion of ammonia
by kidney also leads to metabolic alkalosis. Ingestion of alkali cause metabolic
alkalosis.
2. Respiratory Alkalosis : Partial pressure of carbon dioxide is less. It occurs due to
hyperventilation. When respiratory centre is stimulated hyperventilation occurs.
Hyper ventilation occurs at high altitudes, head injury, drug poisoning, fever and
anxiety.
Other model questions are
9. Blood buffers
10. Role of kidneys in acid base balance
11. Acidosis
12. ADH
13. Water intoxication.
14. Alkalosis
15. Serum electrolytes
16. Normal levels of electrolytes in blood
17. Write normal blood PH range. Explain mechanisms of its regulation.
18. Metabolic acidosis
19. Respiratory acidosis
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17
Chapter
205
BIOCHEMISTRY -
2. Lipids. 3.
BIOCHEMISTRY -
may contribute to more i. e about 40-50% of energy requirement. Fat of plants as well as
animal origin is present in diet. Animal fat tissue (Adipose tissue) is major source for
fat in diet.
Ground nut oil, rice bran oil, sunflower oil, coconut oil, soybean oil, corn oil, palm oil
etc are other oils that contributes to fat in diet. Further nuts, cereals and pulses of food
also contain lipid. Triglycerides, fatty acids, phospholipids and cholesterol are lipids
present in dietary fats. Animal foods are rich in cholesterol. Other functions of dietary
fat is to supply essential fatty acids and fat soluble vitamins. Fat reduces size of diet
and improves palatability of food. Dietary fat is immediate source of energy also apart
from glucose. Further dietary fat is responsible for fullness feeling.
Daily requirement : Diet must contain about 30-50gm of fat per day. And 5gm of
essential fatty acids.
3. Proteins : Protein in diet supplies about 10-15% of energy demand of body. However in
rich industrialized countries proteins contributes more to energy requirement. In the
case of low income people of developing countries protein contributes to less of energy
requirement. Animal meat, fish, eggs, milk, cereals and pulses are sources for protein
in diet. Vegetables and fruits contain less of protein. Main function of dietary protein is
to replace protein lost due to turn over. By supplying essential amino acids dietary
proteins replaces nitrogen lost from the body. Another function of dietary protein is
maintenance of nitrogen balance.
Daily requirement : About 70gm of protein is required per day.
208
drought, earth quakes, sunamies etc may cause malnutrition in general population.
Children and pregnant women are most susceptible. Two types of malnutrition are well
known. They are a. Marasmus b. Kwashiorkor.
Marasmus : It occurs due to consumption of food low in protein and calories. Children
below 2years of age are most affected. Weight of children affected with disease is below
60% of normal. It is due to feeding infants diet low in calories and proteins after withdrawn
from breast feeding. Main clinical symptoms are severe loss of body fat and muscle
protein, head is big, dry skin, growth and mental retardation are common.
Kwashiorkor : It occurs due to consumption of insufficient or inadequate protein only.
Children below 2years of age are most affected. Weight of children affected with this
disease in usually below 80% of normal weight. Usually it occurs in children when they are
given traditional foods after with drawn from breast feeding. These traditional foods are of
mostly plant based foods rich in starch but lacks adequate protein. So these foods meet only
energy requirement of body but protein requirement is not met. Low economic group
children are most affected. Clinical symptoms are edema, pot belly or distended abdomen,
dermatitis, anaemia, diarrhoea and susceptible to infections.
x 100
Significance
The biological value of a protein measures the quantity of dietary protein used by animal for
growth and maintenance of body function. Biological value of protein may also indicates
essential amino acid content, digestibility of protein and availability of digested products for
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BIOCHEMISTRY -
absorption. Biological values for some proteins are 96% for egg, 80% for milk and meat
proteins and 60% for rice and wheat proteins.
Based on biological values proteins are classified as
1. Good quality proteins
2. Poor quality proteins
Good quality proteins have high biological values. Examples are animal derived proteins
Poor quality proteins have low biological values. Most of plant derived proteins come under
this category.
Other model questions are
12. PEM
13 Kwashiorkor
14. Dietary fibre
15. PCM
210
CHAPTER - 18 | Hormones
18
Chapter
Hormones
1. Define hormone. Write chemical nature of hormones.
A. Hormones are substances produced by various cells or glands of the body. They act on cells
which are
far away
hormones from site of production to site of action. Organs on which hormones act are
known as target tissues. Endocrine glands produce hormones.
Chemical nature :Hormones are proteins, steroids, organic substances, peptides and
amino acid derivatives.
