Literature DB >> 27143509

Serial femtosecond crystallography: A revolution in structural biology.

Jose M Martin-Garcia1, Chelsie E Conrad1, Jesse Coe1, Shatabdi Roy-Chowdhury1, Petra Fromme2.   

Abstract

Macromolecular crystallography at synchrotron sources has proven to be the most influential method within structural biology, producing thousands of structures since its inception. While its utility has been instrumental in progressing our knowledge of structures of molecules, it suffers from limitations such as the need for large, well-diffracting crystals, and radiation damage that can hamper native structural determination. The recent advent of X-ray free electron lasers (XFELs) and their implementation in the emerging field of serial femtosecond crystallography (SFX) has given rise to a remarkable expansion upon existing crystallographic constraints, allowing structural biologists access to previously restricted scientific territory. SFX relies on exceptionally brilliant, micro-focused X-ray pulses, which are femtoseconds in duration, to probe nano/micrometer sized crystals in a serial fashion. This results in data sets comprised of individual snapshots, each capturing Bragg diffraction of single crystals in random orientations prior to their subsequent destruction. Thus structural elucidation while avoiding radiation damage, even at room temperature, can now be achieved. This emerging field has cultivated new methods for nanocrystallogenesis, sample delivery, and data processing. Opportunities and challenges within SFX are reviewed herein. Published by Elsevier Inc.

Entities:  

Keywords:  Membrane proteins; Nanocrystals; Protein crystallography; Serial femtosecond crystallography; X-ray free electron lasers

Mesh:

Substances:

Year:  2016        PMID: 27143509      PMCID: PMC4909539          DOI: 10.1016/j.abb.2016.03.036

Source DB:  PubMed          Journal:  Arch Biochem Biophys        ISSN: 0003-9861            Impact factor:   4.013


  122 in total

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

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Journal:  Nature       Date:  2000-08-17       Impact factor: 49.962

Review 2.  Cryocooling and radiation damage in macromolecular crystallography.

Authors:  Elspeth F Garman; Robin Leslie Owen
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-12-14

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

Review 4.  Optimization of crystallization conditions for biological macromolecules.

Authors:  Alexander McPherson; Bob Cudney
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2014-10-31       Impact factor: 1.056

5.  Femtosecond structural dynamics drives the trans/cis isomerization in photoactive yellow protein.

Authors:  Kanupriya Pande; Christopher D M Hutchison; Gerrit Groenhof; Andy Aquila; Josef S Robinson; Jason Tenboer; Shibom Basu; Sébastien Boutet; Daniel P DePonte; Mengning Liang; Thomas A White; Nadia A Zatsepin; Oleksandr Yefanov; Dmitry Morozov; Dominik Oberthuer; Cornelius Gati; Ganesh Subramanian; Daniel James; Yun Zhao; Jake Koralek; Jennifer Brayshaw; Christopher Kupitz; Chelsie Conrad; Shatabdi Roy-Chowdhury; Jesse D Coe; Markus Metz; Paulraj Lourdu Xavier; Thomas D Grant; Jason E Koglin; Gihan Ketawala; Raimund Fromme; Vukica Šrajer; Robert Henning; John C H Spence; Abbas Ourmazd; Peter Schwander; Uwe Weierstall; Matthias Frank; Petra Fromme; Anton Barty; Henry N Chapman; Keith Moffat; Jasper J van Thor; Marius Schmidt
Journal:  Science       Date:  2016-05-05       Impact factor: 47.728

6.  Mutagenesis and Laue structures of enzyme intermediates: isocitrate dehydrogenase.

Authors:  J M Bolduc; D H Dyer; W G Scott; P Singer; R M Sweet; D E Koshland; B L Stoddard
Journal:  Science       Date:  1995-06-02       Impact factor: 47.728

Review 7.  Serial femtosecond crystallography: the first five years.

Authors:  Ilme Schlichting
Journal:  IUCrJ       Date:  2015-02-03       Impact factor: 4.769

8.  The indexing ambiguity in serial femtosecond crystallography (SFX) resolved using an expectation maximization algorithm.

Authors:  Haiguang Liu; John C H Spence
Journal:  IUCrJ       Date:  2014-09-23       Impact factor: 4.769

9.  Improvements in serial femtosecond crystallography of photosystem II by optimizing crystal uniformity using microseeding procedures.

