Biophysical studies of membrane proteins/peptides. Interaction with ...

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M13 Coat Protein Lateral Distribution 2441 Melnyk, R., A. Partridge, and C. Deber. 2002. Transmembrane domain mediated self-assembly of major coat protein subunits from FF bacteriophage. J. Mol. Biol. 315:63–72. Mobashery, N., C. Nielsen, and O. S. Andersen. 1997. The conformational preference of gramicidin channels is a function of lipid bilayer thickness. FEBS Lett. 412:15–20. Mouritsen, O. G., and M. Bloom. 1984. Mattress model of lipid-protein interactions in membranes. Biophys. J. 46:141–153. Mouritsen, O. G., and K. Jørgensen. 1994. Dynamical order and disorder in lipid bilayers. Chem. Phys. Lipids. 73:3–25. Nezil, F. A., and M. Bloom. 1992. Combined influence of cholesterol and synthetic amphiphilic peptides upon bilayer thickness in model membranes. Biophys. J. 61:1176–1183. Otoda, K., S. Kimura, and Y. Imanishi. 1993. Orientation and aggregation of hydrophobic helical peptides in phospholipid bilayer membrane. Biochim. Biophys. Acta. 1150:1–8. Owen, C. S. 1975. Two-dimensional diffusion theory: cylindrical diffusion model applied to fluorescence quenching. J. Chem. Phys. 62:3204–3207. Razi-Naqvi, K. 1974. Diffusion-controlled reactions in two-dimensional fluids: discussion of measurements of lateral diffusion of lipids in biological membranes. Chem. Phys. Lett. 28:280–284. Ren, J., S. Lew, J. Wang, and E. London. 1999. Control of the transmembrane orientation and interhelical interactions within membranes by hydrophobic helix length. Biochemistry. 38:5905–5912. Russel, M. 1991. Filamentous phage assembly. Mol. Microbiol. 5:1607– 1613. Sanders, J. C., N. A. J. van Nuland, O. Edholm, and M. Hemminga. 1991. Conformational and aggregation of M13 coat protein studied by molecular dynamics. Biophys. Chem. 41:193–202. Shigematsu, D., M. Matsutani, T. Furuya, T. Kiyota, S. Lee, G. Sugihara, and S. Yamashita. 2002. Roles of peptide-peptide charge interaction and lipid phase separation in helix-helix association in lipid bilayer. Biochim. Biophys. Acta. 1564:271–280. Smith, L. M., B. A. Smith, and H. M. McConnell. 1979. Lateral diffusion of M-13 coat protein in model membranes. Biochemistry. 18:2256–2259. Smith, L. M., J. L. R. Rubenstein, J. W. Parce, and H. M. McConnel. 1980. Lateral diffusion of M-13 coat protein in mixtures of phosphatidylcholine and cholesterol. Biochemistry. 19:5907–5911. Sperotto, M. M., and O. G. Mouritsen. 1993. Lipid enrichment and selectivity of integral membrane proteins in two-component lipid bilayers. Eur. Biophys. J. 22:323–328. Spruijt, R. B., C. J. A. M. Wolfs, and M. A. Hemminga. 1989. Aggregation related conformational change of the membrane-associated coat protein of bacteriophage M13. Biochemistry. 28:9158–9165. Spruijt, R. B., C. J. A. M. Wolfs, J. W. G. Verver, and M. A. Hemminga. 1996. Accessibility and environment probing using cysteine residues introduced along the putative transmembrane domain of the major coat protein of bacteriophage M13. Biochemistry. 35:10383–10391. Spruijt, R. B., A. B. Meijer, C. J. A. M. Wolfs, and M. A. Hemminga. 2000. Localization and rearrangement modulation of the N-terminal arm of the membrane-bound major coat protein of the bacteriophage M13. Biochim. Biophys. Acta. 1509:311–323. Stopar, D., R. B. Spruijt, C. J. A. M. Wolfs, and M. A. Hemminga. 1997. In situ aggregational state of M13 bacteriophage major coat protein in sodium cholate and lipid bilayers. Biochemistry. 36:12268–12275. Tristam-Nagle, S., H. I. Petrache, and J. F. Nagle. 1998. Structure and interactions of fully hydrated dioleoylphosphatidylcholine bilayers. Biophys. J. 75:917–925. Umberger, J. Q., and V. K. Lamer. 1945. The kinetics of diffusioncontrolled molecular and ionic reactions in solution as determined by measurements of the quenching of fluorescence. J. Am. Chem. Soc. 67: 1099–1109. Webster, R. E., and N. G. Haigh. 1998. The major coat protein of filamentous bacteriophage F1 specifically pairs in the bacterial cytoplasmic membrane. J. Mol. Biol. 279:19–29. Wolber, P. K., and B. S. Hudson. 1979. An analytical solution to the Förster energy transfer problem in two dimensions. Biophys. J. 28:197–210. Woolford, J. L., Jr., J. S. Cashman, and R. E. Webster. 1974. F1 Coat protein synthesis and altered phospholipid metabolism in F1-infected Escherichia coli. Virology. 58:544–560. Biophysical Journal 85(4) 2430–2441
QUANTIFICATION OF PROTEIN-LIPID SELECTIVITY USING FRET: APPLICATION TO THE M13 MCP 3. QUANTIFICATION OF PROTEIN-LIPID SELECTIVITY USING FRET: APPLICATION TO THE M13 MAJOR COAT PROTEIN. 67
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UNIVERSIDADE TÉCNICA DE LISBOA INS
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Fernandes, F., Loura, L. M. S., Fed
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Ao Pedro e Hugo, amigos de longa da
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2.2. - Peptides as models 2.3. - Am
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ABBREVIATIONS AND SYMBOL LIST ABBRE
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RESUMO RESUMO As biomembranas são
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SINOPSE SINOPSE Nas últimas duas d
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SINOPSE podem fornecer informação
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SINOPSE aceitantes. Dadores mais pr
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OUTLINE OUTLINE The last two decade
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OUTLINE membranes with a distributi
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OUTLINE BAR domains (tubulation of
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ion diffusion, as the energy requir
