IONIZATION OF WATER, WEAK ACIDS AND WEAK BASES

The ionization of water can be described by an equilibrium constant. When weak acids or weak bases are dissolved in water, they can contribute H+ by ionizing (if acids) or consume H+ by being protonated (if bases). These processes are also governed by equilibrium constants

Water molecules have a slight tendency to undergo reversible ionization to yield a hydrogen ion and a hydroxide ion :

H₂O = H⁺ + OH⁻

The position of equilibrium of any chemical reaction is given by its equilibrium constant. For the general reaction,

A+B = C + D

Protein electrophoresis is a laboratory technique used to separate proteins based on their size, charge, or other physical properties. It plays a vital role in diagnosing and monitoring various diseases, especially those involving abnormal protein production or structure.

Types of Protein Electrophoresis

1. SPE (Serum Protein Electrophoresis)

• Principle: Separation of serum proteins based on their charge.

• Major Fractions:

  • Albumin

  • Alpha-1 globulin

  • Alpha-2 globulin

  • Beta globulin

  • Gamma globulin

• Clinical Applications:

  • Multiple Myeloma: Detects monoclonal spike (M-protein) in gamma region.

  • Chronic Infections: Polyclonal increase in gamma globulins.

  • Nephrotic Syndrome: Decreased albumin, increased alpha-2 globulin.

  • Liver Disease: Altered albumin and beta-gamma bridging.

2. Hemoglobin Electrophoresis

• Principle: Separation of hemoglobin variants based on charge differences.

• Common Hemoglobins:

  • HbA, HbA₂, HbF, HbS, HbC, HbE

• Clinical Applications:

  • Thalassemia: Elevated HbA₂ or HbF levels.

  • Sickle Cell Disease: Presence of HbS.

  • Hemoglobinopathies: Differentiates variants like HbC, HbE, etc.

3. SDS-PAGE (Sodium Dodecyl Sulfate–Polyacrylamide Gel Electrophoresis)

• Principle: Proteins are denatured and separated by molecular weight.

• SDS: Imparts uniform negative charge, eliminating charge-based separation.

• Clinical Applications:

  • Protein Purification: Identifies specific proteins in research and diagnostics.

  • Genetic Disorders: Detects abnormal or truncated proteins.

  • Muscular Dystrophies: Analyzes dystrophin protein expression.

  • Cancer Research: Studies tumor markers and oncogenic proteins.

General structure of amino acids

• All organisms use same 20 amino acids.
• Variation in order of amino acids in polypeptides allow limitless variation.
• All amino acids made up of a chiral carbon attached to 4 different groups      

 - hydrogen
 - amino group
 - carboxyl
 - R group: varies between different amino acids

• Two stereoisomers (mirror images of one another) can exist for each amino acid. Such stereoisomers are called enantiomers. All amino acids found in proteins are in the L configuration.
• Amino acids are zwitterions at physiological pH 7.4. ( i.e. dipolar ions). Some side chains can also be ionized

Structures of the 20 common amino acids

• Side chains of the 20 amino acids vary. Properties of side chains greatly influence overall conformation of protein. E.g. hydrophobic side chains in water-soluble proteins fold into interior of protein
• Some side chains are nonpolar (hydrophobic), others are polar or ionizable at physiological pH (hydrophilic).
• Side chains fall into several chemical classes: aliphatic, aromatic, sulfur-containing, alcohols, bases, acids, and amides. Also catagorized as to hydrophobic vs hydrophilic.
• Must know 3-letter code for each amino acid.

Aliphatic R Groups

• Glycine: least complex structure. Not chiral. Side chain small enough to fit into niches too small for other amino acids.
• Alanine, Valine, Leucine, Isoleucine
  • no reactive functional groups      
  • highly hydrophobic: play important role in maintaining 3-D structures of proteins because of their tendency to cluster away from water
• Proline has cyclic side chain called a pyrolidine ring. Restricts geometry of polypeptides, sometimes introducing abrupt changes in direction of polypeptide chain.

Aromatic R Groups

• Phenylalanine, Tyrosine, Tryptophan
  • Phe has benzene ring therefore hydrophobic.  
  • Tyr and Trp have side chains with polar groups, therefore less hydrophobic than Phe.
  • Absorb UV  280 nm. Therefore used to estimate concentration of proteins.

Sulfur-containing R Groups

• Methionine and Cysteine)
  • Met is hydrophobic. Sulfur atom is nucleophilic.
  • Cys somewhat hydrophobic. Highly reactive. Form disulfide bridges and may stabilize 3-D structure of proteins by cross-linking Cys residues in peptide chains.

Side Chains with Alcohol Groups

• Serine and Threonine
  • have uncharged polar side chains. Alcohol groups give hydrophilic character.
  • weakly ionizable.

Basic R Groups

• Histidine, Lysine, and Arginine.
  • have hydrophilic side chains that are nitrogenous bases and positively charged at physiological pH.
  • Arg is most basic a.a., and contribute positive charges to proteins.

