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

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BIBLIOGRAPHY Sperotto, M. M., and Mouritsen, O. G.(1991). Monte Carlo Simulation Studies of Lipid Order Parameter Profiles Near Integral Membrane Proteins. Biochemistry 59: 261-270. Spruijt, R., and Hemminga, M. A. (1991). The in Situ Aggregational and Conformational State of the Major Coat Protein of Bacteriophage M13 in Phospholipid Bilayers Mimicking the Inner Membrane of Host Escherichia Coli. Biochemistry 30: 11147-11154. Spruijt, R., Wolfs, C., and Hemminga, M. (1999). M13 Phage. in “Encyclopedia of Molecular Biology.” (Ed. Creighton, T. E.), Wiley-Interscience, New York, U.S.A. Spuijt, R. B., Wolfs, C. J. A. M., Verveer, J. W. G., and Hemminga, M. (1996). Putative Transmembrane Domain of the Major Coat Protein of Bacteriophage M13. Biochemistry 35: 10383-10391. Stahlmannn, R., and Lode, H. (1999). Toxicity of Quinolones. Drugs 58: 37-42. Stopar, D., Jansen, K. A. J., Páli, T., Marsh, D., and Hemminga, M. A. (1997a). Membrane Location of Spin-Labeled M13 Major Coat Proteins Determined by Paramagnetic Relaxation Agents. Biochemistry 36: 8261-8268. Stopar, D., Spruijt, R., Wolfs, C. J. A. M., and Hemminga, M. A. (1997b). In Situ Aggregational State of M13 Bacteriophage Major Coat Protein in Sodium Cholate and Lipid Bilayers. Biochemistry 36: 12268- 12275. Stopar, D., Spruijt, R., Wolfs, C. J. A. M., and Hemminga, M. A. (1998). Mimicking Initial Interactions of Bacteriophage M13 Coat Protein Disassembly in Model Membrane Systems. Biochemistry 37: 10181- 10187. Stopar, D., Spruijt, R., Wolfs, C. J. A. M., and Hemminga, M. A. (2003). Protein-Lipid Interactions of Bacteriophage M13 Major Coat Protein. Biochim. Biophys. Acta 78451: 1-11. Takei, K., Haucke, V., Slepnev, V., Farsad, K., Salazar, M., Chen, H. and De Camilli, P. (1998). Generation of Coated Intermediates of Clathrin-Mediated Endocytosis on Protein-Free Liposomes. Cell 94: 131-141. Takei, K., Slepnev, V. I., Haucke, V., and De Camilli, P. (1999). Functional Partnership Between Amphiphysin and Dynamin in Clathrin-Mediated Endocytosis. Nat. Cell Biol. 1:33-39. Tanford, C. (1980). The Hydrophobic Effect. Wiley, New York, USA. Taylor, J. W. (1990). Peptide Models of dynorphin A(1-17) Incorporating Minimally Homologous Substitutes for the Potential Amphiphilic β-Strand in Residues 7-15. Biochemistry 29: 5364-5373 Taylor, A. H., Heavner, G., Nedelman, M., Sherris, D., Brunt, E., Knight, D., and Ghrayeb, J. (1995). Lipopolysaccharide (LPS) Neutralizing Peptides Reveal a Lipid A Binding Site of LPS Binding Protein. 203
J. Biol. Chem. 270: 17934-17938. Teitelbaum, S. L. (2000). Bone Resorption by Osteoclasts. Science 289: 1504-1508. van Rheenen, J., Achame, M. E., Janssen, H., Calafat, J., and Jalink, K. (2005). PIP 2 Signaling in Lipid Domains: A Critical Re-evaluation. EMBO J. 24: 1664-1673. Väänänen, K. (2005). Mechanism of osteoclast mediated bone resorption—rationale for the design of new therapeutics. Adv. Drug Deliv. Rev. 57: 959-971 Vázquez, J. L., Merino, S., Domenech, Ò, Berlanga, M., Viñas, M., Montero, M. T., and Hernández- Borrell, J. (2001). Determination of the Partition Coefficients of a Homologous Series of Ciprofloxacin: Influence of the N-4 Piperazinyl Alkylation on the Antimicrobial Activity. Int. J. Pharm. 220: 53-62. Visentin, L., Dodds, L. A., Valente, M., Misiano, P., Bradbeer, J. N., Oneta, S., Liang, X., Gowen, M., and Farina, C. (2000). A Selective Inhibitor of the Osteoclastic V-H + -ATPase Prevents Bone Loss in Both Thyroparathyroidectomized and Ovariectomized Rats. J. Clin. Invest. 103: 309-318. Wallin, E., Tsukihara, T., Yoshikawa, S., von Heijne, G., and Elofsson, A. (1997). Architecture of Helix Bundle Membrane Proteins. An Analysis of Cytochrome c Oxidase from Bovine Mitochondria. Protein Sci. 6: 808-815. Wang, J., Arbuzova, A., Hangyás-Milhályné, G., and McLaughlin, S. (2001). The Effector Domain of Myristoylated Alanine-rich C Kinase Substrate Binds Strongly to Phosphatidylinositol 4,5-Bisphosphate. J. Biol. Chem. 276: 5012-5019. Webb, M. S., Hui, S. W., and Steponkus, P. L. (1993). Dehydration Induced Lamellar-to-Hexagonal-II Phase Transitions in DOPE/DOPC Mixtures. Biochim. Biophys. Acta. 1145:93-104. Weiss, T. M., van der Wel, P. C. A., Killian, J. A., Koeppe II, R. E., and Huang, H. W. (2003). Hydrophobic Mismatch between Helices and Lipid Bilayers. Biophys. J. 84: 379-385. White, S. H., and Wimley, W. C. (1999). Membrane Protein Folding and Stability: Physical Principles. Annu. Rev. Biophys. Biomol. Struct. 28: 319-365. Whyteside, G., Meek, P. J., Ball, S. K., Dixon, N., Finbow, M. E., Kee, T. P., Findlay, J. B. C., and Harrison, M .A. (2005). Concanamycin and Indolyl Pentadieneamide Inhibitors of the Vacuolar H+- ATPase Bind with High Affinity to the Purified Proteolipid Subunit of the Membrane Domain. Biochemistry. 44: 15024-15031. Wiener, M. C., and White, S. H. (1992). Structure of a Fluid Dioleoylphosphatidylcholine Bilayer Determined by Joint Refinement of X-Ray and Neutron Diffraction Data. III. Complete Structure. Biophys. J. 61:434-447. 204
