Molecular Cell Biology

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Molecular Cell Biology Powered By Docstoc
					Molecular Cell Biology

Harvey Lodish, Arnold Berk, Lawrence S. Zipursky, Paul Matsudaira, David Baltimore and
James Darnell

Fourth Edition, 2000, W. H. FREEMAN

Acknowledgments

About the Authors

Preface

Supplements

1. The Dynamic Cell

       1.1. Evolution: At the Core of Molecular Change

       1.2. The Molecules of Life

       1.3. The Architecture of Cells

       1.4. The Life Cycle of Cells

       1.5. Cells into Tissues

       1.6. Molecular Cell Biology: An Integrated View of Cells at Work

2. Chemical Foundations

       2.1. Covalent Bonds

       2.2. Noncovalent Bonds

       2.3. Chemical Equilibrium

       2.4. Biochemical Energetics

       2.5. Activation Energy and Reaction Rate

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3. Protein Structure and Function
      3.1. Hierarchical Structure of Proteins

      3.2. Folding, Modification, and Degradation of Proteins

      3.3. Functional Design of Proteins

      3.4. Membrane Proteins

      3.5. Purifying, Detecting, and Characterizing Proteins

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4. Nucleic Acids, the Genetic Code, and the Synthesis of Macromolecules

      4.1. Structure of Nucleic Acids

      4.2. Synthesis of Biopolymers: Rules of Macromolecular Carpentry

      4.3. Nucleic Acid Synthesis

      4.4. The Three Roles of RNA in Protein Synthesis

      4.5. Stepwise Formation of Proteins on Ribosomes

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5. Biomembranes and the Subcellular Organization of Eukaryotic Cells

      5.1. Microscopy and Cell Architecture

      5.2. Purification of Cells and Their Parts

      5.3. Biomembranes: Structural Organization and Basic Functions
      5.4. Organelles of the Eukaryotic Cell

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6. Manipulating Cells and Viruses in Culture

      6.1. Growth of Microorganisms in Culture

      6.2. Growth of Animal Cells in Culture

      6.3. Viruses: Structure, Function, and Uses

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7. Recombinant DNA and Genomics

      7.1. DNA Cloning with Plasmid Vectors

      7.2. Constructing DNA Libraries with λ Phage and Other Cloning Vectors

      7.3. Identifying, Analyzing, and Sequencing Cloned DNA

      7.4. Bioinformatics

      7.5. Analyzing Specific Nucleic Acids in Complex Mixtures

      7.6. Producing High Levels of Proteins from Cloned cDNAs

      7.7. Polymerase Chain Reaction: An Alternative to Cloning

      7.8. DNA Microarrays: Analyzing Genome-Wide Expression

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8. Genetic Analysis in Cell Biology

       8.1. Mutations: Types and Causes

       8.2. Isolation and Analysis of Mutants

       8.3. Genetic Mapping of Mutations

       8.4. Molecular Cloning of Genes Defined by Mutations

       8.5. Gene Replacement and Transgenic Animals

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9. Molecular Structure of Genes and Chromosomes

       9.1. Molecular Definition of a Gene

       9.2. Chromosomal Organization of Genes and Noncoding DNA

       9.3. Mobile DNA

       9.4. Functional Rearrangements in Chromosomal DNA

       9.5. Organizing Cellular DNA into Chromosomes

       9.6. Morphology and Functional Elements of Eukaryotic Chromosomes

       9.7. Organelle DNAs

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10. Regulation of Transcription Initiation

       10.1. Bacterial Gene Control: The Jacob-Monod Model

       10.2. Bacterial Transcription Initiation

       10.3. Eukaryotic Gene Control: Purposes and General Principles

       10.4. Regulatory Sequences in Eukaryotic Protein-Coding Genes

       10.5. Eukaryotic Transcription Activators and Repressors

       10.6. RNA Polymerase II Transcription-Initiation Complex

       10.7. Molecular Mechanisms of Eukaryotic Transcriptional Control

       10.8. Other Transcription Systems

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11. RNA Processing, Nuclear Transport, and Post-Transcriptional Control

       11.1. Transcription Termination

       11.2. Processing of Eukaryotic mRNA

       11.3. Regulation of mRNA Processing

       11.4. Signal-Mediated Transport through Nuclear Pore Complexes

       11.5. Other Mechanisms of Post-Transcriptional Control

       11.6. Processing of rRNA and tRNA

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12. DNA Replication, Repair, and Recombination

      12.1. General Features of Chromosomal Replication

      12.2. The DNA Replication Machinery

      12.3. The Role of Topoisomerases in DNA Replication

      12.4. DNA Damage and Repair and Their Role in Carcinogenesis

      12.5. Recombination between Homologous DNA Sites

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13. Regulation of the Eukaryotic Cell Cycle

      13.1. Overview of the Cell Cycle and Its Control

      13.2. Biochemical Studies with Oocytes, Eggs, and Early Embryos

      13.3. Genetic Studies with S. pombe

      13.4. Molecular Mechanisms for Regulating Mitotic Events

      13.5. Genetic Studies with S. cerevisiae

      13.6. Cell-Cycle Control in Mammalian Cells

      13.7. Checkpoints in Cell-Cycle Regulation

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14. Gene Control in Development

