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

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BIBLIOGRAPHY Pluschke, G., Hirota, Y, and Overath, P. (1978). Function of Phospholipids in Escherichia Coli. Characterization of a Mutant Deficient in Cardiolipin Synthesis. J. Biol. Chem. 253: 5048-5055. Popot, J.-L., and Engelman, D. M. (1990). Membrane Protein Folding and Oligomerization: The Ttwo- Stage Model. Biochemistry 29: 4031-4037. Popot, J. L. (1993). Integral Membrane Protein Structure: Transmembrane Alpha-Helices as Autonomous Folding Domains.Curr. Opin. Struct. Biol. 3: 532-540. Powl, A. M., East, J. M., and Lee, A. G. (2003). Lipid-Protein Interactions Studied by Introduction of a Tryptophan Residue: The Mechanosensitive Channel MscL. Biochemistry 42: 14306-14317. Quintiliani, R., Owens, R. C., and Grant, E. M. (1999). Clinical Role of Fluoroquinolones in Patients With Respiratory Tract Infections. Infect. Dis. Clin. Pract. 8: 28-41. Rauch, M. E., Ferguson, C. G., Prestwich, G. D., and Cafiso, D. S. (2002). Myristoylated Alanine-Rich C Kinase Substrate (MARCKS) Sequesters Spin-labeled Phosphatidylinositol 4,5-Bisphosphate in Lipid Bilayers. J. Biol. Chem. 277: 14068-14076. Redfern, D. A., and Gericke, A. (2004). Domain Formation in Phosphatidylinositol Monophosphate/Phosphatidylcholine Mixed Vesicles. Biophys. J. 86: 2980-2992. Redfern, D.A., and Gericke, A. (2005). pH-Dependent Domain Formation in Phosphatidylinositol Polyphosphate/Phosphatidylcholine Mixed Vesicles. J. Lipid Res. 46: 504-515. Ren, J., Lew, S., Wang, J., and London, E. (1997). Transmembrane Orientation of Hydrophobic α- Helices is Regulated Both by the Relationship of Helix Length to Bilayer Thickness and by the Cholesterol Concentration. Biochemistry 36: 10213-10220. Ren, J., Lew, S., Wang, J., and London, E. (1999). Control of the Transmembrane Orientation and Interhelical Interactions Within Membranes by Hydrophobic Length. Biochemistry 38: 5905-5912 Richnau, N., Fransson, A., Farsad, K., and Aspenstrom, P. (2004). RICH-1 has a BIN/Amphiphysin/Rvsp Domain Responsible for Binding to Membrane Lipids and Tubulation of Liposomes. Biochem. Biophys. Res. Commun. 320: 1034-1042. Ried, C., Wahl, C., Miethke, T., Wellnhofer, G., Landgraf, C., Schneider-Mergener, J., and Hoess, A. (1996). High Affinity Endotoxin-Binding and Neutralizing Peptides Based on the Crystal Structure of Recombinant Limulus Anti-Lipopolysaccharide Factor. J. Biol. Chem. 271: 28120-28127. Rigaud, J.-L., Paternoste, M.-T., and Pitard, B. (1995). Reconstitution of Membrane Proteins Into Liposomes: Application to Energy Transducing Membrane Proteins. Biochim. Biophys. Acta. 1231: 223- 246. 201
Rodan, G. A. and Martin, T. J. (2000). Therapeutic Approaches to Bone Diseases. 289: 1508-1414. Rodriguez, N., Pincet, F., and Cribier, S. (2005) Giant Vesicles Formed by Gentle Hydration and Electroformation: A Comparison by Fluorescence Microscopy. Coll. Surf. B: Biointerfaces 42: 125-130. Russel, M. (1991). Filamentous Phage Assembly. Mol. Microbiol. 5: 1607-1613. Sackmann, E. (1995). Biological Membranes Architecture and Function in Structure and Dynamics of Membranes. From Cells to Vesicles. Eds Lipowsky, R., and Sackmann, E. North Holland, Amsterdam, The Netherlands. Sanders, J. C., Ottaviani, M. F., van Hoek, A., Visser, A. J. W. G., and Hemminga, M. A. (1992). A Small Protein in Model Membranes: A Time Resolved Fluorescence and ESR Study on the Interaction of M13 Coat Protein With Lipid Bilayers. Eur. Biophys. J. 21: 305-311. Santos, N. C., Prieto, M., and Castanho, M. A. R. B. (2003). Quantifying Molecular Partition into Model Systems of Biomembranes: an Emphasis on Optical Spectroscopic Methods. Biophys. Biochim. Acta 1612: 123-135. Scatigno, A. C., Garrido, S. S., and Marchetto, R. (2004). A 4.2 kDa Synthetic Peptide as a Potential Probe to Evaluate the Antibacterial Activity of Coumarin Drugs. J. Peptide Sci. 10: 566-577. Schiffer, M., and Edmundson, A. B. (1967). Use of Helical Wheels to Represent the Structures of Proteins and to Identify Segments with Helical Potential. Biophys. J. 7: 121-135. Seddon, J. M., and Templer, R. H. (1995). Polymorphism of Lipid-Water Systems in Structure and Dynamics of Membranes. From Cells to Vesicles. Eds Lipowsky, R., and Sackmann, E. North Holland, Amsterdam, The Netherlands. Seddon, A. M., Curnow, P., and Booth, P. J. (2004). Membrane Proteins, Lipids and Detergents: Not Just a Soap Opera. Biochim. Biophys. Acta 1666: 105-117. Seelig, J. (2004). Thermodynamics of Lipid-Peptide Interactions. Biochim. Biophys. Acta 1666: 40-50. Shimshick, E. J., and McConnell, H. M. (1973). Lateral Phase Separation in Phospholipid Membranes. Biochemistry. 12:2351–2360. Silvius, J. R. (1990). Calcium-induced Lipid Phase Separations and Interactions of Phosphatidylcholine/Anionic Phospholipid Vesicles. Fluorescence Studies Using Carbazole-Labeled and Brominated Phospholipids. Biochemistry. 24: 2930-2938. Simons, K., and Ikonen, E. (1997). Functional Rafts in Cell Membranes. Nature 387:569-572. Singer, S. J., and Nicolson, G. L. (1972). The Fluid Mosaic Model of the Structure of Cell Membranes. Science 175: 720-731. 202
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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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Page 180 and 181: ound conformation of the BAR domain
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Page 184 and 185: Figure Legends Fig.1: N-terminal am
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Page 196 and 197: The signalling functions of PI(4,5)
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Page 202 and 203: zoxadiazol (NBD)-PC were obtained f
Page 204 and 205: Fig. 3. Fluorescence decays of diph
Page 206 and 207: CONCLUSIONS VII CONCLUSIONS Chapter
Page 208 and 209: CONCLUSIONS constants recovered by
Page 210 and 211: CONCLUSIONS Chapter IV ‐ Binding
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 228 and 229: BIBLIOGRAPHY Sperotto, M. M., and M
Page 230: BIBLIOGRAPHY Williamson, I. M., Alv
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