Abstract
Membrane proteins exist in a lipid bilayer and provide for cell–cell communication, transport solutes, and convert energies. Detergents are used to extract membrane proteins and keep them in solution for purification and subsequent analyses. The atomic force microscope (AFM) is a powerful tool for imaging and manipulating membrane proteins in their native state without the necessity to solubilize them. It allows membranes that are adsorbed to flat solid supports to be raster-scanned in physiological solutions with an atomically sharp tip. Therefore, AFM is capable of observing biological molecular machines at work. Superb images of native membranes have been recorded, and a quantitative interpretation of the data acquired using the AFM tip has become possible. In addition, multifunctional probes to simultaneously acquire information on the topography and electrical properties of membrane proteins have been produced. This progress is discussed here and fosters expectations for future developments and applications of AFM and single-molecule force spectroscopy.
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References
Binnig, G., C. F. Quate, and C. Gerber. 1986. Atomic force microscopy. Phys. Rev. Lett. 56:930–933.
Drake, B., C. B. Prater, A. L. Weisenhorn, S. A. Gould, T. R. Albrecht, C. F. Quate, D. S. Cannell, H. G. Hansma, and P. K. Hansma. 1989. Imaging crystals, polymers and processes in water with the atomic force microscope. Science 243:1586–1589.
Hoh, J. H., R. Lal, S. A. John, J. P. Revel, and M. F. Arnsdorf. 1991. Atomic force microscopy and dissection of gap junctions. Science 253:1405–1408.
Buzhynskyy, N., J. F. Girmens, W. Faigle, and S. Scheuring. 2007. Human cataract lens membrane at subnanometer resolution. J Mol Biol 374:162–169.
Czajkowsky, D. M., E. M. Hotze, Z. Shao, and R. K. Tweten. 2004. Vertical collapse of a cytolysin prepore moves its transmembrane beta-hairpins to the membrane. Embo J 23:3206–3215.
Kienberger, F., H. Mueller, V. Pastushenko, and P. Hinterdorfer. 2004. Following single antibody binding to purple membranes in real time. EMBO Rep 5:579–583.
Müller, D. J., and A. Engel. 2007. Atomic force microscopy and spectroscopy of native membrane proteins. Nat Protoc 2:2191–2197.
Müller, D. J., G. M. Hand, A. Engel, and G. E. Sosinsky. 2002. Conformational changes in surface structures of isolated connexin 26 gap junctions. EMBO Journal 21:3598–3607.
Müller, D. J., and A. Engel. 1999. Voltage and pH-induced channel closure of porin OmpF visualized by atomic force microscopy. J Mol Biol 285:1347–1351.
Engel, A., and H. E. Gaub. 2008. Structure and mechanics of membrane proteins. Annu Rev Biochem 77:127–148.
Kedrov, A., H. Janovjak, K. T. Sapra, and D. J. Müller. 2007. Deciphering molecular interactions of native membrane proteins by single-molecule force spectroscopy. Annu Rev Biophys Biomol Struct 36:233–260.
Hoogenboom, B. W., H. J. Hug, Y. Pellmont, S. Martin, P. L. T. M. Frederix, D. Fotiadis, and A. Engel. 2006. Quantitative dynamic-mode scanning force microscopy in liquid. Appl. Phys. Lett. 88:193109.
Nikaido, H., and M. Vaara. 1985. Molecular basis of bacterial outer membrane permeability. Microbiol. Rev. 49:1–32.
Schindler, H., and J. P. Rosenbusch. 1978. Matrix protein from Escherichia coli outer membranes forms voltage-controlled channels in lipid bilayers. Proc. Natl. Acad. Sci. USA 75:3751–3755.
Brunen, M., and H. Engelhardt. 1993. Asymmetry of orientation and voltage gating of the Acidovorax-delafieldii porin Omp34 in lipid bilayers. Eur. J. Biochem. 212:129–135.
Sen, K., J. Hellman, and H. Nikaido. 1988. Porin channels in intact cells of Escherichia coli are not affected by donnan potentials across the outer membrane. J. Biol. Chem. 263:1182–1187.
Todt, J. C., W. J. Rocque, and E. J. McGroarty. 1992. Effects of pH on bacterial porin function. Biochem. 31:10471–10478.
Delcour, A. H. 1997. Function and modulation of bacterial porins: insights from electrophysiology. FEMS Microbiol Lett 151:115–123.
Cowan, S. W., T. Schirmer, G. Rummel, M. Steiert, R. Ghosh, R. A. Pauptit, J. N. Jansonius, and J. P. Rosenbusch. 1992. Crystal structures explain functional properties of two E. coli porins. Nature 358:727–733.
Schirmer, T. 1998. General and specific porins from bacterial outer membranes. J. Stuct. Biol. 121:101–109.
Schulz, G. 1993. Bacterial porins: structure and function. Curr. Opin. Cell Biol. 5:701–707.
Phale, R. S., T. Schirmer, A. Prilipov, K.-L. Lou, A. Hardmeyer, and J. Rosenbusch. 1997. Voltage gating of Escherichia coli porin channels: role of the constriction loop. Proc. Natl. Acad. Sci. USA 94:6741–6745.
Schabert, F. A., C. Henn, and A. Engel. 1995. Native Escherichia coli OmpF porin surfaces probed by atomic force microscopy. Science 268:92–94.
Fotiadis, D., S. Scheuring, S. A. Müller, A. Engel, and D. J. Müller. 2002. Imaging and manipulation of biological structures with the AFM. Micron 33:385–397.
