Abstract
Hydrogen-deuterium exchange coupled to mass spectrometry is a powerful tool to evaluate changes in protein conformation between two or more states. Here, we describe a complete methodology that can be used to assess conformational changes in rhodopsin accompanying its transition from the inactive to activated state upon light exposure. This approach may be employed to investigate the structure and conformational changes of various membrane proteins.
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References
Orban T, Jastrzebska B, Gupta S et al (2012) Conformational dynamics of activation for the pentameric complex of dimeric G protein-coupled receptor and heterotrimeric G protein. Structure 20:826–840
Papermaster DS (1982) Preparation of retinal rod outer segments. Methods Enzymol 81:48–52
Okada T, Le Trong I, Fox BA et al (2000) X-Ray diffraction analysis of three-dimensional crystals of bovine rhodopsin obtained from mixed micelles. J Struct Biol 130:73–80
Su X, Lucas DM, Zhang L et al (2009) Validation of an LC-MS based approach for profiling histones in chronic lymphocytic leukemia. Proteomics 9:1197–1206
Xu H, Freitas MA (2007) A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data. BMC Bioinformatics 8:133
Xu H, Freitas MA (2008) Monte carlo simulation-based algorithms for analysis of shotgun proteomic data. J Proteome Res 7:2605–2615
Xu H, Freitas MA (2009) MassMatrix: a database search program for rapid characterization of proteins and peptides from tandem mass spectrometry data. Proteomics 9:1548–1555
Xu H, Zhang L, Freitas MA (2008) Identification and characterization of disulfide bonds in proteins and peptides from tandem MS data by use of the MassMatrix MS/MS search engine. J Proteome Res 7:138–144
Weis DD, Engen JR, Kass IJ (2006) Semi-automated data processing of hydrogen exchange mass spectra using HX-Express. J Am Soc Mass Spectrom 17:1700–1703
Acknowledgements
We would like to thank Dr. Malligarjunan Rajavel and Ms. Alicia Quick for their helpful comments and critical reading of the manuscript.
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Orban, T., Tsybovsky, Y. (2015). Probing Conformational Changes in Rhodopsin Using Hydrogen-Deuterium Exchange Coupled to Mass Spectrometry. 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_8
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DOI: https://doi.org/10.1007/978-1-4939-2330-4_8
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Publisher Name: Humana Press, New York, NY
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Online ISBN: 978-1-4939-2330-4
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