ADVANCES IN COMPARATIVE PHYSIOLOGY AND BIOCHEMISTRY

By Z. ELTAY

CONTENTS PART I EXPERIMENTAL TECHNIQUES FOR MEMBRANE PROTEIN STRUCTURE DETERMINATION 1 CRYSTALLIZATION OF MEMBRANE PROTEINS IN BICELLES 2 VAPOR DIFFUSION-CONTROLLED MESO CRYSTALLIZATION OF MEMBRANE PROTEINS 3 SOLUTION NMR STUDIES OF INTEGRAL POLYTOPIC A-HELICAL MEMBRANE PROTEINS: THE STRUCTURE DETERMINATION OF THE SEVEN-HELIX TRANSMEMBRANE RECEPTOR SENSORY RHODOPSIN II, PSRII 4 USE OF NMR SATURATION TRANSFER DIFFERENCE SPECTROSCOPY TO STUDY LIGAND BINDING TO MEMBRANE PROTEINS 5 HOW TO INVESTIGATE INTERACTIONS BETWEEN MEMBRANE PROTEINS AND LIGANDS BY SOLID-STATE NMR 6 IDENTIFYING AND MEASURING TRANSMEMBRANE HELIX–HELIX INTERACTIONS BY FRET 7 STUDYING SUBSTRATE BINDING TO RECONSTITUTED SECONDARY TRANSPORTERS BY ATTENUATED TOTAL RE?ECTION INFRARED DIFFERENCE SPECTROSCOPY 8 UV–VISIBLE AND INFRARED METHODS FOR INVESTIGATING LIPID–RHODOPSIN MEMBRANE INTERACTIONS 9 PROTEOMIC CHARACTERIZATION OF INTEGRAL MEMBRANE PROTEINS USING THERMOSTATTED LIQUID CHROMATOGRAPHY COUPLED WITH TANDEM MASS SPECTROMETRY PART II COMPUTATIONAL METHODS FOR PREDICTION OF MEMBRANE PROTEIN STRUCTURE AND DYNAMICS 10 LITICON: A DISCRETE CONFORMATIONAL SAMPLING COMPUTATIONAL METHOD FOR MAPPING VARIOUS FUNCTIONALLY SELECTIVE CONFORMATIONAL STATES OF TRANSMEMBRANE HELICAL PROTEINS 11 HOMOLOGY MODEL-ASSISTED ELUCIDATION OF BINDING SITES IN GPCRS 12 COMPARATIVE MODELING OF LIPID RECEPTORS 13 QUANTI?CATION OF STRUCTURAL DISTORTIONS IN THE TRANSMEMBRANE HELICES OF GPCRS 14 STRUCTURE PREDICTION OF G PROTEIN-COUPLED RECEPTORS AND THEIR ENSEMBLE OF FUNCTIONALLY IMPORTANT CONFORMATIONS 15 TARGET BASED VIRTUAL SCREENING BY DOCKING INTO AUTOMATICALLY GENERATED GPCR MODELS 16 PREDICTING THE BIOLOGICAL ACTIVITIES THROUGH QSAR ANALYSIS AND DOCKING-BASED SCORING 17 IDENTI?CATION OF MOTIONS IN MEMBRANE PROTEINS BY ELASTIC NETWORK MODELS AND THEIR EXPERIMENTAL VALIDATION 18 MODELING THE STRUCTURAL COMMUNICATION IN SUPRAMOLECULAR COMPLEXES INVOLVING GPCRS 19 EXPLORING SUBSTRATE DIFFUSION IN CHANNELS USING BIASED MOLECULAR DYNAMICS SIMULATIONS