BCEM 393

U of C

Course Overview

Lessons & Practice

1. Lipids

27min

1.1.1. Intro to Lipids2 min

1.1.2. Fatty Acids7 min

1.1.3. Triacylglycerols2 min

1.1.4. Glycerophospholipids3 min

1.1.5. Sphingolipids2 min

1.1.6. Glycolipids2 min

1.1.7. Cholesterol3 min

1.1.8. Example: Naming Fatty Acids3 min

1.1.9. Example: Identifying Lipids1 min

1.1.10. Example: Membrane Lipids2 min

1.1.11. Practice: Fatty Acids1 min

1.Q. Checkpoint Quiz5 Qns

2. Water/Acids/Bases/Buffers

1.2hr

2.1.1. Types of Chemical Bonds 5 min

2.1.2. Practice 1

2.1.3. Practice 2

2.2.1. Intermolecular Forces: Hydrogen Bonding5 min

2.2.2. Example 2 min

2.2.3. Practice 12 min

2.2.4. Practice 22 min

2.2.5. Practice 33 min

2.3.1. Intermolecular Forces: Van der Waals Interactions 11 min

2.3.2. Practice 13 min

2.3.3. Practice 2

2.4.1. Unique Properties of Water6 min

2.4.2. Practice 22 min

2.5.1. Definitions of Acids and Bases 10 min

2.5.2. Definitions of Acids and Bases (Long-form)15 min

2.5.3. Example1 min

2.6.1. Buffers4 min

3. Amino Acids - Structures and Properties

30min

3.I. Chapter Intro: Amino Acids56 sec

3.1.1. Amino Acids10 min

3.1.2. pKa of Amino Acids10 min

3.1.3. Example: Similar Amino Acids3 min

3.1.4. Example: Directed Mutagenesis3 min

3.1.5. Practice: pKa of Side Chains4 min

3.2.1. Amino Acid Highlights

3.2.2. Amino Acid Memorization Tool

3.Q. Amino Acids: Checkpoint Quiz7 Qns

3.P.1. Practice: Role of Amino Acids in an Active Site

3.P.2. Practice: Amino Acids

4. Peptides and Proteins

2.4hr

4.I. Chapter Intro: Protein Structure41 sec

4.1.1. Peptide Bond6 min

4.1.2. Peptide Bond Angles3 min

4.1.3. Example: Peptide Chain4 min

4.1.4. Example: Peptide Bond Angles2 min

4.1.5. Peptide Bond Angles

4.1.6. Peptide Bond Highlights

4.1.7. Practice: Peptide Bond Resonance2 min

4.2.1. Primary and Secondary Protein Structure2 min

4.2.2. Example: Point Mutation in Secondary Structure3 min

4.2.3. Tertiary Protein Structure3 min

4.3.1. α-helix3 min

4.3.2. Properties of α-helix5 min

4.3.3. Example: Properties of an Alpha Helix3 min

4.3.4. Example: Point Mutation in Alpha Helix4 min

4.3.5. Practice: Alpha-Helix3 min

4.4.1. β-Sheet4 min

4.4.2. β-turns and loops5 min

4.4.3. Example: Beta-Turns2 min

4.4.4. Example: H-bonding in Beta-Sheets2 min

4.4.5. Example: Beta-Barrel Channels4 min

4.4.6. Practice: Stacked Beta-Sheets

4.5.1. Tertiary Protein Structure3 min

4.5.2. Quaternary Protein Structure4 min

4.5.3. Example: Tertiary Structure (Motifs)3 min

4.5.4. Practice: Quaternary Structure3 min

4.6.1. Hydrogen Bonds4 min

4.6.2. Hydrophobic Interactions4 min

4.6.3. Electrostatic/Ionic Interactions3 min

4.6.4. Van der Waals Forces3 min

4.6.5. Disulfide Bond3 min

4.6.6. Example: Hydrogen Bonding3 min

4.6.7. Example: Non-Covalent Bonds4 min

4.6.8. Practice: Amino Acid Hydrophobicity5 min

4.7.1. Ramachandran Plot3 min

4.7.2. Anfinsen's Experiment8 min

4.7.3. Thermodynamics of Protein Folding7 min

4.7.4. Example: Urea2 min

4.7.5. Example: Ramachandran Plot3 min

4.7.6. Practice: Protein Folding2 min