Acidic R Groups and their Amide derivatives

• Aspartate, Glutamate
  • are dicarboxylic acids, ionizable at physiological pH. Confer a negative charge on proteins.
• Asparagine, Glutamine
  • amides of Asp and Glu rspectively
  • highly polar and often found on surface of proteins
  • polar amide groups can form H-bonds with atoms in other amino acids with polar side chains.

Glycolysis enzymes are located in the cytosol of cells.  Pyruvate enters the mitochondrion to be metabolized further

Mitochondrial compartments: The mitochondrial matrix contains Pyruvate Dehydrogenase and enzymes of Krebs Cycle, plus other pathways such as fatty acid oxidation. 

Pyruvate Dehydrogenase catalyzes oxidative decarboxylation of pyruvate, to form acetyl-CoA

FAD (Flavin Adenine Dinucleotide) is a derivative of the B-vitamin riboflavin (dimethylisoalloxazine-ribitol). The flavin ring system undergoes oxidation/reduction as shown below. Whereas NAD⁺ is a coenzyme that reversibly binds to enzymes, FAD is a prosthetic group, that is permanently part of the complex. 

FAD accepts and donates 2 electrons with 2 protons (2 H):

Thiamine pyrophosphate (TPP) is a derivative of  thiamine (vitamin B₁). Nutritional deficiency of thiamine leads to the disease beriberi. Beriberi affects especially the brain, because TPP is required for carbohydrate metabolism, and the brain depends on glucose metabolism for energy

Acetyl CoA, a product of the Pyruvate Dehydrogenase reaction, is a central compound in metabolism. The "high energy" thioester linkage makes it an excellent donor of the acetate moiety

For example, acetyl CoA functions as:

• input to the Krebs Cycle, where the acetate moiety is further degraded to CO₂.
• donor of acetate for synthesis of fatty acids, ketone bodies, and cholesterol.

ATPs  formed in TCA cycle from one molecule of Pyruvate

1. 3ATP            7. 3ATP          5. 3 ATP                     

 8. 1 ATP         9. 2 ATP          11.3 ATP         Total =15 ATP.

 ATPS formed from one molecule of Acetyl CoA =12ATP

ATPs formed from one molecule of glucose after complete oxidation

One molecule of glucose -->2 molecules of pyruvate

['By glycolysis] ->8 ATP

2 molecules of pyruvate [By TCA cycle] -> 30 ATP

Total = 38 ATP

Growth hormone

Growth hormone (GH or HGH), also known as somatotropin or somatropin, is a peptide hormone that stimulates growth, cell reproduction and regeneration in humans.

Growth hormone is a single-chain polypeptide that is synthesized, stored, and secreted by somatotropic cells within the lateral wings of the anterior pituitary gland.

Regulation of growth hormone secretion

Secretion of growth hormone (GH) in the pituitary is regulated by the neurosecretory nuclei of the hypothalamus. These cells release the peptides Growth hormone-releasing hormone (GHRH or somatocrinin) and Growth hormone-inhibiting hormone (GHIH or somatostatin) into the hypophyseal portal venous blood surrounding the pituitary.

GH release in the pituitary is primarily determined by the balance of these two peptides, which in turn is affected by many physiological stimulators (e.g., exercise, nutrition, sleep) and inhibitors (e.g., free fatty acids) of GH secretion.

Regulation

Stimulators of growth hormone (GH) secretion include peptide hormones, ghrelin, sex hormones, hypoglycemia, deep sleep, niacin, fasting, and vigorous exercise.

Inhibitors of GH secretion include somatostatin, circulating concentrations of GH and IGF-1 (negative feedback on the pituitary and hypothalamus), hyperglycemia, glucocorticoids, and dihydrotestosterone.

Clinical significance

The most common disease of GH excess is a pituitary tumor composed of somatotroph cells of the anterior pituitary. These somatotroph adenomas are benign and grow slowly, gradually producing more and more GH excess. The adenoma may become large enough to cause headaches, impair vision by pressure on the optic nerves, or cause deficiency of other pituitary hormones by displacement.

PHOSPHORUS

Serum level of phosphate is 3-4 mg/dl for adults and 5-6 mg/dl in children. Consumption of calcitriol increases phosphate absorption.

Functions of phosphorus
(a) Plays key role in formation of tooth and bone

(b) Production of high energy phosphate compounds such as ATP, CTP, GTP etc.,

(c) Synthesis of nucleotide co-enzymes such as NAD and NADP

(d) Formation of phosphodiester backbone structure for DNA and RNA synthesis

Hypophosphatemia is the condition which leads to decrease in absorption of phosphorus. it leads to hypercalcamia

Hyperphosphatemia, increase in absorption of phosphate was noticed. Hyperphosphatemia leads to cell lysis, hypocalcemia and thyrotoxicosis.