Müller, D. J., D. Fotiadis, S. Scheuring, S. A. Müller, and A. Engel. 1999. Electrostatically balanced subnanometer imaging of biological specimens by atomic force microscopy. Biophys J 76:1101–1111.
Müller, D. J., and A. Engel. 1997. The height of biomolecules measured with the atomic force microscope depends on electrostatic interactions. Biophys J 73:1633–1644.
Israelachvili, J. 1991. Intermolecular & surface forces. Academic Press Limited, London.
Müller, D. J., M. Amrein, and A. Engel. 1997. Adsorption of biological molecules to a solid support for scanning probe microscopy. J Struct Biol 119:172–188.
Karshikoff, A., V. Spassov, S. W. Cowan, R. Ladenstein, and T. Schirmer. 1994. Electrostatic properties of two porin channels from Escherichia coli. J. Mol. Biol. 240:372–384.
Andersen, C., B. Schiffler, A. Charbit, and R. Benz. 2002. PH-induced collapse of the extracellular loops closes Escherichia coli maltoporin and allows the study of asymmetric sugar binding. J Biol Chem 277:41318–41325.
Yildiz, O., K. R. Vinothkumar, P. Goswami, and W. Kuhlbrandt. 2006. Structure of the monomeric outer-membrane porin OmpG in the open and closed conformation. Embo J 25:3702–3713.
Mari, S. A., S. Koster, C. A. Bippes, O. Yildiz, W. Kuhlbrandt, and D. J. Müller. 2010. pH-induced conformational change of the beta-barrel-forming protein OmpG reconstituted into native E. coli lipids. J Mol Biol 396:610–616.
Mannella, C. A. 1986. Mitochondrial outer membrane channel (VDAC, porin) two-dimensional crystals from Neurospora. Methods Enzymol 125:595–610.
Hiller, S., and G. Wagner. 2009. The role of solution NMR in the structure determinations of VDAC-1 and other membrane proteins. Curr Opin Struct Biol 19:396–401.
Hoogenboom, B. W., K. Suda, A. Engel, and D. Fotiadis. 2007. The supramolecular assemblies of voltage-dependent anion channels in the native membrane. J Mol Biol 370:246–255.
Goncalves, R. P., N. Buzhynskyy, V. Prima, J. N. Sturgis, and S. Scheuring. 2007. Supramolecular assembly of VDAC in native mitochondrial outer membranes. J Mol Biol 369:413–418.
Frederix, P. L., P. D. Bosshart, and A. Engel. 2009. Atomic force microscopy of biological membranes. Biophys J 96:329–338.
Frederix, P. L. T. M., P. D. Bosshart, T. Akiyama, M. Chami, M. R. Gullo, J. J. Blackstock, K. Dooleweerdt, N. F. de Rooij, U. Staufer, and A. Engel. 2008. Conductive supports for combined AFM-SECM on biological membranes. Nanotechnology 19.
Scheuring, S., D. J. Müller, P. Ringler, J. B. Heymann, and A. Engel. 1999. Imaging streptavidin 2D crystals on biotinylated lipid monolayers at high resolution with the atomic force microscope. J Microsc 193:28–35.
Cisneros, D. A., D. J. Müller, S. M. Daud, and J. H. Lakey. 2006. An approach to prepare membrane proteins for single-molecule imaging. Angew Chem Int Ed Engl 45:3252–3256.
Müller, D. J., A. Engel, U. Matthey, T. Meier, P. Dimroth, and K. Suda. 2003. Observing membrane protein diffusion at subnanometer resolution. J Mol Biol 327:925–930.
Tanaka, M., and E. Sackmann. 2005. Polymer-supported membranes as models of the cell surface. Nature 437:656–663.
Wagner, M. L., and L. K. Tamm. 2000. Tethered polymer-supported planar lipid bilayers for reconstitution of integral membrane proteins: silane-polyethyleneglycol-lipid as a cushion and covalent linker. Biophys J 79:1400–1414.
Müller, D., and A. Engel. 2008. Strategies to prepare and characterize native membrane proteins and protein membranes by AFM. Curr Opin in Colloids & Interface Science 13:338–350.
Goncalves, R. P., G. Agnus, P. Sens, C. Houssin, B. Bartenlian, and S. Scheuring. 2006. Two-chamber AFM: probing membrane proteins separating two aqueous compartments. Nat Methods 3:1007–1012.
Uchihashi, T., M. J. Higgins, S. Yasuda, S. P. Jarvis, S. Akita, Y. Nakayama, and J. E. Sader. 2004. Quantitative force measurements in liquid using frequency modulation atomic force microscopy. Applied Physics Letters 85:3575–3577.
Fukuma, T., K. Kobayashi, K. Matsushige, and H. Yamada. 2005. True atomic resolution in liquid by frequency-modulation atomic force microscopy. Appl. Phys. Lett. 87:034101.
Acknowledgments
The author thanks Daniel J. Müller, Dimitrios Fotiadis, and Bart Hoogenboom for providing beautiful topographs and constructive discussions. This work was supported by the Maurice E. Müller Foundation of Switzerland and by the Swiss National Foundation. The used AFM facility was built with contributions from the Swiss University Conference and JPK-Instruments AG, Berlin, Germany.
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Engel, A. (2011). Imaging and Interrogating Native Membrane Proteins Using the Atomic Force Microscope. In: Braga, P., Ricci, D. (eds) Atomic Force Microscopy in Biomedical Research. Methods in Molecular Biology, vol 736. Humana Press. https://doi.org/10.1007/978-1-61779-105-5_11
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DOI: https://doi.org/10.1007/978-1-61779-105-5_11
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