Abstract
Membrane proteins are an important class of proteins in biology and therapeutics. Understanding the dynamic nature of the molecular interactions that stabilize membrane protein structure is critical to dissect the mechanism of action and dysfunction of these proteins. Single-molecule force spectroscopy (SMFS) and dynamic SMFS (DFS) are emerging nanotechniques that allow the study of membrane proteins under the physiologically relevant conditions of a lipid bilayer and buffer conditions. These techniques directly probe the molecular interactions underlying protein structure and reveal unique insights about their properties. Outlined in this report will be procedures on how to conduct SMFS and DFS on rhodopsin in native retinal membranes. Rhodopsin is a membrane protein belonging to the G protein-coupled receptor family of proteins, one of the largest families of proteins in nature.
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References
Müller DJ (2008) AFM: a nanotool in membrane biology. Biochemistry 47:7986–7998
Whited AM, Park PS (2014) Atomic force microscopy: a multifaceted tool to study membrane proteins and their interactions with ligands. Biochim Biophys Acta 1838:56–68
Kedrov A, Janovjak H, Sapra KT et al (2007) Deciphering molecular interactions of native membrane proteins by single-molecule force spectroscopy. Annu Rev Biophys Biomol Struct 36:233–260
Papermaster DS, Dreyer WJ (1974) Rhodopsin content in the outer segment membranes of bovine and frog retinal rods. Biochemistry 13:2438–2444
Sapra KT, Park PS, Filipek S et al (2006) Detecting molecular interactions that stabilize native bovine rhodopsin. J Mol Biol 358:255–269
Park PS, Sapra KT, Kolinski M et al (2007) Stabilizing effect of Zn2+ in native bovine rhodopsin. J Biol Chem 282:11377–11385
Park PS, Sapra KT, Jastrzebska B et al (2009) Modulation of molecular interactions and function by rhodopsin palmitylation. Biochemistry 48:4294–4304
Evans E (2001) Probing the relation between force–lifetime–and chemistry in single molecular bonds. Annu Rev Biophys Biomol Struct 30:105–128
Sapra KT, Park PS, Palczewski K et al (2008) Mechanical properties of bovine rhodopsin and bacteriorhodopsin: possible roles in folding and function. Langmuir 24:1330–1337
Kawamura S, Colozo AT, Müller DJ et al (2010) Conservation of molecular interactions stabilizing bovine and mouse rhodopsin. Biochemistry 49:10412–10420
Mendes HF, van der Spuy J, Chapple JP et al (2005) Mechanisms of cell death in rhodopsin retinitis pigmentosa: implications for therapy. Trends Mol Med 11:177–185
Sieving PA, Richards JE, Naarendorp F et al (1995) Dark-light: model for nightblindness from the human rhodopsin Gly-90 –> Asp mutation. Proc Natl Acad Sci U S A 92:880–884
Kawamura S, Colozo AT, Ge L et al (2012) Structural, energetic, and mechanical perturbations in rhodopsin mutant that causes congenital stationary night blindness. J Biol Chem 287:21826–21835
Kawamura S, Gerstung M, Colozo AT et al (2013) Kinetic, energetic, and mechanical differences between dark-state rhodopsin and opsin. Structure 21:426–437
Zocher M, Fung JJ, Kobilka BK et al (2012) Ligand-specific interactions modulate kinetic, energetic, and mechanical properties of the human beta2 adrenergic receptor. Structure 20:1391–1402
Müller DJ, Engel A (2007) Atomic force microscopy and spectroscopy of native membrane proteins. Nat Protoc 2:2191–2197
Fotiadis D, Müller DJ (2013) High-resolution imaging of 2D outer membrane protein F crystals by atomic force microscopy. Methods Mol Biol 955:461–474
Sapra KT (2013) Atomic force microscopy and spectroscopy to probe single membrane proteins in lipid bilayers. Methods Mol Biol 974:73–110
Butt H-J, Jaschke M (1995) Calculation of thermal noise in atomic force microscopy. Nanotechnology 6:1–7
Bustamante C, Marko JF, Siggia ED et al (1994) Entropic elasticity of lambda-phage DNA. Science 265:1599–1600
Evans E (1999) Looking inside molecular bonds at biological interfaces with dynamic force spectroscopy. Biophys Chem 82:83–97
Molday RS, Hicks D, Molday L (1987) Peripherin. A rim-specific membrane protein of rod outer segment discs. Invest Ophthalmol Vis Sci 28:50–61
Bosshart PD, Casagrande F, Frederix PL et al (2008) High-throughput single-molecule force spectroscopy for membrane proteins. Nanotechnology 19:384014
Bosshart PD, Frederix PL, Engel A (2012) Reference-free alignment and sorting of single-molecule force spectroscopy data. Biophys J 102:2202–2211
Struckmeier J, Wahl R, Leuschner M et al (2008) Fully automated single-molecule force spectroscopy for screening applications. Nanotechnology 19:384020
Rief M, Gautel M, Oesterhelt F et al (1997) Reversible unfolding of individual titin immunoglobulin domains by AFM. Science 276:1109–1112
Müller DJ, Kessler M, Oesterhelt F et al (2002) Stability of bacteriorhodopsin alpha-helices and loops analyzed by single-molecule force spectroscopy. Biophys J 83:3578–3588
Dietz H, Rief M (2004) Exploring the energy landscape of GFP by single-molecule mechanical experiments. Proc Natl Acad Sci U S A 101:16192–16197
Bieri O, Wirz J, Hellrung B et al (1999) The speed limit for protein folding measured by triplet-triplet energy transfer. Proc Natl Acad Sci U S A 96:9597–9601
Howard J (2001) Mechanics of motor proteins and the cytoskeleton. Sinauer Associates, Inc., Sunderland, MA
Acknowledgments
This work was funded by the European Community’s Seventh Framework Programme [FP7/2007–2013] under grant agreement n° [211800], Swiss National Science Foundation, National Institutes of Health (R01EY021731), and Research to Prevent Blindness (Career Development Award).
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Park, P.SH., Müller, D.J. (2015). Dynamic Single-Molecule Force Spectroscopy of Rhodopsin in Native Membranes. In: Jastrzebska, B. (eds) Rhodopsin. Methods in Molecular Biology, vol 1271. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2330-4_12
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DOI: https://doi.org/10.1007/978-1-4939-2330-4_12
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