4.8.1. Keratins6 min

4.8.2. Collagen5 min

4.8.3. Globular Proteins: Myoglobin1 min

4.8.4. Example: Keratins4 min

4.8.5. Practice: Globular Proteins2 min

4.9.1. Protein Structure: Highlights

4.9.2. Chemical Bonds

4.9.3. Types of Proteins: Highlights

4.Q. Protein Structure: Checkpoint Quiz7 Qns

4.P.1. Practice: Hydrophobicity Scale

4.P.2. Practice: Thermophilic Proteins

5. Protein Purification

30min

5.1.1. Activity Assays7 min

5.1.2. Chromatography7 min

5.1.3. Ammonium Sulfate Precipitation6 min

5.1.4. SDS-PAGE 4 min

5.1.5. Example: Affinity Tag Chromatography2 min

5.1.6. Example: Gel Filtration Chromatography2 min

5.1.7. Specific Activity1 min

5.2.1. Protein Purification: Highlights

5.2.2. Protein Purification

5.Q. Genetic Engineering: Checkpoint Quiz4 Qns

5.P.1. Ammonium Sulfate Precipitation

6. Carbohydrates - Monosaccharides + Linking Monosaccharides

31min

6.I. Chapter Intro: Carbohydrates42 sec

6.1.1. Carbohydrate Conformation and Annotation5 min

6.1.2. Carbohydrate Cyclization8 min

6.1.3. Complex Carbohydrates7 min

6.1.4. Polysaccharides5 min

6.1.5. Example: Simple Sugars2 min

6.1.6. Example: Glucose2 min

6.1.7. Example: Carbohydrate Structures1 min

6.1.8. Practice: Naming Carbohydrates1 min

6.1.9. Cheatsheet: Important Monosaccharides to Remember

6.2.1. Carbohydrates: Highlights

6.2.2. Important Monosaccharides

6.Q. Chapter 4: Carbohydrates5 Qns

6.P.1. Practice: Monosaccharides

6.P.2. Practice: Naming Disaccharides

7. Glycoproteins and Lectins

8min

7.1.1. Glycoproteins8 min

7.1.2. Glycoproteins

8. Basic Concepts about Enzymes

6min

8.1.1. Cofactors/Coenzymes2 min

8.1.2. Active Site3 min

8.1.3. Example: Coenzymes and Cofactors33 sec

9. Enzyme Kinetics

11min

9.1.1. Enzyme Kinetics3 min

9.1.2. Michaelis-Menten Equation5 min

9.1.3. Lineweaver-Burke Plot2 min

9.1.4. Example: Lineweaver Burke Plot1 min

9.1.5. Practice: Enzyme Kinetics52 sec

9.Q. Checkpoint Quiz3 Qns

10. Allosteric Enzymes

11min

10.1.1. Allosteric Enzymes11 min

11. Enzyme Mechanisms and Inhibitors

29min

11.1.1. Enzyme Mechanisms7 min

11.1.2. Enzyme Mechanisms Continued5 min

11.1.3. Example: Enzyme Mechanics1 min

11.1.4. Practice: Enzyme Catalyzed Reactions1 min

11.2.1. Reversible/Irreversible Inhibition3 min

11.2.2. Types of Irreversible Inhibition3 min

11.2.3. Competitive Inhibition2 min

11.2.4. Uncompetitive Inhibitors2 min

11.2.5. Non-Competitive Inhibition3 min

11.2.6. Example: Enzyme Inhibition2 min

11.2.7. Cheatsheet: Summary of Inhibitors

11.Q. Checkpoint Quiz4 Qns

12. Classes of Enzymes and Chymotrypsin Mechanism

18min

12.I. Chapter Intro: Enzymes1 min

12.1.1. Enzyme Classes7 min

12.1.2. Example: Enzyme Classes58 sec

12.2.1. Chymotrypsin7 min

12.2.2. Chymotrypsin2 min

12.3.1. Enzymes Highlights

12.3.2. Kinetic Highlights

12.3.3. Enzyme Inhibitors

12.Q. Chapter 3: Enzymes7 Qns

13. Example of an Allosteric Protein: Hemoglobin

12min

13.1.1. Hemoglobin10 min

13.1.2. Dissorders in Hemoglobin2 min

13.Q. Checkpoint Quiz6 Qns

13.P.1. Hemeoglobin and anaeobic regulation

