Ch450 Biochemistry I – Student and Teacher Resources:

WOU Chemistry Program Outcomes:

  1. Demonstrate an understanding of major concepts, theoretical principles and experimental findings in chemistry. (PS)
  2. Employ critical thinking and quantitative analytical skills to solve problems, and evaluate scientific data. (Q)
  3. Use and apply of laboratory methods and scientific instrumentation to investigate a scientific hypothesis, conduct experiments, analyze data, and interpret results. (IA)
  4. Demonstrate effective written and oral communication skills including the ability to transmit complex scientific or technical information in a clear and concise manner. (W)
  5. Gather, comprehend, apply, and communicate credible information on scientific and technical topics and recognize the proper use of scientific data, principles and theories to assess the quality of stated conclusions. (IA)
  6. Demonstrate ethical awareness and conduct with regards to: (1) honesty in data reporting; (2) the safety of practitioners, test subjects and the local community/environment; and (3) their social responsibility to recognize the impact that our actions have on the natural and human world. (PS)

Class Objectives and Goals:

This course is designed for upper division undergraduate students that are interested in learning about how life works. It is highly recommended for students that are interested in pursuing a graduate or professional degree in the medical sciences. The course is designed in two installments:  Biochemistry I offered in the fall term, and Biochemistry II offered in the winter term. The focus of Biochemistry II is on carbohydrate and lipid metabolism, as well as the processes of cellular energy production and utilization.  Within these process, we will engage in the detailed exploration of biological macromolecule structure and function with emphasis on the mechanisms of protein/ligand binding, metabolic pathways and regulatory enzyme mechanisms. By the end of the second quarter, you should be able to:

  • Read background information, collect, analyze or interpret data for the purpose of oral discussion or written scientific reports or reviews.
    Aligns to:

  • Prepare and present a project on a complex biochemical topic (could be in in the format of a video, blog, podcast, review paper, etc)
    Aligns to:

  • Explain how the metabolism of glucose leads ultimately to the generation of large quantities of ATP.
    Aligns to:

    • Chemistry Program Outcome 1
  • Describe how fats, proteins, and amino acids are metabolized, and explain how they can be used for fuel.
    Aligns to:

    • Chemistry Program Outcome 1
  • Explain the process of photosynthesis and the conversion of carbon dioxide into biomass
    Aligns to:

    • Chemistry Program Outcome 1

Background Reading Sources:

Chapter 1: The Foundations of Biochemistry

Lecture 1.1 – Cellular Foundations; Lecture 1.1: Cellular Foundations PDF with Notes; Youtube Lecture 1.1

Lecture 1.2 – Physical Foundations; Lecture 1.2 PDF with Notes; Youtube Lecture 1.2

Lecture 1.3 Chemical Foundations; Lecture 1.3 PDF with Notes; Youtube Lecture 1.3

Lecture 1.4 genetics and evolution; Chapter 1.4 PDF with Notes; Youtube Lecture 1.4

Chapter 2: Protein Structure

Chapter 2 Powerpoint Slides; Chapter 2 PDF with Notes

Youtube Lecture 2.1 Amino Acid Structure and Properties

Youtube Lecture 2.2 Peptide Bond Formation and Primary Structure

Youtube Lecture 2.3 Secondary Protein Structure

Youtube Lecture 2.4 Supersecondary Protein Structure

Youtube Lecture 2.5 Tertiary and Quaternary Protein Structure

Youtube Lecture 2.6 Protein Folding, Denaturation and Hydrolysis

Chapter 3: Investigating Proteins

Chapter 3 Powerpoint Slides; Chapter 3 Slides PDF with Notes

Youtube Lecture 3.1 Protein Purification

Youtube Lecture 3.2 part 1: Protein Identification and Visualization

Youtube Lecture 3.2 part 2: Protein Identification and Visualization

Youtube Lecture 3.3 Protein Synthesis and Sequencing

Youtube Lecture 3.4 Protein Structure Elucidation

Chapter 4: DNA, RNA and the Human Genome

Chapter 4 Powerpoint Slides; Chapter 4 Slides PDF with Notes

Youtube Lecture 4.1 DNA and RNA Structure

Youtube Lecture 4.2 Chromosomes and Packaging

Youtube Lecture 4.3 Sequencing the Human Genome

Chapter 5: Investigating DNA

Chapter 5.1 Powerpoint Slides; Chapter 5.1 PDF with Notes

Chapter 5 Powerpoint Slides Sections 5.2 – 5.5;Lecture 5.2 to 5.5 PDF with Notes

Youtube Lecture 5.1.1 DNA and RNA Isolation and Purification

Youtube Lecture 5.1.2 DNA Sequencing Techniques

Youtube  Lecture 5.1.3 DNA Synthesis Techniques

Youtube Lecture 5.2 and 5.3 Bioinformatics and DNA Cloning

Youtube Lecture 5.3 to 5.5 CRISPR/Cas Technologies, DNA Microarrays, and In Situ Hybridization

