Verfügbarkeit: Biomedical applications of biophysics

Biomedical applications of biophysics:

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Weitere Verfasser:	Jue, Thomas (HerausgeberIn)
Format:	Buch
Sprache:	English
Veröffentlicht:	New York [u.a.] Humana Press 2010
Schriftenreihe:	Handbook of modern biophysics 3
Online-Zugang:	Inhaltsverzeichnis
Beschreibung:	XI, 237 S. Ill., graph. Darst.
ISBN:	9781603272322

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Datensatz im Suchindex

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adam_text	IMAGE 1 C ONTENTS 1 PROTEIN STRUCTURE PREDICTION PATRICE KOEHL 1.1. INTRODUCTION ......................................................................................................................... 1 1.2. BASIC PRINCIPLES OF PROTEIN STRUCTURE................................................................................... 3 1.3. THE ENERGETICS OF PROTEIN STRUCTURE..................................................................................... 8 1.4. HOMOLOGY MODELING ........................................................................................................... 10 1.5. AB-INITIO PROTEIN STRUCTURE PREDICTION................................................................................. 20 1.6. 1.7. CONCLUSIONS ......................................................................................................................... 26 2 MOLECULAR MODELING OF BIOMEMBRANES: A HOW-TO APPROACH ALLISON N. DICKEY AND ROLAND FALLER 2.1. INTRODUCTION TO MOLECULAR DYNAMICS................................................................................... 35 2.2. SPECIFICS OF THE MOLECULAR MODELING OF BIOMEMBRANES ..................................................... 37 2.3. FORCE FIELDS: SIMULATION MODELS......................................................................................... 38 2.4. DEGREE OF DETAIL: ATOMISTIC VERSUS COARSE-GRAINED ........................................................... 39 2.5. VISUALIZATIONS ...................................................................................................................... 41 2.6. AREA PER MOLECULE AND THICKNESS, COMPARISON TO X-RAY DATA...................................................................................................................... 41 2.7. ORDER PARAMETERS AND OTHER SINGLE-LIPID PROPERTIES .......................................................... 42 2.8. RADIAL DISTRIBUTION FUNCTIONS.............................................................................................. 44 2.9. HYDROGEN BONDING AND ADVANCED STATIC ANALYSIS.............................................................. 44 2,10, PRESSURE AND PRESSURE PROFILES............................................................................................. 46 2.11. TWO-DIMENSIONAL DIFFUSION................................................................................................ 46 2.12. REORIENTATIONS AND NMR..................................................................................................... 48 2.13. DYNAMICS OF INDIVIDUAL MOLECULES: CORRELATIONS OF DISTRIBUTION FUNCTIONS..................................................................................................... 49 2.14. INTERACTIONS WITH SMALL MOLECULES ...................................................................................... 49 2.15. SUMMARY ............................................................................................................................. 51 V II THE CASP EXPERIMENT ........................................................................................................ 25 IMAGE 2 VIII CONTENTS 3 INTRODUCTION TO ELECTRON PARAMAGNETIC RESONANCE SPECTROSCOPY MARCIN BRYNDA 3.1. INTRODUCTION ......................................................................................................................... 59 3.2. HISTORICAL BACKGROUND......................................................................................................... 60 3.3. BASIC EQUATIONS ................................................................................................................... 61 3.4. SPIN HAMILTONIAN................................................................................................................. 63 3.5. CONTINUOUS WAVE (CW) VERSUS PULSED EPR TECHNIQUES .................................................................................................................. 70 3.6. EPR INSTRUMENTATION ........................................................................................................... 75 37. EPR MEASUREMENTS IN SOLUTION AND SOLID STATE.................................................................. 79 3.8. TIME-RESOLVED EPR ............................................................................................................ 82 3.9. DYNAMIC PROCESSES OBSERVED BY EPR ................................................................................ 83 3.10. MULTIFREQUENCY EXPERIMENTS ............................................................................................... 85 3.11. QUANTUM CHEMISTRY CALCULATIONS........................................................................................ 88 3.12. EPR IN BIOLOGY AND IN BIOINORGANIC CHEMISTRY.................................................................. 91 4 THEORY AND APPLICATIONS OF BIOMOLECULAR NMR SPECTROSCOPY JAMES B. AMES 4.1. INTRODUCTION ......................................................................................................................... 99 4.2. NUCLEAR AND ELECTRONIC SPIN ................................................................................................ 100 4.3. QUANTUM DESCRIPTION OF NUCLEAR SPIN ................................................................................ 100 4.4. SPIN-STATE POPULATIONS IN ENSEMBLES .................................................................................. 101 4.5. NUCLEAR SHIELDING AND CHEMICAL SHIFT ................................................................................ 103 4.6. NMR SCALAR COUPLING ......................................................................................................... 103 4.7. DIPOLAR COUPLING................................................................................................................. 104 4.8. NMR RELAXATION AND DYNAMICS.......................................................................................... 105 4.9. NEURONAL CALCIUM SENSOR PROTEINS...................................................................................... 108 4.10. NMR STRUCTURAL ANALYSIS OF CA 2+ -MYRISTOYL SWITCH PROTEINS.................................................................................................................... 110 4.11. SUMMARY ............................................................................................................................. 114 5 FRET AND ITS BIOLOGICAL APPLICATION AS A MOLECULAR RULER JIE ZHENG 5.1. INTRODUCTION ......................................................................................................................... 119 5.2. DISTANCE DEPENDENCE OF FRET EFFICIENCY.......................................................................... 121 IMAGE 3 HANDBOOK OF MODERN BIOPHYSICS, VOLUME 3 IX 5.3. SPECTRA OVERLAP BETWEEN FRET PAIRS ................................................................................. 122 5.4. ORIENTATION FACTOR................................................................................................................ 122 5.5. ADVANTAGES OF FRET FOR BIOLOGICAL APPLICATIONS............................................................... 123 5.6. DONOR DEQUENCHING............................................................................................................. 