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Fundamentals of Biochemistry I - Structure and Catalysis

We explore the structure of the major classes of biomolecules, including proteins, lipids, nucleic acids, and carbohydrates. Next, we focus on their binding with other molecules, an emergent property of their structure. We then focus on additional functions of the bound complex, including diffusion and transport, catalysis and regulation. Finally, we integrate structure and function in a capstone chapter on cell signaling.

Biochemistry Biology

Tác giả: Henry Jakubowski and Patricia Flatt
Nhà xuất bản: LibreTexts
Nguồn: LibreTexts
Giấy phép: CC BY-SA
Ngôn ngữ: EN
Danh mục: Khoa học cơ bản

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Mục lục· 90 mục

01: The Foundations of Biochemistry
1.01: Cellular Foundations
1.02: Chemical Foundations
1.03: Physical-Chemical Foundations
1.04: Genetic Foundations
1.05: Chapter 1 Questions
02: Water and its Role in Life
2.01: The multiple roles of water
2.02: Weak Acids and Bases pH and pKa
2.03: Buffering against pH Changes in Biological Systems
2.04: Solubility in an aqueous world - noncovalent interactions in depth
2.05: Solubility in an aqueous world - The Hydrophobic Effect
2.06: Chapter 2 Questions
03: Amino Acids Peptides and Proteins
3.01: Amino Acids and Peptides
3.2: The Structure of Proteins- An Overview
3.3: Protein Purification
3.4: Analyses of Protein Structure
3.5: Extension - Antibodies in Quantitation and In Vivo Detection
3.6: Chapter 3 Questions
04: The Three-Dimensional Structure of Proteins
4.01: Main Chain Conformations
4.02: Secondary Structure and Loops
4.03: Tertiary and Quaternary Structures
4.04: Secondary Structural Motifs and Domains
4.05: Protein with Alpha Alpha-Beta Beta and Little Secondary Structure
4.06: Intrinsically Disordered Proteins
4.07: Fibrillar Proteins
4.08: Protein Folding and Unfolding (Denaturation) - Dynamics
4.09: Protein Stability - Thermodynamics
4.10: Protein Aggregates - Amyloids Prions and Intracellular Granules
4.11: Biomolecular Visualization - Conceptions and Misconceptions
4.12: Laboratory Determination of the Thermodynamic Parameters for Protein Denaturation
4.13: Predicting Structure and Function of Biomolecules Through Natural Language Processing Tools
4.14: Predicting Structure from Sequence and Sequence from Structure Function (New 10 24)
4.15: Chapter 4 Questions
05: Protein Function
5.01: Binding - The First Step Toward Protein Function
5.02: Techniques to Measure Binding
5.03: A. Oxygen-Binding Proteins and Allosterism
5.03: B. Other Allosteric Proteins
5.04: A. The Immune System - Antibodies B- cells T-cell receptors and T-cells
5.04: B. The Innate Immune System PAMPs and DAMPs and Inflammation
5.05: Protein Interactions Modulated by Chemical Energy- Actin Myosin and Molecular Motors
5.06: Binding - Conformational Selections and Intrinsically Disordered Proteins
5.07: Binding - Enzyme Linked Immunosorbant Assays (ELISAs)
5.8: Problems - Predicting Protein Structure and Function Using Machine Learning and AI Programs
5.9: Derivation of the MWC Equation
06: Enzyme Activity
6.01: How Enzymes Work
6.02: Kinetics without Enzymes
6.03: Kinetics with Enzymes
6.04: Enzyme Inhibition
6.05A: Enzyme Reaction Mechanisms - Arrow Pushing
6.05B: Quantitative Analysis of Enzyme Reaction Mechanisms - Serine Proteases
6.06: Enzyme and Protein Regulation
6.07: Ribozymes - RNA Enzymes
6.08: Cofactors and Catalysis - A Little Help From My Friends
07: Carbohydrates and Glycobiology
7.01: Monosaccharides and Disaccharides
7.02: Polysaccharides
7.03: Glycoconjugates - Proteoglycans Glycoproteins Glycolipids and Cell Walls
7.04: The Sugar Code and Lectin Decoding
7.05: Working with Carbohydrates
08: Nucleotides and Nucleic Acids
8.01: Nucleic Acids - Structure and Function
8.02: Nucleic Acids - RNA Structure and Function
8.03: Nucleic Acids - Comparison of DNA and RNA
8.04: Chromosomes and Chromatin
8.06: Enzymes for Genetic modifications
8.06: References
09: Investigating DNA
9.01: DNA Isolation Sequencing and Synthesis
9.02: Bioinformatics
9.03: Cloning and Recombinant Expression
9.04: DNA Microarrays
9.05: In Situ Hybridization
9.06: References
10: Lipids
10.01: Introduction to lipids
10.02: Lipids Aggregates in Water - Micelles and Liposomes
10.03: Membrane Bilayer and Monolayer Assemblies - Structures and Dynamics
10.04: Working with Lipids
10.05: Problems
11: Biological Membranes and Transport
11.01: Membrane and Membrane Proteins
11.02: Diffusion Across a Membrane - Passive and Facilitated Diffusion
11.03: Diffusion Across a Membrane - Channels
11.04: Diffusion Across a Membrane - Pores
11.05: Active Transport