14. Membranes and Membrane Proteins

43min

14.I. Chapter Intro: Lipids50 sec

14.1.1. Membrane Lipids2 min

14.1.2. Membrane Lipid Assembly3 min

14.1.3. Membrane Fluidity8 min

14.1.4. Membrane Lipid Dynamics2 min

14.1.5. Example: Membrane Fluidity1 min

14.1.6. Example: Cellular Membranes2 min

14.1.7. Practice: Transverse Diffusion of Lipids1 min

14.2.1. Proteins in the Lipid Bilayer1 min

14.2.2. Peripheral Membrane Proteins5 min

14.2.3. Integral Membrane Proteins5 min

14.2.4. Transport Proteins: Diffusion4 min

14.2.5. Transport Proteins: Ion Channels4 min

14.2.6. Practice: Peripheral Membrane Proteins1 min

14.2.7. Practice: Integral Membrane Proteins1 min

14.2.8. Practice: Integral Membrane Proteins55 sec

14.3.1. Lipids: Highlights

14.Q. Chapter 1: Lipids and Membranes 5 Qns

14.P.1. Practice: Potassium Ion Channels59 sec

14.P.2. Cholesterol and Membrane Fluidity

15. Digestion and Basic Concepts of Metabolism

38min

15.I. Chapter Intro: Metabolism49 sec

15.1.1. Digestion: Proteins and Carbohydrates6 min

15.1.2. Digestion: Lipids4 min

15.1.3. Digestion2 min

15.2.1. Intro to Metabolism7 min

15.2.2. Gibbs Free Energy6 min

15.2.3. High Energy Intermediates9 min

15.2.4. Free energy of ATP52 sec

15.2.5. Coupled Reactions1 min

15.3.1. Metabolism: Highlights

15.Q. Chapter 1: Intro to Metabolism4 Qns

15.P.1. Energy Storage in Creatine

15.P.2. High energy intermediates

15.P.3. Lipid Digestion

16. Glycolysis

16min

16.1.1. Glycolysis11 min

16.1.2. ATP production in Glycolysis1 min

16.1.3. Triose Phosphate Isomerase2 min

16.1.4. Glycolysis1 min

16.1.5. Glycolysis: Cheatsheet

16.Q. Checkpoint Quiz4 Qns

17. Fermentation and Regulation of Glycolysis

12min

17.I. Chapter Intro: Anaerobic Metabolism59 sec

17.1.1. Lactate Dehydrogenase2 min

17.1.2. Alcohol Fermentation42 sec

17.1.3. Anaerobic Metabolism1 min

17.1.4. Lactate Formation55 sec

17.1.5. Anaerobic respiration30 sec

17.2.1. Glycolysis Regulation4 min

17.2.2. Glycolysis Regulation41 sec

17.3.1. Anaerobic Metabolism: Highlights

17.3.2. Fermentation

17.3.3. Lactate Generation: Similar to 2014 Question 24

17.3.4. New Practice Question

17.3.5. Fermentaion (Similar to 2018 Question 24)

17.3.6. Femermentation (Similar to 2018 Question 28)

17.3.7. New Practice Question

18. Gluconeogenesis

13min

18.1.1. Gluconeogenesis6 min

18.1.2. Regulating Gluconeogensis5 min

18.1.3. Pyruvate Kinase Regulation59 sec

18.1.4. Gluconeogenesis1 min

18.1.5. Glycolysis and Gluconeogenesis30 sec

18.Q. Checkpoint Quiz4 Qns

19. Citric Acid Cycle

20min

19.1.1. Pyruvate Dehydrogenase6 min

19.1.2. Citric Acid Cycle8 min

19.1.3. Pyruvate Dehydrogenase Complex38 sec

19.1.4. Regulation of PDC1 min

19.1.5. The Citric Acid Cycle1 min

19.1.6. The Citric Acid Cycle: Cheatsheet

19.1.7. Structure of Mitochondria3 min

19.Q. Checkpoint Quiz5 Qns

20. Oxidative Phosphorylation: The Electron Transport Chain + ATP Synthesis

33min

20.1.1. Electron Transporters6 min

20.1.2. The Electron Transport Chain8 min

20.1.3. Electron Transporters49 sec

