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

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BIBLIOGRAPHY IX BIBLIOGRAPHY Alberts, B., Johnson, A., Lewis, J., Raff, M., Roberts, K., and Walter, P. (2002) Molecular Biology of the Cell. 4 th Ed. Garland Science, Oxford, UK. Albini, A., and Monti, S. (2003). Photophysics and Photochemistry of Fluoroquinolones. Chem. Soc. Rev. 32: 238-250. Anantharamaiah, G. M., Jones, M. K., and Segrest, J. P. (1993) An Atlas of the Amphipatic Helical Domains of Human Exchangeable Plasma Apolipoproteins. In The Amphipatic Helix. Ed. Epand, R. M. CRC Press, Boca-Raton, U.S.A. Arnold, K., Losche, A., and Gawrisch, K. (1981). 31p-NMR Investigations of Phase Separation in Phosphatidylcholine/Phosphatidylethanolamine Mixtures. Biochem. Biophys. Acta. 645:143–148. Auger, I. E. (1993) Computational Techniques to Predict Amphipatic Helical Segments. in The Amphipatic Helix. Ed. Epand, R. M. CRC Press, Boca-Raton, U.S.A. Bagatolli, L. A., and Gratton, E. (2000). Two Photon Fluorescence Microscopy of Coexisting Llipid Domains in Giant Unilamellar Vesicles of Binary Phospholipid Mixtures. Biophys. J. 78: 290-305. Ben-Shaul, A. (1995). Molecular Theory of Chain Packing, Elasticity and Lipid-Protein Interactions in Lipid Bilayers. In “Structure and Dynamics of Membranes. . From Cells to Vesicles.” (Eds Lipowsky, R., and Sackmann, E.) North Holland, Amsterdam, The Netherlands. Berg, J. M, Tymoczko, J. L., and Stryer, L. (2002). Biochemistry. 5 th Ed. W. H. Freeman, New York, USA. Bloom, M. E., and Mouritsen, O. G. (1984). Mattress Model of Lipid-Protein Interactions in Membranes. Biophys. J. 46: 141-153. Botelho, R. J., Teruel, M., Dierckman, R., Anderson, R., Wells, A., York, J. D., Meyer, T., and Gristein, S. (2000). Localized Biphasic Changes in Phosphatidylinositol-4,5-Bisphosphate at Sites of Phagocytosis. J. Cell. Biol. 151: 1353-1367. Bowman, B. J., and Bowman, E. J. (2002). Mutations in Subunit c of the Vacuolar ATPase Confer Resistance to Bafilomycin and Identify a Conserved Antibiotic Binding Site. J. Biol. Chem. 277: 3965- 3972. 191
Bowman, E. J., Graham, L. A., Stevens, T. H., and Bowman, B. J. (2004). The Bafilomycin/Concanamycin Binding Site in Subunit c of the V-ATPase from Neurospora crassa and Sacharomyces cerevisiae. J. Biol. Chem. 279: 33131-33138. Bowman, B. J., McCall, M. E., Baertsch, R., and Bowman, E. J. (2006). A Model for the Proteolipid Ring and Bafilomycin/Concanamycin-binding Site in the Vacuolar ATPase of Neurospora crassa. J. Biol. Chem. 42: 31885-31893. Brasseur, R. (1991). Differentiation of lipid-associating helices by use of three-dimensional molecular hydrophobicity potential calculations. J. Biol. Chem. 266: 16120-16127. Braun, P., and von Heijne, G. (1999). The Aromatic Residues Trp and Phe Have Different Effects on the Positioning of a Transmembrane Helix in the Microsomal Membrane. Biochemistry 38: 9778-9782. Caputo, G. A., and London, E. (2003). Cumulative Effects of Amino-Acid Substitution and Hydrophobic Mismatch Upon the Transmembrane Stability and Conformation of Hydrophobic α-Helices. Biochemistry 42: 3275-3285. Caputo, G. A., and London, E. (2004). Position and Ionization State of Asp in the Core of Membrane- Inserted α-Helices Control Both the Equilibrium between Transmembrane and Nontransmembrane Helix Topography and Transmembrane Helix Positioning. Biochemistry 42: 3275-3285. Chapman, J. S., and Georgopapadakou, N. H. (1988). Routes of Quinolone Permeation in Escherichia coli. Antimicrob. Agents and Chemoter. 32: 438-442. Chevalier, J., Malléa, M., and Pagés, J. M. (2000). Comparative Aspects of the Diffusion of Norfloxacin, Cefepime and Spermine through the F Porin Channel of Enterobacter cloacae. J. Biochem. 348: 223-227. Dawson, J. C., Legg, J. A., and Machesky, L. M. (2006). Bar Domain Proteins: A Role in Tubulation, Scission and Actin Assembly in Clathrin-Mediated Endocytosis. Trends Cell Biol. 16: 493-498. de Almeida, R. F. M., Loura, L. M. S., Fedorov, A., and Prieto, M. (2002). Nonequilibrium Phenomena in the Phase Separation of a Two-Component Lipid Bilayer. Biophys. J. 82: 823-834. de Planque, M. R. R., Killian, J. A. (2003). Protein-Lipid Interactions Studied With Designed Transmembrane Peptides: Role of Hydrophobic Matching and Interfacial Anchoring. Mol. Memb. Biol. 20: 271-284. Dechené, M., Leying, H., and Cullman, W. (1990). Role of the Outer Membrane for Quinolone Resistance in Enterobacteria. Chemoterapy 36: 13-23. Denisov, G., Wanaski, S., Luan, P., Glaser, M., and McLaughlin, S. (1998). Binding of Basic Peptides to Membranes Produces Lateral Domains Enriched in the Acidic Lipids Phosphatidylserine and 192
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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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Page 172 and 173: Introduction Control of membrane re
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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
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 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 228 and 229: BIBLIOGRAPHY Sperotto, M. M., and M
Page 230: BIBLIOGRAPHY Williamson, I. M., Alv
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