Correction of high-resolution data for curvature of the Ewald sphere - PubMed (original) (raw)
Correction of high-resolution data for curvature of the Ewald sphere
D J DeRosier. Ultramicroscopy. 2000 Mar.
Abstract
At sufficiently high resolution, which depends on the wavelength of the electrons, the thickness of the sample exceeds the depth of field of the microscope. At this resolution, pairs of beams scattered at symmetric angles about the incident beam are no longer related by Friedel's law; that is, the Fourier coefficients that describe their amplitudes and phases are no longer complex conjugates of each other. Under these conditions, the Fourier coefficients extracted from the image are linear combinations of independent (as opposed to Friedel related) Fourier coefficients corresponding to the three-dimensional (3-D) structure. In order to regenerate the 3-D scattering density, the Fourier coefficients corresponding to the structure have to be recovered from the Fourier coefficients of each image. The requirement for different views of the structure in order to collect a full 3-D data set remains. Computer simulations are used to determine at what resolution, voltage and specimen thickness the extracted coefficients differ significantly from the Fourier coefficients needed for the 3-D structure. This paper presents the theory that describes this situation. It reminds us that the problem can be treated by considering the curvature of the Ewald sphere or equivalently by considering that different layers within the structure are imaged with different amounts of defocus. The paper presents several methods to extract the Fourier coefficients needed for a 3-D reconstruction. The simplest of the methods is to take images with different amounts of defocus. For helical structures, however, only one image is needed.
Similar articles
- Ewald sphere correction using a single side-band image processing algorithm.
Russo CJ, Henderson R. Russo CJ, et al. Ultramicroscopy. 2018 Apr;187:26-33. doi: 10.1016/j.ultramic.2017.11.001. Epub 2018 Jan 12. Ultramicroscopy. 2018. PMID: 29413409 Free PMC article. - Ewald sphere correction for single-particle electron microscopy.
Wolf M, DeRosier DJ, Grigorieff N. Wolf M, et al. Ultramicroscopy. 2006 Mar;106(4-5):376-82. doi: 10.1016/j.ultramic.2005.11.001. Epub 2005 Dec 9. Ultramicroscopy. 2006. PMID: 16384646 - Measurement of crystal thickness and crystal tilt from HRTEM images and a way to correct for their effects.
Hovmöller S, Zou X. Hovmöller S, et al. Microsc Res Tech. 1999 Aug 1;46(3):147-59. doi: 10.1002/(SICI)1097-0029(19990801)46:3<147::AID-JEMT1>3.0.CO;2-1. Microsc Res Tech. 1999. PMID: 10420172 - Single-particle reconstruction from EM images of helical filaments.
Egelman EH. Egelman EH. Curr Opin Struct Biol. 2007 Oct;17(5):556-61. doi: 10.1016/j.sbi.2007.07.006. Epub 2007 Sep 11. Curr Opin Struct Biol. 2007. PMID: 17851070 Free PMC article. Review. - Cryo-EM Structure Determination Using Segmented Helical Image Reconstruction.
Fromm SA, Sachse C. Fromm SA, et al. Methods Enzymol. 2016;579:307-28. doi: 10.1016/bs.mie.2016.05.034. Epub 2016 Jun 28. Methods Enzymol. 2016. PMID: 27572732 Review.
Cited by
- Cryo-EM structures of herpes simplex virus type 1 portal vertex and packaged genome.
Liu YT, Jih J, Dai X, Bi GQ, Zhou ZH. Liu YT, et al. Nature. 2019 Jun;570(7760):257-261. doi: 10.1038/s41586-019-1248-6. Epub 2019 May 29. Nature. 2019. PMID: 31142842 Free PMC article. - The Ewald sphere/focus gradient does not limit the resolution of cryoEM reconstructions.
Heymann JB. Heymann JB. J Struct Biol X. 2022 Dec 30;7:100083. doi: 10.1016/j.yjsbx.2022.100083. eCollection 2023. J Struct Biol X. 2022. PMID: 36632443 Free PMC article. - Limiting factors in atomic resolution cryo electron microscopy: no simple tricks.
Zhang X, Zhou ZH. Zhang X, et al. J Struct Biol. 2011 Sep;175(3):253-63. doi: 10.1016/j.jsb.2011.05.004. Epub 2011 May 24. J Struct Biol. 2011. PMID: 21627992 Free PMC article. Review. - Sub-2 Å Ewald curvature corrected structure of an AAV2 capsid variant.
Tan YZ, Aiyer S, Mietzsch M, Hull JA, McKenna R, Grieger J, Samulski RJ, Baker TS, Agbandje-McKenna M, Lyumkis D. Tan YZ, et al. Nat Commun. 2018 Sep 7;9(1):3628. doi: 10.1038/s41467-018-06076-6. Nat Commun. 2018. PMID: 30194371 Free PMC article. - Near-atomic resolution using electron cryomicroscopy and single-particle reconstruction.
Zhang X, Settembre E, Xu C, Dormitzer PR, Bellamy R, Harrison SC, Grigorieff N. Zhang X, et al. Proc Natl Acad Sci U S A. 2008 Feb 12;105(6):1867-72. doi: 10.1073/pnas.0711623105. Epub 2008 Jan 31. Proc Natl Acad Sci U S A. 2008. PMID: 18238898 Free PMC article.