Literature DB >> 33723266

Effect of X-ray free-electron laser-induced shockwaves on haemoglobin microcrystals delivered in a liquid jet.

Marie Luise Grünbein1, Alexander Gorel1, Lutz Foucar1, Sergio Carbajo2, William Colocho2, Sasha Gilevich2, Elisabeth Hartmann1, Mario Hilpert1, Mark Hunter2, Marco Kloos1,3, Jason E Koglin2,4, Thomas J Lane2,5, Jim Lewandowski2, Alberto Lutman2, Karol Nass1,6, Gabriela Nass Kovacs1, Christopher M Roome1, John Sheppard2, Robert L Shoeman1, Miriam Stricker1,7, Tim van Driel2, Sharon Vetter2, R Bruce Doak1, Sébastien Boutet2, Andrew Aquila2, Franz Josef Decker2, Thomas R M Barends1, Claudiu Andrei Stan8, Ilme Schlichting9.   

Abstract

X-ray free-electron lasers (XFELs) enable obtaining novel insights in structural biology. The recently available MHz repetition rate XFELs allow full data sets to be collected in shorter time and can also decrease sample consumption. However, the microsecond spacing of MHz XFEL pulses raises new challenges, including possible sample damage induced by shock waves that are launched by preceding pulses in the sample-carrying jet. We explored this matter with an X-ray-pump/X-ray-probe experiment employing haemoglobin microcrystals transported via a liquid jet into the XFEL beam. Diffraction data were collected using a shock-wave-free single-pulse scheme as well as the dual-pulse pump-probe scheme. The latter, relative to the former, reveals significant degradation of crystal hit rate, diffraction resolution and data quality. Crystal structures extracted from the two data sets also differ. Since our pump-probe attributes were chosen to emulate EuXFEL operation at its 4.5 MHz maximum pulse rate, this prompts concern about such data collection.

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Year:  2021        PMID: 33723266      PMCID: PMC7960726          DOI: 10.1038/s41467-021-21819-8

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   14.919


  54 in total

Review 1.  Computational design and experimental testing of the fastest-folding β-sheet protein.

Authors:  Stefano Piana; Krishnarjun Sarkar; Kresten Lindorff-Larsen; Minghao Guo; Martin Gruebele; David E Shaw
Journal:  J Mol Biol       Date:  2010-10-23       Impact factor: 5.469

2.  Reaching the protein folding speed limit with large, sub-microsecond pressure jumps.

Authors:  Charles Dumont; Tryggvi Emilsson; Martin Gruebele
Journal:  Nat Methods       Date:  2009-05-31       Impact factor: 28.547

3.  Velocimetry of fast microscopic liquid jets by nanosecond dual-pulse laser illumination for megahertz X-ray free-electron lasers.

Authors:  Marie Luise Grünbein; Robert L Shoeman; R Bruce Doak
Journal:  Opt Express       Date:  2018-03-19       Impact factor: 3.894

4.  Chromophore twisting in the excited state of a photoswitchable fluorescent protein captured by time-resolved serial femtosecond crystallography.

Authors:  Nicolas Coquelle; Michel Sliwa; Joyce Woodhouse; Giorgio Schirò; Virgile Adam; Andrew Aquila; Thomas R M Barends; Sébastien Boutet; Martin Byrdin; Sergio Carbajo; Eugenio De la Mora; R Bruce Doak; Mikolaj Feliks; Franck Fieschi; Lutz Foucar; Virginia Guillon; Mario Hilpert; Mark S Hunter; Stefan Jakobs; Jason E Koglin; Gabriela Kovacsova; Thomas J Lane; Bernard Lévy; Mengning Liang; Karol Nass; Jacqueline Ridard; Joseph S Robinson; Christopher M Roome; Cyril Ruckebusch; Matthew Seaberg; Michel Thepaut; Marco Cammarata; Isabelle Demachy; Martin Field; Robert L Shoeman; Dominique Bourgeois; Jacques-Philippe Colletier; Ilme Schlichting; Martin Weik
Journal:  Nat Chem       Date:  2017-09-11       Impact factor: 24.427

5.  Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography.

Authors:  Uwe Weierstall; Daniel James; Chong Wang; Thomas A White; Dingjie Wang; Wei Liu; John C H Spence; R Bruce Doak; Garrett Nelson; Petra Fromme; Raimund Fromme; Ingo Grotjohann; Christopher Kupitz; Nadia A Zatsepin; Haiguang Liu; Shibom Basu; Daniel Wacker; Gye Won Han; Vsevolod Katritch; Sébastien Boutet; Marc Messerschmidt; Garth J Williams; Jason E Koglin; M Marvin Seibert; Markus Klinker; Cornelius Gati; Robert L Shoeman; Anton Barty; Henry N Chapman; Richard A Kirian; Kenneth R Beyerlein; Raymond C Stevens; Dianfan Li; Syed T A Shah; Nicole Howe; Martin Caffrey; Vadim Cherezov
Journal:  Nat Commun       Date:  2014       Impact factor: 14.919

6.  Room-temperature macromolecular crystallography using a micro-patterned silicon chip with minimal background scattering.

Authors:  Philip Roedig; Ramona Duman; Juan Sanchez-Weatherby; Ismo Vartiainen; Anja Burkhardt; Martin Warmer; Christian David; Armin Wagner; Alke Meents
Journal:  J Appl Crystallogr       Date:  2016-05-23       Impact factor: 3.304

7.  High-pressure protein crystal structure analysis of Escherichia coli dihydrofolate reductase complexed with folate and NADP.