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acid. If no more groups are linked
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sphingomyelin, the most abundant sp
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signal for neighbouring cells to ph
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functional role in process such as
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in the L α phase, while lateral di
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1.7. Lateral heterogeneity in lipid
Page 44 and 45: the vesicle through bilayer deforma
Page 46 and 47: Figure I.9 - Depiction of the sever
Page 48 and 49: Figure I.11 - Experimentally obtain
Page 50 and 51: drying into a film and ressuspensio
Page 52 and 53: deactivating agents. Zwitterionic d
Page 54 and 55: amphipatic helices (see Section 2.3
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Page 60 and 61: thickness of the bilayer (Section 1
Page 62 and 63: some α-helical membrane proteins a
Page 64 and 65: The formation of a lipid population
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Page 68 and 69: Figure I.20 - Relative binding cons
Page 70 and 71: 2.9. Lipid phase preferential parti
Page 72 and 73: In Figure I.21, theoretical simulat
Page 75 and 76: PROTEIN-PROTEIN AND PROTEIN-LIPID I
Page 77 and 78: PROTEIN-PROTEIN AND PROTEIN-LIPID I
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Page 83 and 84: 2430 Biophysical Journal Volume 85
Page 85 and 86: 2432 Fernandes et al. Coat protein
Page 87 and 88: 2434 Fernandes et al. leads to an a
Page 89 and 90: 2436 Fernandes et al. FIGURE 4 (A)
Page 91 and 92: 2438 Fernandes et al. section of th
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Page 98 and 99: FRET Study of Protein-Lipid Selecti
Page 107 and 108: BINDING OF INHIBITORS TO A PUTATIVE
Page 109 and 110: BINDING OF INHIBITORS TO A PUTATIVE
Page 111: INTERACTION OF THE INDOLE CLASS OF
Page 114 and 115: 5272 Biochemistry, Vol. 45, No. 16,
Page 123: BINDING ASSAYS OF INHIBITORS TOWARD
Page 126 and 127: 1778 F. Fernandes et al. / Biochimi
Page 136 and 137: apparently the most significant as
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Page 140 and 141: Introduction Quinolones are broad-s
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any case, very similar, probably wi
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placement of the protein around the
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⎛ II t ⎛ R ⎞ 0 ρ () t = exp
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APPENDIX - Derivation of the FRET r
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2 2w J ( t) = '2 R − R + w / 1
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[14] L. Plançon, M. Chami, L. Lete
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acceptors) (Eqs. 4-6) (⋅-⋅-⋅)
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FIGURE 1A FIGURE 1B 130
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136
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dynamin. Soon after, the same group
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140
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142
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Introduction Control of membrane re
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Steady-state fluorescence measureme
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Rho-DOPE (acceptor). The increase o
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where η is the viscosity of the me
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ound conformation of the BAR domain
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19. Fernandes, F., L. M. S. Loura,
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Figure Legends Fig.1: N-terminal am
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FIG. 1A FIG.1B 17
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FIG. 3A FIG. 3B 19
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FIG.5A 21
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FIG 6. 23
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FIG. 8 A B 25
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The signalling functions of PI(4,5)
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172
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174
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zoxadiazol (NBD)-PC were obtained f
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Fig. 3. Fluorescence decays of diph
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CONCLUSIONS VII CONCLUSIONS Chapter
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CONCLUSIONS constants recovered by
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CONCLUSIONS Chapter IV ‐ Binding
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CONCLUSIONS Chapter VI - Clustering
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FINAL CONSIDERATIONS AND PROSPECTS
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BIBLIOGRAPHY IX BIBLIOGRAPHY Albert
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BIBLIOGRAPHY Phosphatidylinositol 4
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BIBLIOGRAPHY Glaubitz, C., Grobner,
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BIBLIOGRAPHY Koehorst, R. B. M., Sp
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BIBLIOGRAPHY Mishra, V. K., Palguna
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BIBLIOGRAPHY Pluschke, G., Hirota,
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BIBLIOGRAPHY Sperotto, M. M., and M
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BIBLIOGRAPHY Williamson, I. M., Alv
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