Biochem Reviewer
Biochem Reviewer
Biochem Reviewer
MODULE #9
ENZYMES - complex organic compound w/c has the ability of speeding chemical
reactions w/out being themselves affected in the process.
- In the absence of enzymes, the reaction may hardly proceed at all, whereas in
its presence the rate can be increased up to 10⁷- fold.
The study of enzymes is known as ENZYMOLOGY.
It function as being biological catalysts.
2. They are sensitive to any or all of the denaturing agents including changes of the pH
of the medium.
3. They are heat labile
4. The are water soluble
5 Colloids that are soluble in water (2 or more mixtures mix together but not chemically
combined).
6. Highly selective
B. CO-FACTORS
- Non-protein group in an enzyme (prosthetic group)
- Protein portion called APOENZYME
- Two portions combined together called HOLO-ENZYME
2 CO-FACTORS:
1. Co-enzyme - nonprotein organic compounds
● Co-factor - termed non-enzyme part of the of the Co-enzyme
Examples: FAD - Flavine Adenine Dinucleotide
NAD - Nicotinamide Adenine Dinucleotide (found in vitamins)
FMN - Flavine Mononucleotide
Biotin: involved in carbon dioxide fixation reactions and fatty acid synthesis
Vitamin B12 (cyanocobalamin): Coenzyme involved in the transfer of methyl groups
Vitamin E: Needed for cellular and macrocellular synthesis (Sunshine vitamins)
Vitamin K: Coenzyme used in electron transport (electron transport)
2. Metal-ion activator - inorganic ions
Examples: Fl, Cr, Mn, Fe, Co Cu, I
*Metalloenzyme contains an apoezyme and a metal ion cofactor.
REACTIONS:
1. Co-enzyme + apoenzyme - holoenzyme
2. Metal ion activator+ apoenzyme - holoenzyme
Active site: the region or the enzyme that binds the substrate.
Coenzyme Must be Regenerated: chemically changed by the enzymatic reactions in w/c
the participate. In order to complete the catalytic, the enzyme must return to its original
interactions.
MODULE #10
ENZYMES (Commercial, Pharmaceutical, and Medicinal Enzymes)
1. PROTEOLYTIC ENZYMES
a. Pepsin - digestive aid in pre-cooked foods, found in gastric juice
b. Alcalase - additive to remove protein stains
c. Bromelains - mixture of protein-digesting & milk clotting enzymes from the
juice of Ananas comosus, Fam. Bromeliaceae, meat tenderizer
d. Papain - obtained from the latex of Carica papaya, Caricaceae
Use: Relieve symptoms of episiotomy - cleaning solutions of soft contact
lenses.
Chymopapain - nonpyrogenic proteolytic enzyme obtained from the latex of
Carica papaya.
e. Trypsin - Secreted by pancreas - released in the intestines - active in an
alkaline environment. Chymotrypsin - crystalized from an extract of the
pancreatic gland of Ox (Bos Taurus, Fam Bovidae).
f. Sutilains - from Ba illusion subtilis, use of wound debridement
g. Rennin - enzyme that is present in the mucous membrane of the stomach pf
animals; For cheese making.
h. Erepsin - found in intestinal juice
i. Streptokinase - supplied as lyophilized powder; acts to covert plasminogen
to plasmin: use to treat pulmonary embolism
j. Urokinase - from human urine / obtained from human kidney cells.
k. Fibrinolysin - prepared commercially by activating a human blood plasma
fraction with streptokinase.
2. OXIDIZING ENZYMES
i. Peroxidase - widely distributed in plants: bring out the oxidation reactions that cause
discoloration of bruised fruits.
ii. Thrombin - converts the fibrinogen of the circulating blood into the insoluble fibrin of the
blood clot.
4. ESTERASES
a. Lipase - flavor production of cheese; found in pancreatic juice of animals and oily
seeds.
b. Pectase - splits pectin into pectic acid and methyl alcohol
c. Steapsin - lipolytic enzyme capable of digesting dietary fat
d. Urease - obtained from soybeans; use as a laboratory reagent for converting urea to
ammonia.
