 |
Handbook of proteins : structure, function and methods. volume 1 / editors, Michael M. Cox and George N. Phillips Jr. — Chichester : Wiley, c2007. – (58.17421073/H236/v.1) |
Contents
Contents
Volume 1
Contributors
Preface
How to Use This Book
Introduction
History of Protein Chemistry
Protein Structure
Amino Acid Side Chain Hydrophobicity
Amino Acid Substitutions: Effects on Protein Stability
Evolution of Protein Domains
Hydrogen Bonds in Proteins: Role and Strength 32
Hydrophobic Effect
Hydrophobic Interactions in Proteins
Immunoglobulin Fold: Structures of Proteins in the Immunoglobulin Superfamily
Mining Biological Databases
Molten Globule
Peptide Bonds， Disulfide Bonds and Properties of Small Peptides
Peptides: Biological Activities of Small Peptides
Primary Protein and Nucleic Acid Three-dimensiona Structure Databases
Proline Residues in Proteins
Protein Databases
Protein Denaturation and the Denatured State 98
Protein Design
Protein Family Databases
Protein Motifs: ATP-binding Motifs
Protein Motifs: GTP-binding Loop
Protein Motifs: the Helix-Loop-Helix Motif
Protein Motifs: the Helix-Turn-Helix Motif
Protein Motifs: the Leucine Zipper
Protein Motifs: Zinc-fingers
Protein Quaternary Structure: Subunit-Subunit Interactions
Protein Quaternary Structure: Symmetry Patterns
Protein Secondary Structures: Prediction
Protein Sequence Databases
Protein Stability
Protein Structural Flexibility: Molecular Motions 166
Protein Structure Classification 172
Protein Structure: Unusual Covalent Bonds
Protein Tertiary Structures: Prediction from Amino Acid Sequences
Protein Unfolding and Denaturants
Protein: Cotranslational and Posttranslational Modification in Organelles
Proteins: Fundamental Chemical Properties
Structural Databases of Biological Macromolecules 218
Unstructured Proteins
Protein Synthesis
Chaperones， Chaperonin and Heat-Shock Proteins 235
Chaperonins
Codon Usage in Molecular Evolution
Protein Folding In Vivo
Protein Synthesis Inhibitors
Protein Synthesis Initiation in Bacteria
Proteins: Postsynthetic Modification - Function and Physical Analysis
Protein Degradation
Amino Acid Degradation
Lysosomal Degradation of Proteins
Protease Complexes
Proteases
Ubiquitin Pathway
Enzymes
Binding Constants: Measurement and Biological Range
Engineered Enzymes
Enzymatic Rate Enhancements
Enzyme Activity: Control 347
Enzyme Classification and Nomenclature
Enzyme Kinetics: Steady State
Enzyme Kinetics: Transient Phase
Enzyme Specificity and Selectivity
Enzymes: General Properties
Enzymes: Purification
Enzymes: The Active Site
Radical Enzymes
Substrate Binding to Enzymes
Enzyme Activity
Acid-Base Catalysis by Enzymes
Binding and Catalysis
Covalent Nucleophilic Catalysis
Enzymatic Free Radical Reactions
Enzyme Activity and Assays
Enzyme Activity: AIIosteric Regulation
Enzyme Activity: Reversible Inhibition
Enzymes: Irreversible Inhibition
Ground State Destabilization
Metalloenzymes and Electrophilic Catalysis
Regulation by Covalent Modification
Thermodynamics in Biochemistry
Transition State Stabilization
Transition States: Substrate-induced Conformational Transitions
Enzyme Cofactors
Cobalamin Coenzymes and Vitamin B12
Coenzymes and Cofactors
Coenzymes: Haem
Enzymes: Coenzyme A Dependent
Enzymes: Phosphopantetheine Dependent
Flavin Coenzymes
Iron Cofactors: Non-haem
NAD+ and NADP+ as Prosthetic Groups for Enzymes
NADP+ Binding to Dehydrogenases
Protein-derived Cofactors
Quinone Cofactors
Thiamin Diphosphate and Vitamin B1 642
Volume 2
Protein-Ligand Interactions
Haemoglobin: Cooperativity in Protein-Ligand Interactions
Induced Fit
Protein-Ligand Interactions: Energetic Contributions and Shape Complementarity
Protein-Ligand Interactions: General Description 678
Protein-Ligand Interactions: Molecular Basis 691
Protein-Nucleic Acid Interactions
DNA Structure Changes Coupled to Protein Binding 703
DNA-binding Enzymes: Structural Themes 712
Protein Motifs for DNA Binding
Protein-DNA Complexes: Nonspecific
Protein-DNA Complexes: Specific
Protein-DNA Interactions
Protein-DNA Interactions: Energetics
