Biochemistry & Molecular Biology Animations

DNA replication

DNA Replication (source)

I. Background

1. Structure of Water.

2. pH

3. Functional Groups in Bio-molecules

4. Polarity of molecules

5. Hydrogen bonding

6. The inner life of a cell

7. Powering the cell: Mitochondria

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Surface water (animated)

Water dynamics around a protein (source)

II. Protein Structure & Function

1. Overview of protein structure (a)

2. Amino Acids (a)

3. Peptide Bond Formation. (a)

4. The alpha helix (a)

5. The beta sheet (b)

6. The disulphide (S-S) bond (a)

7. The structure of antibodies and the Ig fold (a)

8. Calcium-dependent Calmodulin (a)

9. The Src-homology 2 (SH2) domain (a)

10.. Protein Folding (animation) (computer simulation)

11. Oligomeric proteins (a)

12. Protein functions (a)

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Docking aminationLigand binding to a protein (source)

III. Enzyme-Mediated Catalysis

1. General principles (a)

2. Energetics (a)

3. Kinetics. (a) (b) (c)

4. Allostery. (a)

5. Mechanisms: Serine Proteases, Lysozyme,

6. Inhibition (a)

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IV. Metabolism

0. Biochemical Pathways (a)

1. Glycolysis (overview) (details)

2. Pyruvate Dehydrogenase (a) (b)

3. TCA (Krebs) Cycle (overview) (general) (details)

4. Electron Transport Chain (a) (b)

5. ATP Synthase (a) (b) (c) (d) (e)

6. Pentose-Phosphate Pathway

7. Gluconeogenesis

8. Amino Acid Degradation

9. Amino Acid Biosynthesis.

10. Fatty Acid Degradation (β-oxidation). (a)

11. Fatty Acid Synthesis.

12. Photosynthesis: (a) light reaction (b) Dark Reaction.

13. Fermentation. (ethanoic) (lactic)

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V. Molecular Physiology

0. Body Code (an award-winning video illustrating some of the processes below)

1. DNA Replication. (a) (b – with atomic-detailed structures)

2. DNA transcription (a – with atomic-detailed structures)

3. RNA translation to protein. (a) (b) (c) (d -with atomic-detailed structures)

4. The Plasma Membrane (a)

5. Ion Transport: Passive, Active (more)

6. The K+ channel (a)

7. Hormone-Receptor binding: (structural) (channel activation) (steroid)

8. The acetylcholine synapse (a)

9. Signal transduction (a) (b)

10. Cell Cycle (a) (b)

11. Clathrin-mediated endocytosis (a)

12. Protein translocation (a)

13. T to R transition in hemoglobin (a)

14. The role of dynein in yeast mitosis (a)

15. Oxygen transport and hemoglobin (a) (b)

16. How Bolulinum toxin (BOTOX) works (a)

17. Programmed cell death (apoptosis) (a) (b)

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