5. OTHERS
a. Collagenase - used in topically to debride dermal ulcers and severely burned areas
b. L - Asparagine - enzyme obtained from cultures of certain stains of Escherichia coli
c. Lypoxygenase - bread whitening
MODULE #11
ENZYMES (Mechanism, and Factors Influencing of Enzymatic
Action, Clinical Enzymology)
II. KOSHLAND'S INDUCED FIT THEORY - the substrate still needs to fit into the
enzyme like a key.
⬆️ ⬆️
FACTORS THAT INFLUENCE ENZYME ACTION:
⬆️ ⬆️
1. Concentration of substrate - concentration of substrate = enzyme action
2. " of enzyme - " enzyme = ""
3. Temperature - optimum temp of enzyme in the body = 37°
4. pH - each enzyme has its specific optimum pH at w/c it exerts its maximum activity.
Eg. Pepsin - 1.5 to 2.2 , Lactase - 5.7 , Trypsin - 7.8
5. Presence of accelerators - activate the enzymes
6. Presence of inhibitors - have the ability to combine w/ enzyme in a reversible
reaction & hence block enzyme catalysis.
7. Environmental hazards
A. Hg (mercury) - Hg from phenyl mercuric acetate -> to prevent cellulose from
rotting.
B. Methyl mercuric acetate - prevent rotting seed grains
C. Cd (cadmium) - derived from cigarette smoke; 1 pack = 15 mcg
D. Pb (lead) - present in gasoline; yellow-painted pencils.
MODULE #12
NUCLEIC ACID (Nucleic Acid Structures and Organization)
NUCLEIC ACIDS
● Consist of long-chained nucleotides (polynucleotides) combined w/ another thru
PHOSPHATE DIESTER LINKAGE
● Nucleotides linked by 3', 5' phosphodiester bonds
BIOLOGICAL SIGNIFICANCE:
1. Responsible for storage and transmission of genetic information code.
2. Precise synthesis of proteins characteristics of individual cell.
DNA TYPES
● A-DNA: right handed double helix similar to the B-DNA form.
● B-DNA: the most common DNA conformation and is a right - handed helix.
● Z-DNA: Z-DNA is a left-handed DNA where the double helix winds to the left in a
zig-zag pattern. It was discovered by Andres Wang and Alexander Rich.
Eg. Pyramidine - C,U,T = PuyCU; Purine - A,G,A = PurGA
CHARGAFF'S RULE
● Erwin Chargaff - a biochemist, discovered that the number of nitrogenous bases in
the water was present in equal quantities.
A= T; C=G
● In other words, the DNA of any cell from any organism should have a 1:1 ratio
of purine and pyrimidine bases.
FUNCTIONS:
1. To make exact copies of itself in the process of replication
2. To transfer the genetic information to m-RNA in the process of transcription
● GENOME - DNA that constitute the total genetic information content of an organism,
the segments of the genome that can be translated is called GENE.
- Introns - DNA segment that do not convey code for genetic information
- Exons - DNA segments that convey genetic information
× ALPHA -> HELIX -> WATSON -> CRICK MODEL
RNA - RIBONUCLEIC ACID:
- Single chain of nucleotides
- Made up of major Mononucleotides: AMP, GMP, UMP, CMP
3 FORMS OF RNA:
1. Messenger RNA (mRNA)
- made in the nucleus of the cell as a component to a DNA strand
- Pairing nile: UA, GC
FUNCTION: Serves as cytoplasmic messenger of genes
2. Ribosomal RNA (rRNA)
- Comprise 70-80% of the total cell RNA (most abundant)
FUNCTION: bind the m-RNA and a specific enzyme for protein synthesis
3. Transfer RNA (tRNA)
- 10-15% of the total RNA content of the cell (second most abundant)
FUNCTION: Carry specific amino acids to the ribosomes and decodes the genetic
information in mRNA in terms of proper amino acid sequence.
1. N-base:
Pyramidine
● Isolated from the hydrolysates of nucleic acid
● Pyrimidine bases have only one ring
● Pyrimidine derivatives such as:
- Vitamin B1 (Thiamine) - plays important role in metabolic processes
- Alloxan (2,4,5,6- tetraoxypyrimidine) produces experimental diabetes
and has natural diabetes mellitus
- Thiouracil / Propylthiouracil - used as antithyroid drugs
Purine
● made up of six membered pyrimidine ring and a five membered imidazole ring
(two rings)
- Uric acid -> weak acidic property
- Hypoxanthine
- Xanthine -> Caffeine (1,3,7 -trimthylxanthine) from tea and coffee
NUCLEOSIDES
● Are derivatives of purines and pyrimidines that have a sugar linked to a ring nitrogen
of a purine or pyrimidine
NUCLEOTIDES
● Functional subunits of nucleic acids
● Formed when 1 or more phosphate groups is attached to the 5'carbon of a nucleotide
MODULE #13
NUCLEIC ACID (Central Dogma)
● Francis Crick in 1956, when he first proposed that the sequence of nucleotides in
DNA determines the sequence of amino acids in a protein.