      14.1. Cell-Type Specification and Mating-Type Conversion in Yeast

      14.2. Cell-Type Specification in Animals

      14.3. Anteroposterior Specification during Embryogenesis

      14.4. Specification of Floral-Organ Identity in Arabidopsis

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15. Transport across Cell Membranes

      15.1. Diffusion of Small Molecules across Phospholipid Bilayers

      15.2. Overview of Membrane Transport Proteins

      15.3. Uniporter-Catalyzed Transport

      15.4. Intracellular Ion Environment and Membrane Electric Potential

      15.5. Active Transport by ATP-Powered Pumps

      15.6. Cotransport by Symporters and Antiporters

      15.7. Transport across Epithelia

      15.8. Osmosis, Water Channels, and the Regulation of Cell Volume

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16. Cellular Energetics: Glycolysis, Aerobic Oxidation, and Photosynthesis

      16.1. Oxidation of Glucose and Fatty Acids to CO2

      16.2. Electron Transport and Oxidative Phosphorylation

      16.3. Photosynthetic Stages and Light-Absorbing Pigments

      16.4. Molecular Analysis of Photosystems

      16.5. CO2 Metabolism during Photosynthesis

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17. Protein Sorting: Organelle Biogenesis and Protein Secretion

      17.1. Synthesis and Targeting of Mitochondrial and Chloroplast Proteins

      17.2. Synthesis and Targeting of Peroxisomal Proteins

      17.3. Overview of the Secretory Pathway

      17.4. Translocation of Secretory Proteins across the ER Membrane

      17.5. Insertion of Membrane Proteins into the ER Membrane

      17.6. Post-Translational Modifications and Quality Control in the Rough ER

      17.7. Protein Glycosylation in the ER and Golgi Complex

      17.8. Golgi and Post-Golgi Protein Sorting and Proteolytic Processing

      17.9. Receptor-Mediated Endocytosis and the Sorting of Internalized Proteins

      17.10. Molecular Mechanisms of Vesicular Traffic

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18. Cell Motility and Shape I: Microfilaments

      18.1. The Actin Cytoskeleton

      18.2. The Dynamics of Actin Assembly

      18.3. Myosin: The Actin Motor Protein

      18.4. Muscle: A Specialized Contractile Machine

      18.5. Actin and Myosin in Nonmuscle Cells

      18.6. Cell Locomotion

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19. Cell Motility and Shape II: Microtubules and Intermediate Filaments

      19.1. Microtubule Structures

      19.2. Microtubule Dynamics and Associated Proteins

      19.3. Kinesin, Dynein, and Intracellular Transport

      19.4. Cilia and Flagella: Structure and Movement

      19.5. Microtubule Dynamics and Motor Proteins during Mitosis

      19.6. Intermediate Filaments

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20. Cell-to-Cell Signaling: Hormones and Receptors

       20.1. Overview of Extracellular Signaling

       20.2. Identification and Purification of Cell-Surface Receptors

       20.3. G Protein –Coupled Receptors and Their Effectors

       20.4. Receptor Tyrosine Kinases and Ras

       20.5. MAP Kinase Pathways

       20.6. Second Messengers

       20.7. Interaction and Regulation of Signaling Pathways

       20.8. From Plasma Membrane to Nucleus

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21. Nerve Cells

       21.1. Overview of Neuron Structure and Function

       21.2. The Action Potential and Conduction of Electric Impulses

       21.3. Molecular Properties of Voltage-Gated Ion Channels

       21.4. Neurotransmitters, Synapses, and Impulse Transmission

       21.5. Neurotransmitter Receptors

       21.6. Sensory Transduction

       21.7. Learning and Memory
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22. Integrating Cells into Tissues

       22.1. Cell-Cell Adhesion and Communication

       22.2. Cell-Matrix Adhesion

       22.3. Collagen: The Fibrous Proteins of the Matrix

       22.4. Noncollagen Components of the Extracellular Matrix

       22.5. The Dynamic Plant Cell Wall

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23. Cell Interactions in Development

       23.1. Dorsoventral Patterning by TGFβ-Superfamily Proteins

       23.2. Tissue Patterning by Hedgehog and Wingless

       23.3. Molecular Mechanisms of Responses to Morphogens

       23.4. Reciprocal and Lateral Inductive Interactions

       23.5. Overview of Neuronal Outgrowth

       23.6. Directional Control of Neuronal Outgrowth

       23.7. Formation of Topographic Maps and Synapses

       23.8. Cell Death and Its Regulation
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24. Cancer

      24.1. Tumor Cells and the Onset of Cancer

      24.2. Proto-Oncogenes and Tumor-Suppressor Genes

      24.3. Oncogenic Mutations Affecting Cell Proliferation

      24.4. Mutations Causing Loss of Cell-Cycle Control

      24.5. Mutations Affecting Genome Stability

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Glossary

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