Literature DB >> 25362050

Goniometer-based femtosecond crystallography with X-ray free electron lasers.

Aina E Cohen1, S Michael Soltis2, Ana González2, Laura Aguila2, Roberto Alonso-Mori3, Christopher O Barnes4, Elizabeth L Baxter5, Winnie Brehmer2, Aaron S Brewster6, Axel T Brunger7, Guillermo Calero4, Joseph F Chang2, Matthieu Chollet3, Paul Ehrensberger2, Thomas L Eriksson2, Yiping Feng3, Johan Hattne6, Britt Hedman2, Michael Hollenbeck2, James M Holton8, Stephen Keable9, Brian K Kobilka10, Elena G Kovaleva2, Andrew C Kruse10, Henrik T Lemke3, Guowu Lin4, Artem Y Lyubimov7, Aashish Manglik10, Irimpan I Mathews2, Scott E McPhillips2, Silke Nelson3, John W Peters9, Nicholas K Sauter6, Clyde A Smith2, Jinhu Song2, Hilary P Stevenson4, Yingssu Tsai5, Monarin Uervirojnangkoorn7, Vladimir Vinetsky2, Soichi Wakatsuki11, William I Weis12, Oleg A Zadvornyy9, Oliver B Zeldin7, Diling Zhu3, Keith O Hodgson13.   

Abstract

The emerging method of femtosecond crystallography (FX) may extend the diffraction resolution accessible from small radiation-sensitive crystals and provides a means to determine catalytically accurate structures of acutely radiation-sensitive metalloenzymes. Automated goniometer-based instrumentation developed for use at the Linac Coherent Light Source enabled efficient and flexible FX experiments to be performed on a variety of sample types. In the case of rod-shaped Cpl hydrogenase crystals, only five crystals and about 30 min of beam time were used to obtain the 125 still diffraction patterns used to produce a 1.6-Å resolution electron density map. For smaller crystals, high-density grids were used to increase sample throughput; 930 myoglobin crystals mounted at random orientation inside 32 grids were exposed, demonstrating the utility of this approach. Screening results from cryocooled crystals of β2-adrenoreceptor and an RNA polymerase II complex indicate the potential to extend the diffraction resolution obtainable from very radiation-sensitive samples beyond that possible with undulator-based synchrotron sources.

Entities:  

Keywords:  XFEL; crystallography; femtosecond diffraction; structural biology

Mesh:

Substances:

Year:  2014        PMID: 25362050      PMCID: PMC4260607          DOI: 10.1073/pnas.1418733111

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  30 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

2.  Photoreduction of the active site of the metalloprotein putidaredoxin by synchrotron radiation.

Authors:  Mary C Corbett; Matthew J Latimer; Thomas L Poulos; Irina F Sevrioukova; Keith O Hodgson; Britt Hedman
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2007-08-17

3.  Accessing protein conformational ensembles using room-temperature X-ray crystallography.

Authors:  James S Fraser; Henry van den Bedem; Avi J Samelson; P Therese Lang; James M Holton; Nathaniel Echols; Tom Alber
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-14       Impact factor: 11.205

4.  Nanoflow electrospinning serial femtosecond crystallography.

Authors:  Raymond G Sierra; Hartawan Laksmono; Jan Kern; Rosalie Tran; Johan Hattne; Roberto Alonso-Mori; Benedikt Lassalle-Kaiser; Carina Glöckner; Julia Hellmich; Donald W Schafer; Nathaniel Echols; Richard J Gildea; Ralf W Grosse-Kunstleve; Jonas Sellberg; Trevor A McQueen; Alan R Fry; Marc M Messerschmidt; Alan Miahnahri; M Marvin Seibert; Christina Y Hampton; Dmitri Starodub; N Duane Loh; Dimosthenis Sokaras; Tsu-Chien Weng; Petrus H Zwart; Pieter Glatzel; Despina Milathianaki; William E White; Paul D Adams; Garth J Williams; Sébastien Boutet; Athina Zouni; Johannes Messinger; Nicholas K Sauter; Uwe Bergmann; Junko Yano; Vittal K Yachandra; Michael J Bogan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-10-18

5.  Determination of damage-free crystal structure of an X-ray-sensitive protein using an XFEL.

Authors:  Kunio Hirata; Kyoko Shinzawa-Itoh; Naomine Yano; Shuhei Takemura; Koji Kato; Miki Hatanaka; Kazumasa Muramoto; Takako Kawahara; Tomitake Tsukihara; Eiki Yamashita; Kensuke Tono; Go Ueno; Takaaki Hikima; Hironori Murakami; Yuichi Inubushi; Makina Yabashi; Tetsuya Ishikawa; Masaki Yamamoto; Takashi Ogura; Hiroshi Sugimoto; Jian-Ren Shen; Shinya Yoshikawa; Hideo Ago
Journal:  Nat Methods       Date:  2014-05-11       Impact factor: 28.547

6.  An automated system to mount cryo-cooled protein crystals on a synchrotron beam line, using compact sample cassettes and a small-scale robot.