Protein-DNA Interactions: Polyelectrolyte Effects 760
Protein-Nucleic Acid Interaction: Major Groove Recognition Determinants
Protein-RNA Interactions
Protein-Protein Interactions
Interaction Networks of Proteins
Protein-Protein Interactions
Membrane Proteins
ATPases: Ion-motive
Clathrin-coated Vesicles and Receptor-mediated Endocytosis
Ion Motive ATPases: V- and P-type ATPases
Membrane Proteins
Protein Translocation Across Membranes
Sodium， Calcium and Potassium Channels
Water Channels
Techniques: Production， Isolation and Purification
Autoradiography and Fluorography 851
Baculovirus Expression System
Capillary Electrophoresis
Chromatofocusing 858
Chromatographic Techniques
Electroelution of Proteins from Polyacrylamide Gels
Expression Tags for Protein Production
Gel Electrophoresis of Proteins: High-resolution Two-dimensional
Gel Electrophoresis: One-dimensiona
Gel Filtration
Gel Staining Techniques
Gene Expression in Yeast
Gene Synthesis for Protein Production
Hydrophobic Interaction Chromatography
Immunoglobulin Purification
Ion Exchange Chromatography
Liquid Chromatography
Peptide Mapping
Permeabilized Mammalian Cell Systems for Protein Synthesis
Protein Determination
Protein Identification: Overlay Procedures
Protein Production for Biotechnology 931
Protein Production in Mammalian Cells
Protein Synthesis: Measuring Errors
Solid-phase Peptide Synthesis: Fmoc
Techniques: Characterization
Alignment: Statistical Significance
Atomic Force Microscopy
Biological Macromolecules: UV-visible Spectrophotometry
Calorimetry
Centrifugation Techniques
Circular Dichroism: Studies of Proteins
Crystallization of Protein-DNA Complexes 979
Crystallization of Proteins and Protein-Ligand Complexes
Crystallization of Proteins: Two-dimensiona
Electron Cryomicroscopy
Electron Cryomicroscopy and Three-dimensional Computer Reconstruction of Biological Molecules
Electron Paramagnetic Resonance (EPR) and Spin-labelling
Enzymology Methods
Flow Cytometers
Fluorescence Resonance Energy Transfer 1016
Fluorescence Spectrophotometry
Fluorescent Analogues in Biological Research 1027
Fourier Transform Infrared
Green Fluorescent Protein (GFP)
Hydrophobicity Plots
Immuno-electron Microscopy
Low Angle Scattering of Neutrons and X-rays 1054
Macromolecular Structure Determination by X-ray Crystallography
Macromolecular Structure Determination Comparison of Crystallography and NMR
Mass Measurements by Scanning Transmission Electron Microscopy
Mass Spectrometry Instrumentation in Proteomics 1074
Mass Spectrometry: Analysis of Two-dimensional Protein Gels
Mass Spectrometry: Peptide Sequencing
Molecular Dynamics
Mutagenesis: Site-specific 1095
Normal Mode Analysis in Structural Biology 1106
Nuclear Magnetic Resonance (NMR) Spectroscopy of Proteins
Nuclear Magnetic Resonance (NMR) Spectroscopy: Structural Analysis of Proteins and Nucleic Acids
Nuclear Magnetic Resonance (NMR): Solid State
Optical Tweezers
Peptide Sequencing by Edman Degradation
Phase Problem in X-ray Crystallography， and its solution
Phosphorimager
protein Characterization: Analytical Approaches and applications to Proteomics
protein Structure Design and Engineering
proteomics: A Shotgun Approach without two-dimensional Gels
pulse-field Gel Electrophoresis
resonance Raman Spectroscopy
sedimentation
single-molecule Light Microscopy
spectroscopic Techniques
structural Genomics
Protein-Protein Interactions: Prediction
time-resolved X-ray Crystallography
transmission Electron Microscopy: Preparation of Specimens
Two-dimensional Electron Crystallography 1195
Two-photon Fluorescence Light Microscopy 1201
Ultracentrifugation
X-ray Absorption Spectroscopy
X-ray Diffraction at Synchroron Light Sources 1217
X-ray Diffraction: Principles
Techniques: Interactions
Array-based Proteomics 1233
Immunoprecipitation Techniques
Molecular Entry Point: Strategiesin Proteomics 1243
Protein-DNA Interactions: Techniques Used 1248
Protein-Ligand Interactions: Computational Docking
Protein-Protein Interactions: Identification 1259
Proteins: Affinity Tags
Tandem-affinity Purification (TAP) Tags 1275
