Three-dimensional CTF correction improves the resolution of electron tomograms

Journal of Structural Biology

Volumn 197, Issue 2, 2017, Pages 114-122

  Kunz, Michael ^a   Frangakis, Achilleas S ^a  

^a GOETHE UNIVERSITY   (Germany)

Author keywords

CTF correction; Electron tomography; Image processing

Indexed keywords

ANALYTIC METHOD; ARTICLE; CONTROLLED STUDY; ELECTRON TOMOGRAPHY; IMAGE PROCESSING; IMAGE QUALITY; INTERMETHOD COMPARISON; JENSEN KORNBERG SCHEME; MITOCHONDRIAL RIBOSOME; NONHUMAN; SOFTWARE; THREE DIMENSIONAL CONTRAST TRANSFER FUNCTION CORRECTION; THREE DIMENSIONAL IMAGING; TOBACCO MOSAIC VIRUS; ALGORITHM; CRYOELECTRON MICROSCOPY; DEVICES; PROCEDURES; ULTRASTRUCTURE;

ALGORITHMS; CRYOELECTRON MICROSCOPY; ELECTRON MICROSCOPE TOMOGRAPHY; IMAGE PROCESSING, COMPUTER-ASSISTED; SOFTWARE; TOBACCO MOSAIC VIRUS;

EID: 85003534346     PISSN: 10478477     EISSN: 10958657     Source Type: Journal    
DOI: 10.1016/j.jsb.2016.06.016     Document Type: Article

References (21)

1. Amunts, A., Brown, A., Bai, X.C., Llacer, J.L., Hussain, T., Emsley, P., Long, F., Murshudov, G., Scheres, S.H., Ramakrishnan, V., Structure of the yeast mitochondrial large ribosomal subunit. Science 343 (2014), 1485–1489.
2. Bharat, T.A.M., Russo, C.J., Löwe, J., Passmore, L.A., Scheres, S.H.W., Advances in single-particle electron cryomicroscopy structure determination applied to sub-tomogram averaging. Structure 23 (2015), 1743–1753.
3. Chen, Y., Pfeffer, S., Hrabe, T., Schuller, J.M., Förster, F., Fast and accurate reference-free alignment of subtomograms. J. Struct. Biol. 182 (2013), 235–245.
4. Dubochet, J., Adrian, M., Chang, J.J., Homo, J.C., Lepault, J., McDowall, A.W., Schultz, P., Cryo-electron microscopy of vitrified specimens. Q. Rev. Biophys. 21 (1988), 129–228.
5. Erickson, H.P., Klug, A., Measurement and compensation of defocusing and aberrations by Fourier processing of electron micrographs. Philos. Trans. R. Soc. London, Ser. B, Biol. Sci. 261 (1971), 105–118.
6. Fernández, J.J., Li, S., Crowther, R.A., CTF determination and correction in electron cryotomography. Ultramicroscopy 106 (2006), 587–596.
7. Grigorieff, N., Three-dimensional structure of bovine NADH:ubiquinone oxidoreductase (complex I) at 22 A in ice. J. Mol. Biol. 277 (1998), 1033–1046.
8. Grimm, R., Singh, H., Rachel, R., Typke, D., Zillig, W., Baumeister, W., Electron tomography of ice-embedded prokaryotic cells. Biophys. J . 74 (1998), 1031–1042.
9. Jensen, G.J., Kornberg, R.D., Defocus-gradient corrected back-projection. Ultramicroscopy 84 (2000), 57–64.
10. Kazantsev, I.G., Klukowska, J., Herman, G.T., Cernetic, L., Fully three-dimensional defocus-gradient corrected backprojection in cryoelectron microscopy. Ultramicroscopy 110 (2010), 1128–1142.
11. Kunz, M., Frangakis, A.S., Super-sampling SART with ordered subsets. J. Struct. Biol. 188 (2014), 107–115.
12. Marabini, R., Carragher, B., Chen, S., Chen, J., Cheng, A., Downing, K.H., Frank, J., Grassucci, R.A., Bernard Heymann, J., Jiang, W., Jonic, S., Liao, H.Y., Ludtke, S.J., Patwari, S., Piotrowski, A.L., Quintana, A., Sorzano, C.O.S., Stahlberg, H., Vargas, J., Voss, N.R., Chiu, W., Carazo, J.M., CTF challenge: result summary. J. Struct. Biol. 190 (2015), 348–359.
13. Pfeffer, S., Woellhaf, M.W., Herrmann, J.M., Förster, F., Organization of the mitochondrial translation machinery studied in situ by cryoelectron tomography. Nature communications, 6, 2015, 6019.
14. Pfeffer, S., Burbaum, L., Unverdorben, P., Pech, M., Chen, Y., Zimmermann, R., Beckmann, R., Förster, F., Structure of the native Sec61 protein-conducting channel. Nat. Commun., 6, 2015, 8403.
15. Sachse, C., Chen, J.Z., Coureux, P.-D., Stroupe, M.E., Fändrich, M., Grigorieff, N., High-resolution electron microscopy of helical specimens: a fresh look at tobacco mosaic virus. J. Mol. Biol. 371 (2007), 812–835.
16. Schur, F.K.M., Hagen, W.J.H., Marco, A.d., Briggs, J.A.G., Determination of protein structure at 8.5 Å resolution using cryo-electron tomography and sub-tomogram averaging. J. Struct. Biol. 184 (2013), 394–400.
17. Vargas, J., Otón, J., Marabini, R., Jonic, S., de la Rosa-Trevín, J.M., Carazo, J.M., Sorzano, C.O.S., FASTDEF: fast defocus and astigmatism estimation for high-throughput transmission electron microscopy. J. Struct. Biol. 181 (2013), 136–148.
18. Voortman, L.M., Stallinga, S., Schoenmakers, R.H.M., van Vliet, L.J., Rieger, B., A fast algorithm for computing and correcting the CTF for tilted, thick specimens in TEM. Ultramicroscopy 111 (2011), 1029–1036.
19. Wade, R.H., A brief look at imaging and contrast transfer. Ultramicroscopy 46 (1992), 145–156.
20. Xiong, Q., Morphew, M.K., Schwartz, C.L., Hoenger, A.H., Mastronarde, D.N., CTF determination and correction for low dose tomographic tilt series. J. Struct. Biol. 168 (2009), 378–387.
21. Zanetti, G., Riches, J.D., Fuller, S.D., Briggs, J.A.G., Contrast transfer function correction applied to cryo-electron tomography and sub-tomogram averaging. J. Struct. Biol. 168 (2009), 305–312.