Authors:  Aina E Cohen; Paul J Ellis; Mitchell D Miller; Ashley M Deacon; R Paul Phizackerley
Journal:  J Appl Crystallogr       Date:  2002-12       Impact factor: 3.304

7.  Crystallographic and single-crystal spectral analysis of the peroxidase ferryl intermediate.

Authors:  Yergalem T Meharenna; Tzanko Doukov; Huiying Li; S Michael Soltis; Thomas L Poulos
Journal:  Biochemistry       Date:  2010-04-13       Impact factor: 3.162

8.  Radiation damage in protein serial femtosecond crystallography using an x-ray free-electron laser.

Authors:  Lukas Lomb; Thomas R M Barends; Stephan Kassemeyer; Andrew Aquila; Sascha W Epp; Benjamin Erk; Lutz Foucar; Robert Hartmann; Benedikt Rudek; Daniel Rolles; Artem Rudenko; Robert L Shoeman; Jakob Andreasson; Sasa Bajt; Miriam Barthelmess; Anton Barty; Michael J Bogan; Christoph Bostedt; John D Bozek; Carl Caleman; Ryan Coffee; Nicola Coppola; Daniel P Deponte; R Bruce Doak; Tomas Ekeberg; Holger Fleckenstein; Petra Fromme; Maike Gebhardt; Heinz Graafsma; Lars Gumprecht; Christina Y Hampton; Andreas Hartmann; Günter Hauser; Helmut Hirsemann; Peter Holl; James M Holton; Mark S Hunter; Wolfgang Kabsch; Nils Kimmel; Richard A Kirian; Mengning Liang; Filipe R N C Maia; Anton Meinhart; Stefano Marchesini; Andrew V Martin; Karol Nass; Christian Reich; Joachim Schulz; M Marvin Seibert; Raymond Sierra; Heike Soltau; John C H Spence; Jan Steinbrener; Francesco Stellato; Stephan Stern; Nicusor Timneanu; Xiaoyu Wang; Georg Weidenspointner; Uwe Weierstall; Thomas A White; Cornelia Wunderer; Henry N Chapman; Joachim Ullrich; Lothar Strüder; Ilme Schlichting
Journal:  Phys Rev B Condens Matter Mater Phys       Date:  2011-12-01

Review 9.  Scaling and assessment of data quality.

Authors:  Philip Evans
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-12-14

10.  Adrenaline-activated structure of β2-adrenoceptor stabilized by an engineered nanobody.

Authors:  Aaron M Ring; Aashish Manglik; Andrew C Kruse; Michael D Enos; William I Weis; K Christopher Garcia; Brian K Kobilka
Journal:  Nature       Date:  2013-09-22       Impact factor: 49.962

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  58 in total

1.  Accurate determination of segmented X-ray detector geometry.

Authors:  Oleksandr Yefanov; Valerio Mariani; Cornelius Gati; Thomas A White; Henry N Chapman; Anton Barty
Journal:  Opt Express       Date:  2015-11-02       Impact factor: 3.894

2.  Crystal-on-crystal chips for in situ serial diffraction at room temperature.

Authors:  Zhong Ren; Medine Ayhan; Sepalika Bandara; Kalinga Bowatte; Indika Kumarapperuma; Semini Gunawardana; Heewhan Shin; Cong Wang; Xiaoli Zeng; Xiaojing Yang
Journal:  Lab Chip       Date:  2018-07-24       Impact factor: 6.799

3.  Dynamic structures in DNA damage responses & cancer.

Authors:  John A Tainer
Journal:  Prog Biophys Mol Biol       Date:  2015-03       Impact factor: 3.667

4.  The New Macromolecular Femtosecond Crystallography (MFX) Instrument at LCLS.

Authors:  Sébastien Boutet; Aina Cohen; Soichi Wakatsuki
Journal:  Synchrotron Radiat News       Date:  2016-02-01

Review 5.  A Bright Future for Serial Femtosecond Crystallography with XFELs.

Authors:  Linda C Johansson; Benjamin Stauch; Andrii Ishchenko; Vadim Cherezov
Journal:  Trends Biochem Sci       Date:  2017-07-18       Impact factor: 13.807

6.  Expanding the femtosecond crystallography toolkit.

Authors:  Sol M Gruner
Journal:  Proc Natl Acad Sci U S A       Date:  2014-11-24       Impact factor: 11.205

7.  Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex.

Authors:  Artem Y Lyubimov; Monarin Uervirojnangkoorn; Oliver B Zeldin; Qiangjun Zhou; Minglei Zhao; Aaron S Brewster; Tara Michels-Clark; James M Holton; Nicholas K Sauter; William I Weis; Axel T Brunger
Journal:  Elife       Date:  2016-10-12       Impact factor: 8.140

8.  Graphene-based microfluidics for serial crystallography.

Authors:  Shuo Sui; Yuxi Wang; Kristopher W Kolewe; Vukica Srajer; Robert Henning; Jessica D Schiffman; Christos Dimitrakopoulos; Sarah L Perry
Journal:  Lab Chip       Date:  2016-08-02       Impact factor: 6.799

9.  Transmission electron microscopy for the evaluation and optimization of crystal growth.

Authors:  Hilary P Stevenson; Guowu Lin; Christopher O Barnes; Ieva Sutkeviciute; Troy Krzysiak; Simon C Weiss; Shelley Reynolds; Ying Wu; Veeranagu Nagarajan; Alexander M Makhov; Robert Lawrence; Emily Lamm; Lisa Clark; Timothy J Gardella; Brenda G Hogue; Craig M Ogata; Jinwoo Ahn; Angela M Gronenborn; James F Conway; Jean Pierre Vilardaga; Aina E Cohen; Guillermo Calero
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-04-26       Impact factor: 7.652

Review 10.  Serial Crystallography for Structure-Based Drug Discovery.

Authors:  Lan Zhu; Xiaoyu Chen; Enrique E Abola; Liang Jing; Wei Liu
Journal:  Trends Pharmacol Sci       Date:  2020-09-16       Impact factor: 14.819

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