20.1.4. The electron transport chain1 min

20.1.5. Electron Transport Inhibitors42 sec

20.2.1. ATP Synthesis10 min

20.2.2. ATP and the Proton Motive Force (PMF)6 min

20.2.3. ATP production: Cheatsheet

20.Q. Checkpoint Quiz7 Qns

21. Nucleic Acid Structure

31min

21.1.1. DNA Packing4 min

21.1.2. Review of DNA Structure10 min

21.1.3. Chromosomes and Chromatin7 min

21.1.4. RNA2 min

21.1.5. Example: Purine/Pyrimidine4 min

21.1.6. Example: Base Pairing4 min

21.Q. Checkpoint Quiz4 Qns

22. DNA Replication

28min

22.1.1. Meselson-Stahl Experiment8 min

22.1.2. DNA Replication in Cells14 min

22.1.3. Example: Meselson-Stahl3 min

22.1.4. Example: DNA Replication3 min

22.1.5. Practice: DNA Replication

22.Q. Checkpoint Quiz5 Qns

23. DNA Damage and Repair

26min

23.1.1. DNA Damage9 min

23.1.2. DNA Damage49 sec

23.2.1. Repair Mechanisms6 min

23.2.2. Repair of DNA Strand Breaks [detailed]9 min

23.2.3. Example: Recombination3 min

23.Q. Checkpoint Quiz5 Qns

24. Gene Expression

1.2hr

24.1.1. Initiation8 min

24.1.2. Elongation7 min

24.1.3. Termination4 min

24.1.4. Prokaryotic Regulatory Proteins5 min

24.1.5. Example: mRNA Transcription4 min

24.1.6. Example: Transcriptional Repressors2 min

24.2.1. The Lac Operon & Glucose Regulation [detailed]5 min

24.2.2. Example: Negative Regulation3 min

24.3.1. Transcription In Eukaryotes9 min

24.3.2. General Transcription Factors (GTFs)5 min

24.3.3. Regulation of Eukaryotic Transcription12 min

24.3.4. Chromatin state and histone modifications7 min

24.Q. Checkpoint Quiz6 Qns

25. RNA Processing in Eukaryotes

24min

25.1.1. RNA Maturation in Eukaryotes8 min

25.1.2. Eukaryotic Post-Transcriptional Regulation6 min

25.1.3. Nuclear Import and Export7 min

25.1.4. Example: mRNA Processing2 min

25.1.5. Example: mRNA Transcript2 min

25.Q. Checkpoint Quiz3 Qns

26. The Genetic Code and tRNA charging

26min

26.1.1. Reading the Genetic Code (mRNA)8 min

26.1.2. tRNA and rRNA7 min

26.1.3. Example: Translation3 min

26.1.4. Example: Translation II5 min

26.1.5. Example: Translation III3 min

26.Q. Checkpoint Quiz2 Qns

27. Protein Synthesis

25min

27.1.1. Translation into Proteins: General Overview9 min

27.1.2. Initiation of Translation9 min

27.1.3. Elongation in Translation 5 min

27.1.4. Termination of Translation2 min

27.Q. Checkpoint Quiz3 Qns

Mock Exams

ME.1. BCEM 393 Mock Exam 1: Amino acids, Protein strucutre, Protein purification20 Qns

ME.2. BCEM 393 Mock Exam 2: Digestion, Central metabolism, Anaerobic metabolism29 Qns

ME.3. BCEM 393 Mock Exam 3: Carbohydrates, Lipids, Membranes13 Qns

ME.4. BCEM 393 Mock Exam 4: Enzymes, DNA30 Qns

ME.5. Quiz 1 - Mock Assessment47 Qns

ME.6. Quiz 2 - Mock Assessment35 Qns

ME.7. Quiz 3 - Mock Assessment54 Qns

ME.8. Quiz 4 - Mock Assessment50 Qns

ME.9. Final Exam - Mock Assessment73 Qns

ME.2 BCEM 393 Mock Exam 2: Digestion, Central metabolism, Anaerobic metabolism

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BCEM 393 Mock Exam 2: Digestion, Central metabolism, Anaerobic metabolism

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