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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
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the vesicle through bilayer deforma
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Figure I.9 - Depiction of the sever
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Figure I.11 - Experimentally obtain
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drying into a film and ressuspensio
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deactivating agents. Zwitterionic d
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amphipatic helices (see Section 2.3
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size corresponding to the hydrophob
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changes abruptly in the interfacial
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thickness of the bilayer (Section 1
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some α-helical membrane proteins a
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The formation of a lipid population
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homogeneous distribution of lipids
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Figure I.20 - Relative binding cons
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2.9. Lipid phase preferential parti
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In Figure I.21, theoretical simulat
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PROTEIN-PROTEIN AND PROTEIN-LIPID I
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2430 Biophysical Journal Volume 85
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2432 Fernandes et al. Coat protein
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2434 Fernandes et al. leads to an a
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2436 Fernandes et al. FIGURE 4 (A)
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2438 Fernandes et al. section of th
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2440 Fernandes et al. tein oligomer
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QUANTIFICATION OF PROTEIN-LIPID SEL
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FRET Study of Protein-Lipid Selecti
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BINDING OF INHIBITORS TO A PUTATIVE
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BINDING OF INHIBITORS TO A PUTATIVE
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INTERACTION OF THE INDOLE CLASS OF
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5272 Biochemistry, Vol. 45, No. 16,
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BINDING ASSAYS OF INHIBITORS TOWARD
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1778 F. Fernandes et al. / Biochimi
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apparently the most significant as
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110
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Introduction Quinolones are broad-s
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[9-12]. Having this into considerat
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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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Page 184 and 185: Figure Legends Fig.1: N-terminal am
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Page 202 and 203: zoxadiazol (NBD)-PC were obtained f
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Page 206 and 207: CONCLUSIONS VII CONCLUSIONS Chapter
Page 208 and 209: CONCLUSIONS constants recovered by
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Page 212 and 213: CONCLUSIONS Chapter VI - Clustering
Page 214 and 215: FINAL CONSIDERATIONS AND PROSPECTS
Page 216 and 217: BIBLIOGRAPHY IX BIBLIOGRAPHY Albert
Page 218 and 219: BIBLIOGRAPHY Phosphatidylinositol 4
Page 220 and 221: BIBLIOGRAPHY Glaubitz, C., Grobner,
Page 222 and 223: BIBLIOGRAPHY Koehorst, R. B. M., Sp
Page 224 and 225: BIBLIOGRAPHY Mishra, V. K., Palguna
Page 226 and 227: BIBLIOGRAPHY Pluschke, G., Hirota,
Page 230: BIBLIOGRAPHY Williamson, I. M., Alv
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