Authors:  Takayuki Nagae; Hiroyuki Yamada; Nobuhisa Watanabe
Journal:  Acta Crystallogr D Struct Biol       Date:  2018-09-03       Impact factor: 7.652

Review 8.  Sample delivery for serial crystallography at free-electron lasers and synchrotrons.

Authors:  Marie Luise Grünbein; Gabriela Nass Kovacs
Journal:  Acta Crystallogr D Struct Biol       Date:  2019-01-09       Impact factor: 7.652

9.  Time-resolved serial femtosecond crystallography at the European XFEL.

Authors:  Suraj Pandey; Richard Bean; Tokushi Sato; Ishwor Poudyal; Johan Bielecki; Jorvani Cruz Villarreal; Oleksandr Yefanov; Valerio Mariani; Thomas A White; Christopher Kupitz; Mark Hunter; Mohamed H Abdellatif; Saša Bajt; Valerii Bondar; Austin Echelmeier; Diandra Doppler; Moritz Emons; Matthias Frank; Raimund Fromme; Yaroslav Gevorkov; Gabriele Giovanetti; Man Jiang; Daihyun Kim; Yoonhee Kim; Henry Kirkwood; Anna Klimovskaia; Juraj Knoska; Faisal H M Koua; Romain Letrun; Stella Lisova; Luis Maia; Victoria Mazalova; Domingo Meza; Thomas Michelat; Abbas Ourmazd; Guido Palmer; Marco Ramilli; Robin Schubert; Peter Schwander; Alessandro Silenzi; Jolanta Sztuk-Dambietz; Alexandra Tolstikova; Henry N Chapman; Alexandra Ros; Anton Barty; Petra Fromme; Adrian P Mancuso; Marius Schmidt
Journal:  Nat Methods       Date:  2019-11-18       Impact factor: 47.990

10.  Crystallography on a chip - without the chip: sheet-on-sheet sandwich.

Authors:  R Bruce Doak; Gabriela Nass Kovacs; Alexander Gorel; Lutz Foucar; Thomas R M Barends; Marie Luise Grünbein; Mario Hilpert; Marco Kloos; Christopher M Roome; Robert L Shoeman; Miriam Stricker; Kensuke Tono; Daehyun You; Kiyoshi Ueda; Darren A Sherrell; Robin L Owen; Ilme Schlichting
Journal:  Acta Crystallogr D Struct Biol       Date:  2018-10-02       Impact factor: 7.652

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  5 in total

1.  Making sense of SFX data: standards for data and structure validation for a non-standard experiment that has come of age.

Authors:  Clyde A Smith
Journal:  IUCrJ       Date:  2021-06-30       Impact factor: 4.769

2.  Observation of substrate diffusion and ligand binding in enzyme crystals using high-repetition-rate mix-and-inject serial crystallography.

Authors:  Suraj Pandey; George Calvey; Andrea M Katz; Tek Narsingh Malla; Faisal H M Koua; Jose M Martin-Garcia; Ishwor Poudyal; Jay-How Yang; Mohammad Vakili; Oleksandr Yefanov; Kara A Zielinski; Sasa Bajt; Salah Awel; Katarina Doerner; Matthias Frank; Luca Gelisio; Rebecca Jernigan; Henry Kirkwood; Marco Kloos; Jayanath Koliyadu; Valerio Mariani; Mitchell D Miller; Grant Mills; Garrett Nelson; Jose L Olmos; Alireza Sadri; Tokushi Sato; Alexandra Tolstikova; Weijun Xu; Abbas Ourmazd; John C H Spence; Peter Schwander; Anton Barty; Henry N Chapman; Petra Fromme; Adrian P Mancuso; George N Phillips; Richard Bean; Lois Pollack; Marius Schmidt
Journal:  IUCrJ       Date:  2021-09-09       Impact factor: 4.769

3.  3D printed devices and infrastructure for liquid sample delivery at the European XFEL.

Authors:  Mohammad Vakili; Johan Bielecki; Juraj Knoška; Florian Otte; Huijong Han; Marco Kloos; Robin Schubert; Elisa Delmas; Grant Mills; Raphael de Wijn; Romain Letrun; Simon Dold; Richard Bean; Adam Round; Yoonhee Kim; Frederico A Lima; Katerina Dörner; Joana Valerio; Michael Heymann; Adrian P Mancuso; Joachim Schulz
Journal:  J Synchrotron Radiat       Date:  2022-02-15       Impact factor: 2.616

4.  A multi-million image Serial Femtosecond Crystallography dataset collected at the European XFEL.

Authors:  Henry J Kirkwood; Raphael de Wijn; Grant Mills; Romain Letrun; Marco Kloos; Mohammad Vakili; Mikhail Karnevskiy; Karim Ahmed; Richard J Bean; Johan Bielecki; Fabio Dall'Antonia; Yoonhee Kim; Chan Kim; Jayanath Koliyadu; Adam Round; Tokushi Sato; Marcin Sikorski; Patrik Vagovič; Jolanta Sztuk-Dambietz; Adrian P Mancuso
Journal:  Sci Data       Date:  2022-04-12       Impact factor: 6.444

Review 5.  Discerning best practices in XFEL-based biological crystallography - standards for nonstandard experiments.

Authors:  Alexander Gorel; Ilme Schlichting; Thomas R M Barends
Journal:  IUCrJ       Date:  2021-06-30       Impact factor: 4.769

  5 in total

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