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BIOCHEMISTRY -
Hormone
GDP-G protein
Membrane receptor
Hormone receptor complex
G- GTP + G and G.
Now G-GTP activates enzymes like adenylate cyclase, phospholipase C to produce
second messenger molecules like cAMP and inositol triphosphate (IP3).
G GTP
Inactive adenylate cyclase
Active adenylate cyclase
Active adenylate cyclase
ATP
cAMP
G GTP
In active phospholipase C
Active phospholipase C
Active phospholipaseC
PI P2
Gene expression
Biological response.
hormones like insulin binding of hormone to receptor leads to
Receptor
Hormone receptor
Phosphorylated receptor
phosphorylation of IRS
Binding
Phosphorylated IRS
Enzymes, proteins
To
212
Biochemical effect.
CHAPTER - 18 | Hormones
Insulin
Glycogen synthase
Increased glycogenesis
Insulin
Key enzymes of gluconeogenesis
Decreased
gluconeogenesis.
Insulin
Regulatory enzymes of glycolysis
Enzymes
Activation of regulatory
Lipid Metabolism :Insulin promotes lipogenesis in adipose tissue. It increases fatty acid
biosynthesis by activating acetyl CoA carboxylase.
Insulin
Adipose tissue
Increased lipogenesis
Insulin
cholesterol synthesis
increased.
Protein Metabolism :Insulin is an anabolic hormone. It promotes protein synthesis and
retards protein breakdown.
Decreased protein breakdown
Insulin
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Actions of glucagon
Glucagon is an antagonist of insulin. It raises blood glucose level by promoting
glycogenolysis and gluconeogenesis. It inhibits fatty acid synthesis by inhibiting acetyl
CoA carboxylase. By activating hormone sensitive lipase glucagon promotes lipolysis.
Cholesterol synthesis is inhibited by glucagon.
Actions of Somatostatin
It prolongs gastric emptying. It decreases acid secretion by stomach. It decreases secretion
of pancreatic enzymes. Absorption of glucose is decreased by somatostatin.
Pregnenolone
Progesterone
progesterone
Deoxycortisol
Cortisol.
Hydroxy
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CHAPTER - 18 | Hormones
Cholesterol
Pregnenolone
Deoxy corticosterone
Progesterone
Corticosterone
Aldosterone.
Decarboxylase
Dopamine.
(2)
Co2
Transmethylase
Nor adrenaline
Adrenaline +SAH.
Vit. c (3)
(4)
SAM
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Tyrosine TG
2. In the second reaction MIT and DIT condense to form tri iodotyromine (T3)-TG and
tetraiodo tyrosine (T4) TG.
Condensation
MIT + DIT
Proteolysis
T3
T4 TG
(3)
T4 (Thyroxine)
(3)
TG
TG
Functions :
1. Thyroid hormones are involved in maintenance of Basal Metabolic Rate (BMR)
2. They cause positive nitrogen balance by increasing protein synthesis.
3. They are required for over all development of humans.
4. They influences blood glucose through an unknown mechanism.
7. Name hormones of Gonads. Write their chemical nature, biosynthesis and actions.
A. Gonads produce sex hormones. Ovaries produce estrogen and progesterone. Testes
produce testosterone.
Chemical nature:They are all steroids. They are synthesized from cholesterol.
Biosynthesis of testosterone:
Cholesterol is converted to testosterone.
Cholesterol
Andostenediol
216
Pregnenolone
Testosterone.
Hydroxy pregnenolone
CHAPTER - 18 | Hormones
Actions of Testosterone
1. It is an anabolic steroid hormone. It regulates gene expression.
2. It is required for spermatogenesis and for development of secondary sex characteristics.
3. It is involved in sexual differentiation.
4. It determines male pattern behaviour by influencing brain regions sensitive to this
hormone.
Synthesis of progesterone and oestrogen :Cholesterol is converted to oestrogen via
progesterone and testosterone.
Cholesterol
Pregnenolone
Andostenedione
Progesterone
Testosterone
Hydroxy progesterone
Estrogen.
Actions of oestrogen
1. It is an anabolic steroid hormone. It regulates gene expression and growth.
2. It is required for maturation of ovarian follicle and for development of tissues involved
in reproduction.
3. It promotes mammary gland maturation.
4. It is required for menstrual cycle.
Actions of Progesterone
1. It prepares uterine epithelium for implantation of fertilized ovum.
2. Progesterone decreases peripheral blood flow and reduces body temperature
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TRF
Thyroxine
Thyroid
Anterior Pituitary
TSH
Release of ACTH
Inhibition
Adrenal Cortex
Inhibition
Hormones
218
19
Chapter
219
BIOCHEMISTRY -
1. Concentration Test : It is test for renal tubular function. This test indicates
concentrating ability of kidney. Specific gravity of urine is measured after
administration of anti diuretic hormone (ADH). If specific gravity is normal then
kidney function is normal. If specific gravity is decreased it is suggestive of impaired
concentrating ability of kidney.