Authors:  Mohamed Ibrahim; Ruchira Chatterjee; Julia Hellmich; Rosalie Tran; Martin Bommer; Vittal K Yachandra; Junko Yano; Jan Kern; Athina Zouni
Journal:  Struct Dyn       Date:  2015       Impact factor: 2.920

10.  Architecture of the synaptotagmin-SNARE machinery for neuronal exocytosis.

Authors:  Qiangjun Zhou; Ying Lai; Taulant Bacaj; Minglei Zhao; Artem Y Lyubimov; Monarin Uervirojnangkoorn; Oliver B Zeldin; Aaron S Brewster; Nicholas K Sauter; Aina E Cohen; S Michael Soltis; Roberto Alonso-Mori; Matthieu Chollet; Henrik T Lemke; Richard A Pfuetzner; Ucheor B Choi; William I Weis; Jiajie Diao; Thomas C Südhof; Axel T Brunger
Journal:  Nature       Date:  2015-08-17       Impact factor: 49.962

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  40 in total

1.  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

2.  A science education model for large collaborative centers.

Authors:  William J Bauer; Sarah B Woodruff
Journal:  Struct Dyn       Date:  2021-03-05       Impact factor: 2.920

3.  Dynamic X-ray diffraction sampling for protein crystal positioning.

Authors:  Nicole M Scarborough; G M Dilshan P Godaliyadda; Dong Hye Ye; David J Kissick; Shijie Zhang; Justin A Newman; Michael J Sheedlo; Azhad U Chowdhury; Robert F Fischetti; Chittaranjan Das; Gregery T Buzzard; Charles A Bouman; Garth J Simpson
Journal:  J Synchrotron Radiat       Date:  2017-01-01       Impact factor: 2.616

Review 4.  Understanding pre-mRNA splicing through crystallography.

Authors:  Sara Espinosa; Lingdi Zhang; Xueni Li; Rui Zhao
Journal:  Methods       Date:  2017-05-12       Impact factor: 3.608

Review 5.  An outlook on using serial femtosecond crystallography in drug discovery.

Authors:  Alexey Mishin; Anastasiia Gusach; Aleksandra Luginina; Egor Marin; Valentin Borshchevskiy; Vadim Cherezov
Journal:  Expert Opin Drug Discov       Date:  2019-06-11       Impact factor: 6.098

6.  3D printed droplet generation devices for serial femtosecond crystallography enabled by surface coating.

Authors:  Austin Echelmeier; Daihyun Kim; Jorvani Cruz Villarreal; Jesse Coe; Sebastian Quintana; Gerrit Brehm; Ana Egatz-Gomez; Reza Nazari; Raymond G Sierra; Jason E Koglin; Alexander Batyuk; Mark S Hunter; Sébastien Boutet; Nadia Zatsepin; Richard A Kirian; Thomas D Grant; Petra Fromme; Alexandra Ros
Journal:  J Appl Crystallogr       Date:  2019-08-29       Impact factor: 3.304

Review 7.  The cryo-EM method microcrystal electron diffraction (MicroED).

Authors:  Brent L Nannenga; Tamir Gonen
Journal:  Nat Methods       Date:  2019-04-29       Impact factor: 28.547

Review 8.  Structure-guided engineering of TGF-βs for the development of novel inhibitors and probing mechanism.

Authors:  Andrew P Hinck
Journal:  Bioorg Med Chem       Date:  2018-07-07       Impact factor: 3.641

9.  Mix-and-inject XFEL crystallography reveals gated conformational dynamics during enzyme catalysis.

Authors:  Medhanjali Dasgupta; Dominik Budday; Saulo H P de Oliveira; Peter Madzelan; Darya Marchany-Rivera; Javier Seravalli; Brandon Hayes; Raymond G Sierra; Sébastien Boutet; Mark S Hunter; Roberto Alonso-Mori; Alexander Batyuk; Jennifer Wierman; Artem Lyubimov; Aaron S Brewster; Nicholas K Sauter; Gregory A Applegate; Virendra K Tiwari; David B Berkowitz; Michael C Thompson; Aina E Cohen; James S Fraser; Michael E Wall; Henry van den Bedem; Mark A Wilson
Journal:  Proc Natl Acad Sci U S A       Date:  2019-12-04       Impact factor: 11.205

10.  Fourier-Based Diffraction Analysis of Live Caenorhabditis elegans.

Authors:  Jenny Magnes; Harold M Hastings; Kathleen M Raley-Susman; Clara Alivisatos; Adam Warner; Miranda Hulsey-Vincent
Journal:  J Vis Exp       Date:  2017-09-13       Impact factor: 1.355

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