Table of contents for Biophysical labeling methods in molecular biology / Gertz I. Likhtenshtein.


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1. The method of spin labeling                                   1
1.1. Introduction                                              1
1.2. Structure of nitroxide labels and probes                  3
1.3. ESR signals of NRs: magnetic parameters                  6
1.4. Methods of measurement of the ESR signal parameters     10
1.4.1. Stationary methods                                 10
1.4.2. Pulse methods                                      17
1.5. Rotational diffusion of nitroxides                      21
1.5.1. General                                           21
1.5.2. Elements of the theory of the ESR spectra of
rotating nitroxides                                 22
1.5.3. Very slow rotation                                24
1.5.4. Slow-motion regions                               29
1.5.5. Fast-rotation regions                             31
1.5.6. Rotations in different regions                    34
1.5.7. High-frequncy low-amplitude dynamics              36
1.5.8. Superslow motion                                  37
1.6. Nitroxides as dielectric, pH, and redox probes           38
1.7. Nitroxides in ESR tomography                            41
1.8. Spin traps                                              43
2. Double-labeling techniques                                   46
2.1. General                                                  46
2.2. Effects of spin-spin interactions on the parameters of
ESR spectra                                              48
2.2.1. Principal effects                                  48
2.2.2. On the parameters of ESR signals of paramagnetics  50
2.2.3. Spin-spin interactions in biradicals and polyradicals
and paramagnetic complexes of metals with
nitroxide ligands                                   53
2.3. Determination of the distance between spins               57
2.4. The spin label-spin probe method                         62
2.4.1. General                                            62
2.4.2. Selection of spin probes                           66
2.4.3. Investigation of steric, electrostatic, and exchange
effects                                              67
2.4.4. Determination of the immersion depth of a radical
center                                               70
2.4.5. NRs in oxymetry                                    71
2.5. Nuclear magnetic resonance of paramagnetic systems        74
3. Fluorescent labeling methods                                  80
3.1. General                                                   80
3.1.1. Absorption spectra                                 80
3.1.2. Fluorescence and phosphorescence                   83
3.2. Chemical properties of fluorescent labels and probes      85
3.3. Rotational diffusion of fluorescent chromophores          93
3.3.1. Depolarization of fluorescence                     93
3.4. Fluorescence and molecular dynamics of the medium         96
3.5. Study of local acidity and electrostatic and polar
properties of biological objects                          99
3.5.1. Measurement of pH                                  99
3.5.2. Measurements of electric charge density,
transmembrane potential, and ion concentration      100
3.5.3. Measurement of polarity: on the dynamic polarity
scale                                               102
3.6. Inductive resonance energy transfer as a method of
investigating structures and dynamics of biological
objects                                                  104
3.6.1. Mechanism of inductive resonance energy transfer   104
3.6.2. Estimation of the distance between donor and
acceptor groups                                     106
3.6.3. Orientation factor                                107
3.7. Dynamic quenching of fluorescence as an approach to
the study of molecular dynamics                          111
3.8. Charge transfer complexes, excimers, and exciplexes as
luminescent probes                                        112
3.9. Study of slow translational diffusion: photobleaching
and fluctuation techniques                                114
4. Triplet labeling methods                                     116
4.1. Peculiarities of triplet excited states                  116
4.2. Structures and chemical properties of triplet probes     118
4.3. Exchange interactions with participation of excited
triplet states: elements of theory                       120
4.4. Static exchange: experimental data                      124
4.5. Dynamic exchange processes                              126
4.5.1. Elements of theory                               126
4.5.2. Experimental data                                 127
4.6. Photochrome probes                                      130
4.7. The triplet probe-photochrome labeling method           133
5. M8ssbauer spectroscopy, electron scattering, and other
labeling methods                                             136
5.1. M6ssbauer labels                                        136
5.1.1. Physical principles                               136
5.1.2. Dynamic effects in M6ssbauer spectroscopy         139
5.2. NMR probes                                              141
5.3. Total tritium labeling technique                        143
5.4. Electron-scattering labels                              144
5.4.1. General                                           144
5.4.2. Physical grounds                                  146
5.4.3. Modification of biological objects by electron-
scattering labels                                  148
5.4.4. Electron microscopy determination of shape and
size of electron-scattering particles              154
6. Studies of proteins and enzymes: structure, dynamics, and
mechanism of action                                          158
6.1. Active centers of enzymes                               158
6.1.1. Serine proteases                                  158
6.1.2. Nitrogenase                                       161
6.1.3. Dehydrogenases                                    166
6.1.4. Cytochrome P-450                                  168
6.1.5. Myosin and actin                                  170
6.1.6. Other enzymes and proteins                        171
6.2. Conformational changes in proteins and enzymes          175
6.2.1. Large-scale and allosteric conformational changes  175
6.2.2. Transglobular conformational transition           177
6.3. Molecular dynamic properties of proteins and enzymes    180
6.3.1. General                                           180
6.3.2. Experimental data                                 182
6.3.3. Dynamics and functional activities of proteins    188
6.4. Physical labeling as a tool for studying the electron
transfer mechanism                                      195
6.4.1. General                                           195
6.4.2. Delocalization of spin density and local polarity
in proteins                                       196
6.4.3. Collisions between molecules: steric factor      197
6.4.4. Mechanisms of dynamic adaptation at electron
transfer                                          198
7. Structure and dynamics of membranes                        201
7.1. Model membranes                                        203
7.1.1. Structure of model membranes: localization of
labels and probes                                 203
7.1.2. Molecular dynamic properties and conformational
transitions in model membranes                    209
7.1.3. Mixed and protein-lipid model membranes          217
7.2. Biological membranes                                   221
7.2.1. Erythrocyte membranes                            221
7.2.2. Sarcoplasmic reticulum                           223
7.2.3. Rhodopsin membranes                              225
7.2.4. Microsomes                                       226
7.2.5. Acetylcholine receptor                           228
7.2.6. Membranes of chromatophores of photosynthetic
bacteria                                          229
7.2.7. Other membranes                                  231
8. Nucleic acids and other biological systems: biological assays  233
8.1. Nucleic acids                                          233
8.1.1. Modification of nucleic acids with physical labels  233
8.1.2. Investigation of microstructure and
conformational changes in nucleic acids           236
8.2. Polysaccharides                                        239
8.2.1. Glycoproteins                                    240
8.2.2. Cotton fibers and cellulose                      241
8.3. Spin-labeled, physiologically active compounds         243
8.4. Cells, tissues, organisms                              248
8.4.1. Distribution of labels: microcomponent
localization of cells                             248
8.4.2. Redox properties of cells                        250
8.5. Biological assays                                      252
8.6. Biological analyses                                    255
8.6.1. Biologically active ions and compounds           255
8.6.2. Immunological assays                             259



Library of Congress subject headings for this publication: Biophysical labeling, Molecular biology Technique