Literature DB >> 29077445

Correlations in Scattered X-Ray Laser Pulses Reveal Nanoscale Structural Features of Viruses.

Ruslan P Kurta1, Jeffrey J Donatelli2,3, Chun Hong Yoon4, Peter Berntsen5, Johan Bielecki1,6, Benedikt J Daurer6, Hasan DeMirci7,8, Petra Fromme9, Max Felix Hantke6, Filipe R N C Maia6,10, Anna Munke6, Carl Nettelblad6,11, Kanupriya Pande3,12, Hemanth K N Reddy6, Jonas A Sellberg6,13, Raymond G Sierra4, Martin Svenda6, Gijs van der Schot6, Ivan A Vartanyants14,15, Garth J Williams16, P Lourdu Xavier17,18, Andrew Aquila4, Peter H Zwart3,12, Adrian P Mancuso1.   

Abstract

We use extremely bright and ultrashort pulses from an x-ray free-electron laser (XFEL) to measure correlations in x rays scattered from individual bioparticles. This allows us to go beyond the traditional crystallography and single-particle imaging approaches for structure investigations. We employ angular correlations to recover the three-dimensional (3D) structure of nanoscale viruses from x-ray diffraction data measured at the Linac Coherent Light Source. Correlations provide us with a comprehensive structural fingerprint of a 3D virus, which we use both for model-based and ab initio structure recovery. The analyses reveal a clear indication that the structure of the viruses deviates from the expected perfect icosahedral symmetry. Our results anticipate exciting opportunities for XFEL studies of the structure and dynamics of nanoscale objects by means of angular correlations.

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Mesh:

Year:  2017        PMID: 29077445      PMCID: PMC5757528          DOI: 10.1103/PhysRevLett.119.158102

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  46 in total

1.  Potential for biomolecular imaging with femtosecond X-ray pulses.

Authors:  R Neutze; R Wouts; D van der Spoel; E Weckert; J Hajdu
Journal:  Nature       Date:  2000-08-17       Impact factor: 49.962

Review 2.  Structural characterization of proteins and complexes using small-angle X-ray solution scattering.

Authors:  Haydyn D T Mertens; Dmitri I Svergun
Journal:  J Struct Biol       Date:  2010-06-15       Impact factor: 2.867

3.  Three-dimensional single-particle imaging using angular correlations from X-ray laser data.

Authors:  Haiguang Liu; Billy K Poon; Dilano K Saldin; John C H Spence; Peter H Zwart
Journal:  Acta Crystallogr A       Date:  2013-05-08       Impact factor: 2.290

4.  Reconstruction algorithm for single-particle diffraction imaging experiments.

Authors:  Ne-Te Duane Loh; Veit Elser
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2009-08-24

5.  Single-particle structure determination by correlations of snapshot X-ray diffraction patterns.

Authors:  D Starodub; A Aquila; S Bajt; M Barthelmess; A Barty; C Bostedt; J D Bozek; N Coppola; R B Doak; S W Epp; B Erk; L Foucar; L Gumprecht; C Y Hampton; A Hartmann; R Hartmann; P Holl; S Kassemeyer; N Kimmel; H Laksmono; M Liang; N D Loh; L Lomb; A V Martin; K Nass; C Reich; D Rolles; B Rudek; A Rudenko; J Schulz; R L Shoeman; R G Sierra; H Soltau; J Steinbrener; F Stellato; S Stern; G Weidenspointner; M Frank; J Ullrich; L Strüder; I Schlichting; H N Chapman; J C H Spence; M J Bogan
Journal:  Nat Commun       Date:  2012       Impact factor: 14.919

6.  Impact of ultrafast electronic damage in single-particle x-ray imaging experiments.

Authors:  U Lorenz; N M Kabachnik; E Weckert; I A Vartanyants
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2012-11-21

7.  The correlation averaging of a regularly arranged bacterial cell envelope protein.

Authors:  W O Saxton; W Baumeister
Journal:  J Microsc       Date:  1982-08       Impact factor: 1.758

8.  The atomic structure of rice dwarf virus reveals the self-assembly mechanism of component proteins.

Authors:  Atsushi Nakagawa; Naoyuki Miyazaki; Junichiro Taka; Hisashi Naitow; Akira Ogawa; Zui Fujimoto; Hiroshi Mizuno; Takahiko Higashi; Yasuo Watanabe; Toshihiro Omura; R Holland Cheng; Tomitake Tsukihara
Journal:  Structure       Date:  2003-10       Impact factor: 5.006

9.  Angular correlations of photons from solution diffraction at a free-electron laser encode molecular structure.

Authors:  Derek Mendez; Herschel Watkins; Shenglan Qiao; Kevin S Raines; Thomas J Lane; Gundolf Schenk; Garrett Nelson; Ganesh Subramanian; Kensuke Tono; Yasumasa Joti; Makina Yabashi; Daniel Ratner; Sebastian Doniach
Journal:  IUCrJ       Date:  2016-09-26       Impact factor: 4.769

10.  High-resolution structure of viruses from random diffraction snapshots.

Authors:  A Hosseinizadeh; P Schwander; A Dashti; R Fung; R M D'Souza; A Ourmazd
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2014-07-17       Impact factor: 6.237

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  16 in total

1.  Random conical tilt reconstruction without particle picking in cryo-electron microscopy.

Authors:  Ti Yen Lan; Nicolas Boumal; Amit Singer
Journal:  Acta Crystallogr A Found Adv       Date:  2022-06-24       Impact factor: 2.331

2.  Super-resolution multi-reference alignment.

Authors:  Tamir Bendory; Ariel Jaffe; William Leeb; Nir Sharon; Amit Singer
Journal:  Inf inference       Date:  2021-02-18

3.  Atomic level three-dimensional structure of individual particles with XFELs.

Authors:  Changyong Song
Journal:  IUCrJ       Date:  2018-09-01       Impact factor: 4.769

4.  Low-energy electron holography imaging of conformational variability of single-antibody molecules from electrospray ion beam deposition.

