Abstract
In the past, various formats have been used to present data fidelity of electron crystallographic data from images of two-dimensional crystals. While each scheme provides some information about the data, not all schemes are equally useful for presenting data reliability. This brief chapter gives guidelines on how to look at datasets that are solely derived from images, and on how to summarize the data structure through graphical outputs that provide unbiased and detailed information about data quality. By the time of publication, the actual procedures described here will have been integrated into the 2dx package and therefore, these evaluation tools will be available at a “push of a button.” Because of this, the chapter focuses on brief explanations for why certain ways of presenting data make more sense than others.
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References
Unger VM (2000) Assessment of electron crystallographic data obtained from two-dimensional crystals of biological specimens. Acta Crystallogr D Biol Crystallogr D56:1259–1269
Aller SG, Unger VM (2006) Projection structure of the human copper transporter CTR1 at 6-Å resolution reveals a compact trimer with a novel channel-like architecture. Proc Natl Acad Sci USA 103:3627–3632
Valpuesta JM, Carrascosa JL, Henderson R (1994) Analysis of electron microscope images and electron diffraction patterns of thin crystals of Θ29 connectors in ice. J Mol Biol 240:281–287
Subramaniam S, Gerstein M, Oesterhelt D, Henderson R (1993) Electron diffraction analysis of structural changes in the photocycle of bacteriorhodopsin. EMBO J 12(1):1–8
Han BG, Vonck J, Glaeser RM (1994) The bacteriorhodopsin photocycle: direct structural study of two substrates of the M-intermediate. Biophys J 67(3):1179–1186
Vonck J (1996) A three-dimensional difference map of the N intermediate in the bacteriorhodopsin photocycle: part of the F-helix tilts in the M to N transition. Biochemistry 35:5870–5878
Hendrickson FM, Burkard F, Gleaser RM (1998) Structural characterization of the L-to-M transition of the bacteriorhodopsin photocycle. Biophys J 75:1446–1454
Subramaniam S, Henderson R (1999) Electron crystallography of bacteriorhodpsin with millisecond time resolution. J Struct Biol 128:19–25
Appel M, Hizlan D, Vinothkumar KR, Ziegler C, Kühlbrandt W (2009) Conformation of NhaA, the Na/H Exchanger from Escherichia coli, in the pH-activated and ion-translocating states. J Mol Biol 386(2):351–365
Cheng A, Yeager M (2004) A graphical representation of image quality for three-dimensional structure analysis of two-dimensional crystals. Acta Crystallogr D Biol Crystallogr A60:351–354
De Feo CJ, Aller SG, Siluvai GS, Blackburn NJ, Unger VM (2009) Three-dimensional structure of the human copper transporter hCTR1. Proc Natl Acad Sci USA 106(11):4237–4242
Lindahl M, Henderson R (1997) Structure of the bacteriorhodopsin D85N/D96N double mutant showing substantial structural changes and a highly twinned, disordered lattice. Ultramicroscopy 70:95–106
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Unger, V.M. (2013). Evaluation of Electron Crystallographic Data from Images of Two-Dimensional Crystals. In: Schmidt-Krey, I., Cheng, Y. (eds) Electron Crystallography of Soluble and Membrane Proteins. Methods in Molecular Biology, vol 955. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-176-9_12
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DOI: https://doi.org/10.1007/978-1-62703-176-9_12
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Publisher Name: Humana Press, Totowa, NJ
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