● Gene Expression - process by which the genetic code - the nucleotides sequence -
or a gene is used to direct protein synthesis & produce the structures of the cell.
REPLICATION DNA TO DNA
- a copying process by which DNA is applied to the new cells formed by cell division;
this genetic information is transferred to mRNA through transcription.
TRANSCRIPTION DNA TO RNA
- process involves the transfer of genetic info from DNA strand thru base pairing to
form complementary ribonucleotides, an RNA chain.
TRANSLATION RNA TO PROTEINS
- RNA to PROTEIN
3 REACTIONS:
1. Replication - patient DNA to daughter DNA
2. Transcription - DNA to messenger RNA
3. Translation - mRNA to CHON'S (reading is from 5' to 3')
● SEME-CONSERVATIVE REPLICATION - only 1 strand will undergo
transcription.
DNA TRANSCRIPTION
- is the synthesis or a complementary strand of RNA from DNA template.
INHIBITORS OF RNA SYNTHESIS
- Quinolones and Fluoroquinolones: inhibit DNA gyrase (prokaryotic topoisomeras II)
3 STEPS OF TRANSCRIPTION
1. INITIATION - the beginning of transcription.
2. ELONGATION - the addition of nucleotides to mRNA strand.
3. TERMINATION - the ending of transcription
DNA TRANSLATION
- codons of an mRNA are "read" sequentially
- Anticodon sequence of three basis that is complementary to a codon.
INHIBITORS OF PROTEIN SYNTHESIS
1. Reversible inhibitors in Bacteria (Bacteriostatic Agents)
a. Tetracycline
b. Chloramphenicol
c. Erythromycin
d. Clindamycin
2. Irreversible inhibitors in Bacteria (Bacteriostatic Agents)
a. Streptomycin
TYPES OF MUTATIONS:
1. SILENT MUTATION substitution occurs in the third position of the codon .
2. MISSENSE MUTATION change in one DNA base pair that results in the substitution
of one amino acids for another.
3. NONSENSE MUTATION also a change in one DNA base pair.
4. FRAMESHIFT MUTATION occurs when the addition or loss of DNA bases changes a
gene's reading frame.
GENETIC CODE set of rules which give a relationship between the nitrogenous bases & the
amino acids in a polypeptide chain.
CLASSIFICATION OF CARBOHYDRATES:
a. Simple sugar / monosaccharides
b. Oligosaccharides
c. Polysaccharides
SIMPLE SUGARS / MONOSACCHARIDES these ar CHO's that cannot be hydrolyzed to
simplest forms.
I. According to functional group presents
1. Aldose - presence of aldehyde group
2. Ketose - presence of ketone group
II. Based on the no. of C- atoms in the molecule
a. Triose (C3H6O3) not found in free in nature but as products of carbohydrates
metabolism.
● glyceraldehydes or glycerose (Aldose)
● dihydroxyacetone (ketose)
b. Tetroses 4-C monosaccharides (C4H8O4)
● Erythrose (aldose)
● Threose (aldose)
● Erythrulose (ketose)
c. Pentoses 5-C monosaccharides
● Ribose - constituent of RNA
● Arabinose - present in cherries and can be seen in the body
● Xylose - seen in proteoglycans
● Lyxose - occurs rarely in nature
● Xylulose - an intermediate in uronic acid pathway
d. Hexoses 6-C monosaccharides, the most important monosaccharides found in
plants.
