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8 Tomographic Reconstruction from Electron Micrographs
235
Steven, Three-dimensional structure of herpes simplex virus from cryo-electron tomography.
Science 302(5649), 1396–1398 (2003)
71. Y. Chen, S. Pfeffer, J.J. Fernandez, C.O. Sorzano, F. Forster, Autofocused 3D classification of
cryoelectron subtomograms. Structure (2014). doi:10.1016/j.str.2014.08.007
72. Y. Chen, S. Pfeffer, T. Hrabe, J.M. Schuller, F. Forster, Fast and accurate reference-free
alignment of subtomograms. J. Struct. Biol. 182(3), 235–245 (2013). doi:10.1016/j.jsb.2013.
03.002
73. T. Hrabe, Y. Chen, S. Pfeffer, L.K. Cuellar, A.V. Mangold, F. Forster, PyTom: a
python-based toolbox for localization of macromolecules in cryo-electron tomograms and
subtomogram analysis. J. Struct. Biol. 178(2), 177–188 (2012). doi:10.1016/j.jsb.2011.12.003
74. J.T. Huiskonen, M.L. Parsy, S. Li, D. Bitto, M. Renner, T.A. Bowden, Averaging of viral
envelope glycoprotein spikes from electron cryotomography reconstructions using Jsubtomo.
J. Vis. Exp. 92, e51714 (2014). doi:10.3791/51714
75. L.M. Voortman, M. Vulovic, M. Maletta, A. Voigt, E.M. Franken, A. Simonetti, P.J. Peters,
L.J. van Vliet, B. Rieger, Quantifying resolution limiting factors in subtomogram averaged
cryo-electron tomography using simulations. J. Struct. Biol. 187(2), 103–111 (2014). doi:10.
1016/j.jsb.2014.06.007
76. J. Fontana, G. Cardone, J.B. Heymann, D.C. Winkler, A.C. Steven, Structural changes in
Influenza virus at low pH characterized by cryo-electron tomography. J. Virol. 86(6), 2919–
2929 (2012). doi:10.1128/JVI.06698-11
77. J.G. Galaz-Montoya, J. Flanagan, M.F. Schmid, S.J. Ludtke, Single particle tomography in
EMAN2. J. Struct. Biol. 190(3), 279–290 (2015). doi:10.1016/j.jsb.2015.04.016
78. F.K. Schur, R.A. Dick, W.J. Hagen, V.M. Vogt, J.A. Briggs, The structure of immature
virus-like Rous Sarcoma Virus Gag particles reveals a structural role for the p10 domain in
assembly. J. Virol. 89(20), 10294–10302 (2015). doi:10.1128/JVI.01502-15
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Structure of the immature HIV-1 capsid in intact virus particles at 8.8 A resolution. Nature
517(7535), 505–508 (2015). doi:10.1038/nature13838
80. D. Nicastro, Cryo-electron microscope tomography to study axonemal organization. Methods
Cell Biol. 91, 1–39 (2009). doi:10.1016/S0091-679X(08)91001-3
81. U.E. Maurer, T. Zeev-Ben-Mordehai, A.P. Pandurangan, T.M. Cairns, B.P. Hannah,
J.C. Whitbeck, R.J. Eisenberg, G.H. Cohen, M. Topf, J.T. Huiskonen, K. Grunewald, The
structure of herpesvirus fusion glycoprotein B-bilayer complex reveals the protein-membrane
and lateral protein-protein interaction. Structure 21(8), 1396–1405 (2013). doi:10.1016/j.str.
2013.05.018
82. J. Liu, A. Bartesaghi, M.J. Borgnia, G. Sapiro, S. Subramaniam, Molecular architecture of
native HIV-1 gp120 trimers. Nature 455(7209), 109–113 (2008). doi:nature07159 [pii] 10.
1038/nature07159
83. T.A. Bharat, N.E. Davey, P. Ulbrich, J.D. Riches, A. de Marco, M. Rumlova, C. Sachse,
T. Ruml, J.A. Briggs, Structure of the immature retroviral capsid at 8 A resolution by
cryo-electron microscopy. Nature 487(7407), 385–389 (2012). doi:10.1038/nature11169
84. T.A. Bharat, C.J. Russo, J. Lowe, L.A. Passmore, S.H. Scheres, Advances in single-particle
electron cryomicroscopy structure determination applied to sub-tomogram averaging.
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85. J. Lin, K. Okada, M. Raytchev, M.C. Smith, D. Nicastro, Structural mechanism of the dynein
power stroke. Nat. Cell Biol. 16(5), 479–485 (2014). doi:10.1038/ncb2939
86. J.B. Heymann, D.C. Winkler, Y.I. Yim, E. Eisenberg, L.E. Greene, A.C. Steven,
Clathrin-coated vesicles from brain have small payloads: a cryo-electron tomographic study.
J. Struct. Biol. 184(1), 43–51 (2013). doi:10.1016/j.jsb.2013.05.006
87. W. van Aarle, W.J. Palenstijn, J. De Beenhouwer, T. Altantzis, S. Bals, K.J. Batenburg,
J. Sijbers, The ASTRA toolbox: a platform for advanced algorithm development in electron
tomography. Ultramicr 157, 35–47 (2015). doi:10.1016/j.ultramic.2015.05.002
8 Tomographic Reconstruction from Electron Micrographs
235