Chapter 6: Enzyme Principles and Biotechnological Applications

Chapter 6.1 to 6.4 Powerpoint Slides; Lecture 6.1 to 6.4 PDF with Notes

Chapter 6.5 to 6.10 Powerpoint Slides; Lecture 6.5 – 6.8 PDF with Notes

Youtube Lecture 6.1 to 6.2 Enzyme Nomenclature and Classification

Youtube Lecture 6.3 to 6.4 Enzyme Substrate Binding and Reaction Equilibrium

Youtube Lecture 6.5 Properties and Mechanisms of Enzyme Action

Youtube Lecture 6.6 and 6.7 pH, Temperature, and Mechanisms of Enzyme Inhibition

Youtube Lecture 6.8 Allosteric Enzymes

Chapter 7: Catalytic Mechanisms of Enzymes

Chapter 7.1 to 7.3 Chymotrypsin Powerpoint Slides; Lecture 7.1 to 7.3 Chymotrypsin PDF with Notes

Chapter 7.3 Part 2 Powerpoint Slides; Chapter 7.3 Part 2 PDF with Notes

Youtube Lecture 7.1 Review of Organic Chemistry Concepts

Youtube Lecture 7.2 and 7.3 Catalytic Mechanisms of Enzymes: Chymotrypsin

Youtube Lecture 7.3 Proteases and NMP Kinases

Youtube Lecture 7.3 Restriction Endonucleases

Youtube Lecture 7.3 RNA Enzymes (Ribozymes)

Chapter 8: Protein Regulation and Degradation

Chapter 8.1 to 8.4 Powerpoint Slides; Chapter 8.1 to 8.4 PDF with Notes

Chapter 8.5 Powerpoint Slides; Chapter 8.5 PDF with Notes

Youtube Lecture 8.1 Isozymes

Youtube Lecture 8.2 Post-Translational Modifications

Youtube Lectures 8.3 and 8.4 Allosteric Enzymes and Zymogens

Youtube Lecture 8.5 Intracellular Protein Degradation

Chapter 9: DNA Replication

Chapter 9.1 and 9.2 Powerpoint Slides; Chapter 9.1 and 9.2 PDF with Notes

Chapter 9.3 to the end Powerpoint Slides; Chapter 9.3 to the end PDF with Notes

Youtube Lecture Chapter 9.1 DNA Replication is Semiconservative

Youtube Lecture Chapter 9.2 Part 1: Prokaryotic DNA Replication

Youtube Lecture Chapter 9.2 Part 2: Prokaryotic DNA Replication

Youtube Lecture Chapter 9.3 Replication of Extrachromosomal Elements

Youtube Lecture Chapter 9.4 Eukaryotic DNA Replication Part 1 – The Cell Cycle

Youtube Lecture Chapter 9.4 Eukartyotic DNA Replication Part 2 – The Major Players

Youtube Lecture Chapter 9.5 Mitochondrial DNA Replication

Youtube Lecture Chapter 9.6 Replication of Telomeres

Chapter 10: Transcription and RNA Processing

Chapter 10 Powerpoint Slides; Chapter 10 PDF with Notes

Youtube Lecture Chapter 10.1 Types of RNA

Youtube Lecture Chapter 10.2 RNA Polymerase Enzymes

Youtube Lecture Chapter 10.3 Transcription Factors and the Preinitiation Complex

Youtube Lecture Chapter 10.4 Transcription Elongation and Termination

Youtube Lecture Chapter 10.5 Processing of RNA

Chapter 11: Translation

Chapter 11.1 to 11.3 Powerpoint Slides; Chapter 11.1 to 11.3 PDF with Notes

Youtube Lecture Chapter 11.1 Overview of Translation

Youtube Lecture Chapter 11.2 Transfer RNA (tRNA)

Youtube Lecture Chapter 11.3 Aminoacyl-tRNA Synthetases

More to come soon!

Chapter 12: DNA Damage and Repair

More to come soon!

Chapter 13: Transcriptional Control and Epigenetics

more to come soon!