COMPARATIVE BIOCHEMISTRY: FREE ENERGY AND BIOLOGICAL FUNCTION

By W. BENAE

CONTENTS CHAPTER HISTORICAL PERSPECTIVES 1 1 INTRODUCTION TO PROTEOMICS / 1 2 PROTEOME AND PROTEOMICS / 1 3 GENETICS OF PROTEINS / 1 4 MOLECULAR BIOLOGY OF GENES AND PROTEINS / 1 5 PROTEIN CHEMISTRY BEFORE PROTEOMICS / REFERENCES / FURTHER READING / CHAPTER PROTEOMICS—RELATION TO GENOMICS, BIOINFORMATICS 2 1 GENOMICS / 2 2 BIOINFORMATICS AND COMPUTATIONAL BIOLOGY / METHODOLOGY FOR SEPARATION AND IDENTIFICATION OF PROTEINS AND THEIR INTERACTIONS 3 1 SEPARATION OF PROTEINS VIA A MULTIDIMENSIONAL APPROACH / 3 2 DETERMINATION OF THE PRIMARY STRUCTURE OF PROTEINS / 3 3 DETERMINATION OF THE 3D STRUCTURE OF A PROTEIN / 3 4 DETERMINATION OF THE AMOUNT OF PROTEINS / 3 5 STRUCTURAL AND FUNCTIONAL PROTEOMICS / PROTEOMICS OF PROTEIN MODIFICATIONS 4 1 PHOSPHORYLATION AND PHOSPHOPROTEOMICS / 4 2 GLYCOSYLATION AND GLYCOPROTEOMICS / 4 3 UBIQUITINATION AND UBIQUITINOMICS / 4 4 MISCELLANEOUS MODI?CATIONS OF PROTEINS / PROTEOMICS OF PROTEIN–PROTEIN INTERACTIONS/INTERACTOMES 5 1 PROTEIN—PROTEIN INTERACTIONS (PPI) IN VIVO / 5 2 ANALYSIS OF PROTEIN INTERACTIONS IN VITRO / 5 3 ANALYSIS OF PROTEIN INTERACTIONS IN SILICO / 5 4 SYNTHETIC GENETIC METHODS TO DETERMINE PROTEIN INTERACTIONS / 5 5 INTERACTOMES / 5 6 EVOLUTION AND CONSERVATION OF INTERACTOMES / 5 7 INTERACTOMES AND THE COMPLEXITY OF ORGANISMS: IT IS THE NUMBER OF INTERACTOMES THAT MATTERS IN UNDERSTANDING THE COMPLEXITY OF AN ORGANISM AND NOT THE NUMBER OF GENES / 5 8 INTERACTION OF PROTEINS WITH SMALL MOLECULES / APPLICATIONS OF PROTEOMICS I: PROTEOMICS, HUMAN DISEASE, AND MEDICINE 6 1 DISEASOME / 6 2 MEDICAL PROTEOMICS / 6 3 CLINICAL PROTEOMICS / 6 4 METAPROTEOMICS AND HUMAN HEALTH / 6 5 PROTEOMICS IN BIOTECHNOLOGY AND INDUSTRY OF DRUG PRODUCTION / 6 6 METAPROTEOMICS OF MICROBIAL FERMENTATION / 6 7 BEEF INDUSTRY / 6 8 BIOTERRORISM AND BIODEFENSE / PROTEOMICS—FUTURE DEVELOPMENTS 7 1 TECHNICAL SCOPE OF PROTEOMICS—BEYOND PROTEIN IDENTI?CATION / 7 2 SCIENTI?C SCOPE OF PROTEOMICS—CONTROL OF EPIGENESIS / 7 3 MEDICAL SCOPE OF PROTEOMICS / 7 4 PROTEOMICS, ENERGY PRODUCTION, AND BIOREMEDIATION / 7 5 PROTEOMICS AND BIODEFENSE /