Heterogeneity of Large Macromolecular Complexes Revealed by 3D Cryo-EM Variance Analysis

Structure - Tập 16 - Trang 1770-1776 - 2008
Wei Zhang1, Marek Kimmel2, Christian M.T. Spahn3, Pawel A. Penczek1
1The University of Texas—Houston Medical School, Department of Biochemistry and Molecular Biology, Houston, TX 77030, USA
2Rice University, Department of Statistics, Houston, TX 77005, USA
3Institut für Medizinische Physik und Biophysik, Charité—Universitätsmedizin Berlin, 10117 Berlin, Germany

Tài liệu tham khảo

Allen, 2005, The cryo-EM structure of a translation initiation complex from Escherichia coli, Cell, 121, 703, 10.1016/j.cell.2005.03.023 Bracewell, 1956, Strip integration in radio astronomy, Aust. J. Phys., 9, 198, 10.1071/PH560198 Bracewell, 1967, Inversion of fan-beam scans in radio astronomy, Astrophys. J., 150, 427, 10.1086/149346 Connell, 2007, Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors, Mol. Cell, 25, 751, 10.1016/j.molcel.2007.01.027 Davison, 1997 Frank, 2000, A ratchet-like inter-subunit reorganization of the ribosome during translocation, Nature, 406, 318, 10.1038/35018597 Frank, 1981, Computer averaging of electron micrographs of 40S ribosomal subunits, Science, 214, 1353, 10.1126/science.7313694 Gao, 2007, RF3 induces ribosomal conformational changes responsible for dissociation of class I release factors, Cell, 129, 929, 10.1016/j.cell.2007.03.050 Gilbert, 2007, Reconfiguration of yeast 40S ribosomal subunit domains by the translation initiation multifactor complex, Proc. Natl. Acad. Sci. USA, 104, 5788, 10.1073/pnas.0606880104 Grob, 2006, Cryo-electron microscopy studies of human TFIID: conformational breathing in the integration of gene regulatory cues, Structure, 14, 511, 10.1016/j.str.2005.11.020 Hansen, 1953, Volume 2 Harauz, 1986, Exact filters for general geometry three dimensional reconstruction, Optik, 73, 146 Hohn, 2007, SPARX, a new environment for Cryo-EM image processing, J. Struct. Biol., 157, 47, 10.1016/j.jsb.2006.07.003 Ludtke, 2008, De novo backbone trace of GroEL from single particle electron cryomicroscopy, Structure, 16, 441, 10.1016/j.str.2008.02.007 Ohi, 2007, Structural organization of the anaphase-promoting complex bound to the mitotic activator Slp1, Mol. Cell, 28, 871, 10.1016/j.molcel.2007.10.003 Penczek, 1992, Three-dimensional reconstruction of single particles embedded in ice, Ultramicroscopy, 40, 33, 10.1016/0304-3991(92)90233-A Penczek, 2002, Three-dimensional spectral signal-to-noise ratio for a class of reconstruction algorithms, J. Struct. Biol., 138, 34, 10.1016/S1047-8477(02)00033-3 Penczek, 2006, Estimation of variance in single particle reconstruction using the bootstrap technique, J. Struct. Biol., 154, 168, 10.1016/j.jsb.2006.01.003 Penczek, 1994, The ribosome at improved resolution: new techniques for merging and orientation refinement in 3D cryo-electron microscopy of biological particles, Ultramicroscopy, 53, 251, 10.1016/0304-3991(94)90038-8 Penczek, 1997, Three-dimensional reconstruction with contrast transfer function compensation from defocus series, Scanning Microsc. Suppl., 11, 147 Penczek, 2004, Gridding-based direct Fourier inversion of the three-dimensional ray transform, J. Opt. Soc. Am. A Opt. Image Sci. Vis., 21, 499, 10.1364/JOSAA.21.000499 Radermacher, 1992, Weighted back-projection methods, 91 Rivera-Calzada, 2007, Structural model of full-length human Ku70-Ku80 heterodimer and its recognition of DNA and DNA-PKcs, EMBO Rep., 8, 56, 10.1038/sj.embor.7400847 Saxton, 1982, The correlation averaging of a regularly arranged bacterial envelope protein, J. Microsc., 127, 127, 10.1111/j.1365-2818.1982.tb00405.x Schüler, 2006, Structure of the ribosome-bound cricket paralysis virus IRES RNA, Nat. Struct. Mol. Biol., 13, 1092, 10.1038/nsmb1177 Schuwirth, 2005, Structures of the bacterial ribosome at 3.5 A resolution, Science, 310, 827, 10.1126/science.1117230 Selmer, 2006, Structure of the 70S ribosome complexed with mRNA and tRNA, Science, 313, 1935, 10.1126/science.1131127 Spahn, 2004, Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation, EMBO J., 23, 1008, 10.1038/sj.emboj.7600102 Spahn, 2001, Localization of the ribosomal protection protein Tet(O) on the ribosome and the mechanism of tetracycline resistance, Mol. Cell, 7, 1037, 10.1016/S1097-2765(01)00238-6 Unser, 1987, A new resolution criterion based on spectral signal-to-noise ratios, Ultramicroscopy, 23, 39, 10.1016/0304-3991(87)90225-7 Valle, 2003, Locking and unlocking of ribosomal motions, Cell, 114, 123, 10.1016/S0092-8674(03)00476-8 van Heel, 2000, Single-particle electron cryo-microscopy: towards atomic resolution, Q. Rev. Biophys., 33, 307, 10.1017/S0033583500003644