125 5.7. ENHANCED ACCEPTOR EMISSION.............................................................................................. 125 5.8. THREE-CUBE FRET ............................................................................................................... 126 5.9. SPECTRA FRET ...................................................................................................................... 126 5.10. FLUORESCENCE INTENSITY RATIO BETWEEN DONOR AND ACCEPTOR ............................................................................................................ 126 5.11. LIFETIME MEASUREMENTS ....................................................................................................... 127 5.12. FRET QUANTIFICATION THROUGH PHOTOBLEACHING RATE MEASUREMENTS ............................................................................................................. 127 5.13. PROTEIN COMPLEX FORMATION ................................................................................................ 128 5.14. SUBUNIT STOICHIOMETRY OF PROTEIN COMPLEX......................................................................... 129 5.15. BINDING OF LIGANDS OR MODULATORY MOLECULES .................................................................... 129 5.16. CONFORMATIONAL REARRANGEMENTS......................................................................................... 130 5.17. INTRACELLULAR EVENT INDICATORS .............................................................................................. 131 6 INTRODUCTION TO MODERN TECHNIQUES IN MASS SPECTROMETRY CAROLINE S. CHU AND CARLITO B. LEBRILLA 6.1. INTRODUCTION ......................................................................................................................... 137 6.2. IONIZATION TECHNIQUES (ION SOURCES) ................................................................................... 138 6.3. ELECTRON IMPACT ................................................................................................................... 138 6.4. CHEMICAL IONIZATION............................................................................................................. 139 6.5. ELECTROSPRAY IONIZATION........................................................................................................ 139 6.6. MATRIX-ASSISTED LASER DESORPTION/IONIZATION...................................................................... 141 6.7. FOURIER TRANSFORM ION CYCLOTRON RESONANCE ...................................................................... 143 6.8. TIME OF FLIGHT...................................................................................................................... 146 6.9. TANDEM MASS SPECTROMETRY ................................................................................................ 148 6.10. COLLISION-INDUCED DISSOCIATION ........................................................................................... 148 6.11. INFRARED MULTIPHOTON DISSOCIATION ...................................................................................... 149 6.12. ELECTRON CAPTURE DISSOCIATION ............................................................................................. 150 6.13. ELECTRON TRANSFER DISSOCIATION ............................................................................................ 150 6.14. SUMMARY ............................................................................................................................. 150 IMAGE 4 X CONTENTS 7 TRANSMISSION ELECTRON MICROSCOPY AND COMPUTER-AIDED IMAGE PROCESSING FOR 3D STRUCTURAL ANALYSIS OF MACROMOLECULES DOMINIK J. GREEN AND R. HOLLAND CHENG 7.1. THE TRANSMISSION ELECTRON MICROSCOPE .............................................................................. 155 7.2. PHASE-CONTRAST IMAGING....................................................................................................... 160 7.3. THE CONTRAST TRANSFER FUNCTION........................................................................................... 161 7.4. THE PROJECTION THEOREM AND SINGLE-PARTICLE RECONSTRUCTION.............................................. 164 7.5. ADVANTAGES OF SPR OVER X-RAY CRYSTALLOGRAPHY................................................................ 166 7.6. SAMPLE PREPARATION.............................................................................................................. 167 7.7. IMAGING CONDITIONS ............................................................................................................. 168 7.8. DATA VALIDATION.................................................................................................................... 168 7.9. DATA SELECTION AND PREPARATION............................................................................................ 169 7.10. MULTIVARIATE STATISTICAL ANALYSIS.......................................................................................... 169 7.11. CLASSIFICATION ....................................................................................................................... 172 7.12. ANGULAR RECONSTITUTION........................................................................................................ 174 7.13. REFERENCE-BASED REFINEMENT .............................................................................................. 174 7.14. INITIAL MODEL GENERATION ..................................................................................................... 176 7.15. RECONSTRUCTION TECHNIQUES ................................................................................................. 179 7.16. RELIABILITY ASSESSMENT ........................................................................................................ 179 7.17. ANALYSIS OF HETEROGENEITY ................................................................................................... 180 7.18. SUMMARY ............................................................................................................................. 181 8 RAMAN SPECTROSCOPY OF LIVING CELLS TYLER WEEKS AND THOMAS HUSER 8.1. INTRODUCTION ......................................................................................................................... 185 8.2. RAMAN SCATTERING: INELASTIC LIGHT SCATTERING BY MOLECULAR BONDS..................................... 186 8.2.1. THE INDUCED DIPOLE MOMENT.................................................................................. 188 8.2.2. POLARIZABILITY AND RAMAN SCATTERING....................................................................... 189 8.2.3. SPECTROSCOPY........................................................................................................... 192 8.2.4. EXPERIMENTAL IMPLEMENTATION OF MICRO-RAMAN SPECTROSCOPY............................... 196 8.2.5. SIGNAL CALIBRATION ................................................................................................... 200 8.2.6. SAMPLE PREPARATION................................................................................................. 201 8.2.7. ADVANCED FORMS OF RAMAN SPECTROSCOPY.............................................................. 202 8.3. SUMMARY ............................................................................................................................. 207 PROBLEM SOLUTIONS ...................................................................................................... 211 INDEX ............................................................................................................................ 231
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title_fullStr	Biomedical applications of biophysics Thomas Jue, ed.
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