Biochemistry Notebook

These are my personal study notes from the EdX online course, MCB63X: Intro to Biochemistry from Harvard-X 
as taught by Dr. Alain Viel and Dr. Rachelle Gaudet in the summer of 2015. They are organized by lecture. 
Please note that these are not the official class lecture notes and are not meant to replace the course in any way. 
Other disclaimers apply.

Suggestion: for each section, open the corresponding lecture slide (they’re numbered the same) and follow along.

Unit Two

  1.  Proteins
    1. Structure
      1. Amino Acids: Overview
      2. Proteins and Amino Acids
      3. Protein Classifications
    2. Folding
      1. Proteins and the Thermodynamic Hypothesis
      2. Kinetics of Folding
      3. Aqueous Environment Factors
  2. Enzymes
    1. Catalysts
      1. Overview
      2. Why are enzyme great catalysts?
      3. Size of the active site
    2. Kinetics
      1. The Velocity of Reactions
      2. Michaelis-Mentin Equation
      3. Lineweaver-Burk Equation
      4. Inhibition, part 1
      5. Inhibition, part 2
  3. Lipids Structure and Membrane Assembly
    1. Overview
    2. Triacylglycerols and Energy Storage
    3. Lipid Storage and Lypolysis
    4. Lipid Structure
    5. Lipid Diffusion
  4. Carbohydrates Structure
    1. Monosaccharides
    2. Cyclic Forms
    3. Glycosidic Linkages

Unit Three

  1. Glycolysis
    1. Overview
      1. The 10 Steps of Glycolysis
      2. ATP Coupling and Fermentation
    2. Unique Features of Glycolysis in Red Blood Cells
      1. Glycolysis in RBCs
      2. Hemoglobin Binding
  2. Bacterial Energetics
    1. Diversity of Fermentation Pathways
    2. Aerobic vs Anaerobic Fermentation
    3. Diversity of Microbes
  3. Oxidative Phosphorylation
    1. The Citric Acid Cycle
      1. The Major Energetic Pathways in Aerobics Organisms
      2. Pyruvate Dehydrogenase
      3. Overview of the Citric Acid Cycle
    2. Electron Transport Chain
      1. Oxidative Phosphorylation
      2. Reduction Potential
      3. Overview of the ETC
    3. ATP Synthesis
      1. Protein Motive Force and Gradients
      2. ATP Synthase
      3. ATP Synthesis
  4. Regulation in the Liver
    1. Regulation of Glycolysis by the Liver
      1. Allosteric Enzyme Regulation
      2. Homeostasis
      3. PFK-1 and PFK-2
      4. Metabolic Valves
    2. Regulation of Blood Sugar by the Liver
      1. Gluconeogenesis
      2. Regulatory Points in Gluconeogenesis
      3. Impact of Blood Glucose Levels on Metabolism
      4. Reciprocal Regulation and PP1

Unit Four

  1. Liver Metabolism
    1. Catabolism and Anabolism, Motifs
    2. Metabolic Hubs and ATP Yields
    3. Liver Metabolism in detail
  2. Muscle Metabolism
    1. Anaerobic Factors, Phosphocreatine
    2. ATP Usage, Lactic Acid, Glucose-alanine cycle
  3. Brain Metabolism
    1. Insulin, Glucagon, Adrenaline
    2. Blood Brain Barrier
    3. Brain Metabolism in detail

Unit Five

  1. Nucleic Acids
    1. Overview
    2. Ribonucleotide Synthesis
    3. Deoxyribonucleotide Synthesis
  2. Carbohydrate Metabolism
    1. Overview
    2. Pentose Phosphate Pathway
  3. Fatty Acid Metabolism
    1. Fatty Acid Synthesis
    2. Fatty Acid Synthesis II
    3. Beta-Oxidation I
    4. Beta-Oxidation II
    5. Genetic Defects