2. Dilution test : It is another test that assesses renal tubular function. It this test a fixed
dose of water is given. Then urine sample is collected. Volume and specific gravity of
urine sample are determined. If volume of urine is equal to volume of water given it
indicates normal kidney function. In normals the specific gravity of urine collected is
below normal.
Clearance Tests
Since glomerulus is major functional unit of kidney and involved in filtration clearance
tests are used to assess glomerular filtration rate (GFR). The word clearance is defined as
ml of plasma from which a substance is cleared (eliminated) by kidneys in a minute. The
cleared substance is found in urine. Then clearance is calculated by estimating that
substance in blood and urine. If kidney function is not normal clearance values decreases.
Some common clearance tests are detailed below.
Urea clearance test (UCT)
Procedure : After a normal break fast about 200ml of water is given to patient under
investigation. Immediately urine is collected and discarded. After an hour his urine and
blood samples are collected. Urea level is estimated in the samples.
Calculation :
U V
Urea clearance (ml/min) =
P
U = Urine urea concentration
P = Blood urea concentration
V = Urine out put per minute.
Significance : Normal urea clearance value is 75ml/ min. Low clearance value suggest loss
of kidney function that occurs due to diseases.
Creatinine Clearance Test (CCT)
Procedure : Initially the patient under investigation is given 500ml of water to hydrate his
body completely. After one hour urine sample is collected and discarded. Again urine is
collected after 4 hours and urine volume is noted. Blood sample is also collected. Then blood
and urine samples creatinine is determined.
220
Calculation :
UV
Creatinine clearance ml/ min =
P
U = Creatinine concentration in urine
V = Urine volume per minute
P = Creatinine concentration in blood.
Significance : Creatinine clearance normal value is 90-110 ml/min/ 1. 73m2 body surface
area. Low values are obtained when GFR is decreased due to diseases of kidney and
pre renal diseases.
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3. Serum protein electrophoresis : Changes that takes place in various plasma proteins
is assessed by electrophoresis. In cirrhosis size of albumin and gamma globulin bands
decreases. Band sizes of other proteins remains same.
4. Prothrombin time (PT) : Prothrombin a blood clotting factor is synthesized by liver.
Decreased prothrombin synthesis increases prothrombin time. Hence increased
prothrombin time suggests liver dysfunction. In obstructive jaundice also prothrombin
time increases.
5. Alanine transaminase (ALT) : It is an enzyme involved in amino acid break down in
liver and other tissues. Since liver is rich in ALT this test is specific for liver dysfunction.
ALT is more in hepatitis. In alcoholic cirrhosis also ALT is more.
6. Gamma glutamyl trans peptidase (GGT) : It is an enzyme involved in peptide
metabolism. In all liver diseases the level of this enzyme is more in blood. Elevation is more
marked in biliary tree obstruction. It is also more in alcoholic cirrhosis, fatty liver and
infective hepatitis.
7. Blood Urea : Liver is the only organ involved in synthesis of urea. So low urea level in
blood is suggestive of liver diseases. This test also assesses synthetic capacity of liver.
8. Blood Ammonia : Liver maintains normal ammonia level by converting it to urea. It is
eliminated by kidney. Ammonia is toxic but urea is nontoxic. So liver detoxifies ammonia
to urea. Hence high ammonia level in blood suggests impaired liver function.
Lipid Metabolism
1. Serum bile acids : Liver converts cholesterol to bile acids and secretes into bile. So this
test assesses secretory and excretory function of liver. Serum bile acid level increases in
hepatitis and cirrhosis. In cholestasis or obstruction to bile flow or biliary tract bile acid
level is elevated to a greater extent.
2. Blood Cholesterol : Increased level of cholesterol is suggestive of liver disease because
liver catabolizes cholesterol to various products. In obstructive jaundice cholesterol level
in blood is increased.
3. Urine bile salts : Liver produce bile acids from cholesterol and secretes into bile. In the
bile, bile acids generates bile salts which are eliminated through bile. In normal people
bile salts are absent in urine. Presence of bile salts is suggestive of obstructive jaundice.
Hays test is used to detect bile salts in urine.
Carbohydrate Metabolism
Functional tests based on carbohydrate metabolism assesses synthetic function of liver. Liver
is responsible for the conversion of galactose to glucose. So in liver disease this capacity of liver
is disturbed.
