Ab initio structure determination from electron microscopic images of single molecules coexisting in different functional states

Structure
Dominika ElmlundHans Elmlund

Abstract

We have developed methods for ab initio three-dimensional (3D) structure determination from projection images of randomly oriented single molecules coexisting in multiple functional states, to aid the study of complex samples of macromolecules and nanoparticles by electron microscopy (EM). New algorithms for the determination of relative 3D orientations and conformational state assignment of single-molecule projection images are combined with well-established techniques for alignment and statistical image analysis. We describe how the methodology arrives at homogeneous groups of images aligned in 3D and discuss application to experimental EM data sets of the Escherichia coli ribosome and yeast RNA polymerase II.

References

Jan 1, 1992·Ultramicroscopy·P PenczekJ Frank
Mar 1, 1984·Nature·M AdrianA W McDowall
Oct 15, 1982·Journal of Molecular Biology·J Frank, M van Heel
Aug 5, 1980·Journal of Molecular Biology·E Knapek, J Dubochet
Dec 22, 1999·Journal of Structural Biology·S J LudtkeW Chiu
Mar 10, 2001·Quarterly Reviews of Biophysics·M van HeelA Patwardhan
Jun 14, 2001·Methods : a Companion to Methods in Enzymology·O PuigB Séraphin
Jul 3, 2002·The EMBO Journal·Mikel ValleJoachim Frank
May 15, 2003·Proceedings of the National Academy of Sciences of the United States of America·Karim-Jean ArmachePatrick Cramer
May 15, 2003·Proceedings of the National Academy of Sciences of the United States of America·David A Bushnell, Roger D Kornberg
Jul 21, 2004·Journal of Computational Chemistry·Eric F PettersenThomas E Ferrin
Dec 14, 2004·The Journal of Biological Chemistry·Karim-Jean ArmachePatrick Cramer
Aug 26, 2006·Journal of Structural Biology·Jie FuJoachim Frank
Dec 21, 2006·Nature Methods·Sjors H W ScheresJose-Maria Carazo
May 13, 1983·Science·S KirkpatrickM P Vecchi
Dec 21, 2007·IEEE Transactions on Image Processing : a Publication of the IEEE Signal Processing Society·Junghoon LeeJohn E Johnson
Sep 1, 1949·Journal of the American Statistical Association·N METROPOLIS, S ULAM
Jan 27, 2009·Journal of Structural Biology·Maxim ShatskyRobert M Glaeser
Mar 10, 2009·Journal of Structural Biology·William T BaxterJoachim Frank
May 5, 2009·Journal of Structural Biology·Dominika Elmlund, Hans Elmlund
Nov 21, 2009·Journal of Structural Biology·Amit SingerYoel Shkolnisky
Jan 21, 2010·Journal of Structural Biology·Maxim ShatskySteven E Brenner
Mar 13, 2010·Structure·Joakim LundqvistSalam Al-Karadaghi

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Citations

Jun 11, 2014·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·P SchwanderA Ourmazd
Sep 28, 2013·Science·Kenji MurakamiRoger D Kornberg
Feb 22, 2011·European Biophysics Journal : EBJ·Mikel Valle
Aug 22, 2012·Current Opinion in Structural Biology·Joachim Frank
May 19, 2011·Macromolecular Rapid Communications·Marat O Gallyamov
Jul 23, 2013·Journal of Structural Biology·Dmitry LyumkisNikolaus Grigorieff
Nov 22, 2011·Journal of Molecular Biology·Sjors H W Scheres
Mar 10, 2015·Annual Review of Biochemistry·Dominika Elmlund, Hans Elmlund
May 23, 2015·Molecular Cell·Eva Nogales, Sjors H W Scheres
Aug 21, 2012·Journal of Structural Biology·Dominika Elmlund, Hans Elmlund
Nov 2, 2016·Computational and Structural Biotechnology Journal·Slavica Jonić
Jul 7, 2019·International Journal of Molecular Sciences·Sarah N LeDominika Elmlund
Oct 3, 2020·Scientific Reports·Eileen L MurphyGerwald Jogl
Aug 11, 2017·Protein Science : a Publication of the Protein Society·Cyril F ReboulHans Elmlund
Feb 18, 2016·Methods : a Companion to Methods in Enzymology·Joachim Frank, Abbas Ourmazd

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