Authors:  Hannah Ochner; Sven Szilagyi; Sabine Abb; Joseph Gault; Carol V Robinson; Luigi Malavolti; Stephan Rauschenbach; Klaus Kern
Journal:  Proc Natl Acad Sci U S A       Date:  2021-12-21       Impact factor: 11.205

5.  Heterogeneous local order in self-assembled nanoparticle films revealed by X-ray cross-correlations.

Authors:  Felix Lehmkühler; Florian Schulz; Martin A Schroer; Lara Frenzel; Holger Lange; Gerhard Grübel
Journal:  IUCrJ       Date:  2018-04-28       Impact factor: 4.769

6.  Considerations for three-dimensional image reconstruction from experimental data in coherent diffractive imaging.

Authors:  Ida V Lundholm; Jonas A Sellberg; Tomas Ekeberg; Max F Hantke; Kenta Okamoto; Gijs van der Schot; Jakob Andreasson; Anton Barty; Johan Bielecki; Petr Bruza; Max Bucher; Sebastian Carron; Benedikt J Daurer; Ken Ferguson; Dirk Hasse; Jacek Krzywinski; Daniel S D Larsson; Andrew Morgan; Kerstin Mühlig; Maria Müller; Carl Nettelblad; Alberto Pietrini; Hemanth K N Reddy; Daniela Rupp; Mario Sauppe; Marvin Seibert; Martin Svenda; Michelle Swiggers; Nicusor Timneanu; Anatoli Ulmer; Daniel Westphal; Garth Williams; Alessandro Zani; Gyula Faigel; Henry N Chapman; Thomas Möller; Christoph Bostedt; Janos Hajdu; Tais Gorkhover; Filipe R N C Maia
Journal:  IUCrJ       Date:  2018-09-01       Impact factor: 4.769

7.  Ab initio structure determination from experimental fluctuation X-ray scattering data.

Authors:  Kanupriya Pande; Jeffrey J Donatelli; Erik Malmerberg; Lutz Foucar; Christoph Bostedt; Ilme Schlichting; Petrus H Zwart
Journal:  Proc Natl Acad Sci U S A       Date:  2018-10-29       Impact factor: 11.205

8.  Free-electron laser data for multiple-particle fluctuation scattering analysis.

Authors:  Kanupriya Pande; Jeffrey J Donatelli; Erik Malmerberg; Lutz Foucar; Billy K Poon; Markus Sutter; Sabine Botha; Shibom Basu; R Bruce Doak; Katerina Dörner; Sascha W Epp; Lars Englert; Raimund Fromme; Elisabeth Hartmann; Robert Hartmann; Guenter Hauser; Johan Hattne; Ahmad Hosseinizadeh; Stephan Kassemeyer; Lukas Lomb; Sebastian F Carron Montero; Andreas Menzel; Daniel Rolles; Artem Rudenko; Marvin M Seibert; Raymond George Sierra; Peter Schwander; Abbas Ourmazd; Petra Fromme; Nicholas K Sauter; Michael Bogan; John Bozek; Christoph Bostedt; Ilme Schlichting; Cheryl A Kerfeld; Petrus H Zwart
Journal:  Sci Data       Date:  2018-10-02       Impact factor: 6.444

9.  Electrospray sample injection for single-particle imaging with x-ray lasers.

Authors:  Johan Bielecki; Max F Hantke; Benedikt J Daurer; Hemanth K N Reddy; Dirk Hasse; Daniel S D Larsson; Laura H Gunn; Martin Svenda; Anna Munke; Jonas A Sellberg; Leonie Flueckiger; Alberto Pietrini; Carl Nettelblad; Ida Lundholm; Gunilla Carlsson; Kenta Okamoto; Nicusor Timneanu; Daniel Westphal; Olena Kulyk; Akifumi Higashiura; Gijs van der Schot; Ne-Te Duane Loh; Taylor E Wysong; Christoph Bostedt; Tais Gorkhover; Bianca Iwan; M Marvin Seibert; Timur Osipov; Peter Walter; Philip Hart; Maximilian Bucher; Anatoli Ulmer; Dipanwita Ray; Gabriella Carini; Ken R Ferguson; Inger Andersson; Jakob Andreasson; Janos Hajdu; Filipe R N C Maia
Journal:  Sci Adv       Date:  2019-05-03       Impact factor: 14.136

Review 10.  Angular X-Ray Cross-Correlation Analysis (AXCCA): Basic Concepts and Recent Applications to Soft Matter and Nanomaterials.

Authors:  Ivan A Zaluzhnyy; Ruslan P Kurta; Marcus Scheele; Frank Schreiber; Boris I Ostrovskii; Ivan A Vartanyants
Journal:  Materials (Basel)       Date:  2019-10-23       Impact factor: 3.623

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