222
galactose is injected into blood. Then blood samples are collected for
every ten minutes for about 30 minutes. Then blood samples are analyzed for galactose.
Significance : Normally within 10 to 15 minutes galactose is cleared by liver. Decreased
clearance indicates liver dysfunction due to diseases like cirrhosis or hepatitis.
Xenobiotics Metabolism
Many xenobiotics are cleared by liver. So extent of removal of given xenobiotic from blood is
directly related to liver dys function. Some xenobiotics used to assess liver function are amino
pyrine, indocyanin, bromosulfophthalein, rose Bengal and sodium benzoate. Retention of the
administered xenobiotic in blood suggests liver dysfunction.
Nucleotide Metabolism
51 Nucleotidase : It is an enzyme of nucleotide breakdown. It is present in bile canaliculus and
bound to membrane. It is increased in blood when there is obstruction to bile flow. Hence
elevated level of this enzyme suggests cholestasis.
Mineral Metabolism
Alkaline phosphatase : It is an enzyme involved in hydrolysis of organic phosphates at alkaline
pH. Portal vascular system and sinusoids are rich in this enzyme. However bile canaliculi
contain less. In portal vascular endothelium it exist as membrane bound enzyme. It generally
passes into bile. So in extra hepatic cholestasis it is elevated significantly and in intra hepatic
cholestasis moderately. However in infective hepatitis it may be normal. In metastasis also it
is elevated.
Serum hepcidin and prohepcidin : Hepcidin and prohepcidin are proteins related to iron
metabolism. In cirrohosis serum prohepcidin level is lowered. Serum hepcidin level indicates
degree of liver dysfunction.
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BIOCHEMISTRY -
0 mg/ 100 ml. T3 level is100-250ng /100ml. Normal TSH ranges from100-300 m U/100 ml.
Hyper thyroidism : T3, T4 level is more in hyper thyroidism. But TSH level decreases in
hyper thyroidism.
Hypothyroidism : T3, T4 levels diminishes in hypothyroidism. However TSH level is
raised in this condition. All three hormone levels diminishes in hypothyroidism that
occurs due to diseases of hypothalamus and pituitary gland.
2. Thyrotrophin releasing hormone (TRH) stimulation test : In this test TRH is
administered intravenously in a fixed dose. Then blood is collected and TRH is
measured. Normal levels of TRH indicates hyperthyroidism. Higher TRH level
indicates hypothyroidism.
3. Blood cholesterol : Normal blood cholesterol level is 150-200mg%. Its level is more in
hypothyroidism, In contrast level of cholesterol is less in hyper thyroidism.
Other model questions are
224
CHAPTER - 20 | Xenobiotics
Chapter
20
Xenobiotics
1. What are xenobiotics?
A. Many substances that are used in agriculture, food processing, drugs, environmental
pollutants, toxins etc may enter into human body through food and air. They may be
pesticides used in agriculture, food additives, food colors of food processing, drugs taken as
part of treatment of illness, insecticides used to eliminate domestic pests, adulteration of
food with cheaply available varieties and microbial contamination gives rise to microbial
toxins. Generally all these are referred as xenobiotics
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1. Hydrolysis :
a. Drug like aspirin which is used as pain killer or analgesic is detoxified by
hydrolysis. An esterase hydrolyses aspirin.
Esterase
Aspirin
Tropine +tropicacid.
Aglycone + carbohydrate
Acetaldehyde
Acetic acid.
Formaldehyde
Formic acid.
226
CHAPTER - 20 | Xenobiotics
Cy t P450
Pentobarbitol
Hydroxy pentobarbital.
O2
H2 O
Hydroxy steroids.
Hydroxyquinone.
Mercapturic acid.
Salicyluric acid.
227
BIOCHEMISTRY -
indoleacetyl glutamine.
6. Detoxification
7. Xenobiotics
8. Detoxification by conjugation
9. How aspirin and phenol are detoxified?
10. How skatole and indole are detoxified?
228
CHAPTER - 21 | Cancer
Chapter
21
Cancer
Products of them prevent cancer development. They encode proteins involved in several
cellular processes. They are
1. Enzymes that participate in DNA repair
2. Proteins that promote apoptosis
3. Receptors or signal transducers for hormones or developmental signal that inhibit cell
proliferation
229
BIOCHEMISTRY -
CHAPTER - 21 | Cancer
6. Mutagens
7. Viral carcinogenesis
8. Alfa feto protein
9. Tumour suppressor gene
10. PSA
231
BIOCHEMISTRY -
232
Biochemistry
Questions and Answers
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