● Allose
● Altrose
● Glucose
● Mannose
● Gulose
● Idos
● Galactose
● Talose
● Fructose (ketohexose)
e. Heptoses 7-C sugar form a vital importance in the glucose metabolism of animals &
in the photosynthesis process of plants.
f. Octose 8- carbon sugar isolated from avocado pulp - D - glycerol - D - manno
octulose
MODULE #15
CARBOHYDRATES
HETEROPOLYSACCHARIDES:
● Polysaccharides w/c on hydrolysis yield mixtures of heteropolysaccharides & derived
products
● 2 MAIN GROUPS:
a. Neutral mucopolysaccharides
● made up of N-acetyl-hexosamine & hexose
b. Acid mucopolysaccharides
● contain hexuronic acid, sulfate or phosphate
HYALURONIC
● serves as a cementing substance in the tissues w/c allows the passage only of the
metabolites but not the infecting microorganisms.
HEPARINE (heparin)
● important acid mucopolysaccharide secreted by the lung tissues & certain types of
cells lining the arterial blood vessels.
PROPERTIES OF CARBOHYDRATES:
I. PHYSICAL
a. Monosaccharides & Oligosaccharides:
1. white crystalline solids
2. soluble in water
3. optically active
4. sweet taste
b. Polysaccharides are:
1. amorphous solid
2. low molecular weight form a colloidal dispersion in H2O
3. not sweet / no flavor at all
II. CHEMICAL
a. Hydrolysis
1. Disaccharides: C6H12O11 + H2OC6H12O6 + C6H12O6
2. Starch Hydrolysis
Starch -> amylodextrin->erythrodextrin->achrodextrin->maltose->glucose
Agents of Hydrolysis:
1. Heat
2. Acid
3. Bases
4. Enzymes
b. Reducing Property or Action of Carbohydrates:
● attributed to a free aldehyde or ketone group
c. Fermentation complex process which involves the breaking down of complex
substances with the aid of biological catalysts called ENZYMES
d. Osazone Formation (+) result: yellow crystals or yellow ppt.
Type I Von Gierke Disease (Liver, Kidney) Massive enlargement of the liver, severe
hypoglycemia, ketosis, hyperuricemia, hyperlipidemia.
Type II Pompe (All Organs) Cardiorespiratory failure causes death usually before age 2.
Type III Cori Forbes (Muscle & Liver) Like type 1 but milder course.
Type V McArdle (Muscle) Limited ability to perform strenuous exercise because of painful
muscle cramps.
Type VIII Phosphorylase kinase (Liver) Mild liver enlargement. Mild hypoglycemia.
CARBOHYDRATE DEFICIENCIES:
1. MARASMUS CHO deficiency (shrinking)
2. DIABETES MELLITUS metabolic disease due to an absolute or relative deficiency of
insulin leading to changes in CHO, CHON & lipid metabolism
Insulin hormone resent or secreted by B-cells of Islets of Langerhans of the
Pancreas
2 TYPES OF DIABETES MELLITUS:
1. JUVENILE onset or Insulin Dependent Diabetes Mellitus (IDDM)
● common in adolescent as a result of high viral infection
● usually thin (underweight)
2. ADULT onset or Non-Insulin Dependent Diabetes Mellitus (NIDDM)
● occurs during late 20's or early 30's
● Heredity
4 P's of Diabetes Mellitus:
1. Polydipsia frequency of thirst
2. Polyuria frequency or urination
3. Polyphagia frequency of eating and hunger sensation
4. Persistence of non-healing wound
3 Pathies of DM:
1. Neuropathy involvement of nerve functions esp. sensory
2. Nephropathy involvement of the kidneys
3. Retinopathy involvement of the retina of the eye w/c might lead to blindness
2 Common Laboratory Findings in DM:
1. Glycosuria excessive glucose in urine
2. Hyperglycemia excessive in the bloodstream
COMMON SUGAR SUBSTITUTES:
1. ASPARTAME made up from aspartic acid & phenylalanine, both amino acids
● 200 times sweeter than sugar, not suitable for people w/ phenylketonuria
2. SACCHARIN is made from anthranilic acid.
● 300 times sweeter than sugar
● used in sweeten products such as, drinks, candies, med, & toothpaste
3. Erythritol a natural sugar alcohol
● occurs naturally in fruits & fermented foods
● 60-70% as sweet as table sugar yet it is almost non-caloric
4. Xylitol found in fibers of many fruits and vegetables
● roughly sweet as sucrose w/ only ⅔ the food energy
● a safe sweetener for people w/ diabetes that would not impact insulin levels.