Literature DB >> 21444772

Radiation damage in protein crystals is reduced with a micron-sized X-ray beam.

Ruslan Sanishvili1, Derek W Yoder, Sudhir Babu Pothineni, Gerd Rosenbaum, Shenglan Xu, Stefan Vogt, Sergey Stepanov, Oleg A Makarov, Stephen Corcoran, Richard Benn, Venugopalan Nagarajan, Janet L Smith, Robert F Fischetti.   

Abstract

Radiation damage is a major limitation in crystallography of biological macromolecules, even for cryocooled samples, and is particularly acute in microdiffraction. For the X-ray energies most commonly used for protein crystallography at synchrotron sources, photoelectrons are the predominant source of radiation damage. If the beam size is small relative to the photoelectron path length, then the photoelectron may escape the beam footprint, resulting in less damage in the illuminated volume. Thus, it may be possible to exploit this phenomenon to reduce radiation-induced damage during data measurement for techniques such as diffraction, spectroscopy, and imaging that use X-rays to probe both crystalline and noncrystalline biological samples. In a systematic and direct experimental demonstration of reduced radiation damage in protein crystals with small beams, damage was measured as a function of micron-sized X-ray beams of decreasing dimensions. The damage rate normalized for dose was reduced by a factor of three from the largest (15.6 μm) to the smallest (0.84 μm) X-ray beam used. Radiation-induced damage to protein crystals was also mapped parallel and perpendicular to the polarization direction of an incident 1-μm X-ray beam. Damage was greatest at the beam center and decreased monotonically to zero at a distance of about 4 μm, establishing the range of photoelectrons. The observed damage is less anisotropic than photoelectron emission probability, consistent with photoelectron trajectory simulations. These experimental results provide the basis for data collection protocols to mitigate with micron-sized X-ray beams the effects of radiation damage.

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Year:  2011        PMID: 21444772      PMCID: PMC3076849          DOI: 10.1073/pnas.1017701108

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


  32 in total

1.  Modelling and refining site-specific radiation damage in SAD/MAD phasing.

Authors:  M Schiltz; G Bricogne
Journal:  J Synchrotron Radiat       Date:  2006-12-15       Impact factor: 2.616

2.  Mini-beam collimator enables microcrystallography experiments on standard beamlines.

Authors:  Robert F Fischetti; Shenglan Xu; Derek W Yoder; Michael Becker; Venugopalan Nagarajan; Ruslan Sanishvili; Mark C Hilgart; Sergey Stepanov; Oleg Makarov; Janet L Smith
Journal:  J Synchrotron Radiat       Date:  2009-01-10       Impact factor: 2.616

3.  Absorbed dose calculations for macromolecular crystals: improvements to RADDOSE.

Authors:  Karthik S Paithankar; Robin Leslie Owen; Elspeth F Garman
Journal:  J Synchrotron Radiat       Date:  2009-02-25       Impact factor: 2.616

4.  The optimum conditions to collect X-ray data from very small samples.

Authors:  John A Cowan; Colin Nave
Journal:  J Synchrotron Radiat       Date:  2008-07-22       Impact factor: 2.616

5.  Reducing radiation damage in macromolecular crystals at synchrotron sources.

Authors:  Edward A Stern; Yizhak Yacoby; Gerald T Seidler; Kenneth P Nagle; Micah P Prange; Adam P Sorini; John J Rehr; Andrzej Joachimiak
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-03-19

6.  Crystal structure of the human beta2 adrenergic G-protein-coupled receptor.

Authors:  Søren G F Rasmussen; Hee-Jung Choi; Daniel M Rosenbaum; Tong Sun Kobilka; Foon Sun Thian; Patricia C Edwards; Manfred Burghammer; Venkata R P Ratnala; Ruslan Sanishvili; Robert F Fischetti; Gebhard F X Schertler; William I Weis; Brian K Kobilka
Journal:  Nature       Date:  2007-10-21       Impact factor: 49.962

7.  Know your dose: RADDOSE.

Authors:  Karthik S Paithankar; Elspeth F Garman
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

8.  The minimum crystal size needed for a complete diffraction data set.

Authors:  James M Holton; Kenneth A Frankel
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

9.  The ID23-2 structural biology microfocus beamline at the ESRF.

Authors:  David Flot; Trevor Mairs; Thierry Giraud; Matias Guijarro; Marc Lesourd; Vicente Rey; Denis van Brussel; Christian Morawe; Christine Borel; Olivier Hignette; Joel Chavanne; Didier Nurizzo; Sean McSweeney; Edward Mitchell
Journal:  J Synchrotron Radiat       Date:  2009-12-05       Impact factor: 2.616

10.  A 7μm mini-beam improves diffraction data from small or imperfect crystals of macromolecules.

Authors:  Ruslan Sanishvili; Venugopalan Nagarajan; Derek Yoder; Michael Becker; Shenglan Xu; Stephen Corcoran; David L Akey; Janet L Smith; Robert F Fischetti
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2008-03-19
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  45 in total

1.  Global radiation damage at 300 and 260 K with dose rates approaching 1 MGy s⁻¹.

Authors:  Matthew Warkentin; Ryan Badeau; Jesse B Hopkins; Anne M Mulichak; Lisa J Keefe; Robert E Thorne
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-01-17

2.  Acoustic methods for high-throughput protein crystal mounting at next-generation macromolecular crystallographic beamlines.

Authors:  Christian G Roessler; Anthony Kuczewski; Richard Stearns; Richard Ellson; Joseph Olechno; Allen M Orville; Marc Allaire; Alexei S Soares; Annie Héroux
Journal:  J Synchrotron Radiat       Date:  2013-08-08       Impact factor: 2.616

3.  Analysis of Global and Site-Specific Radiation Damage in Cryo-EM.

Authors:  Johan Hattne; Dan Shi; Calina Glynn; Chih-Te Zee; Marcus Gallagher-Jones; Michael W Martynowycz; Jose A Rodriguez; Tamir Gonen
Journal:  Structure       Date:  2018-04-26       Impact factor: 5.006

4.  Fast fluorescence techniques for crystallography beamlines.

Authors:  Sergey Stepanov; Mark Hilgart; Derek W Yoder; Oleg Makarov; Michael Becker; Ruslan Sanishvili; Craig M Ogata; Nagarajan Venugopalan; David Aragão; Martin Caffrey; Janet L Smith; Robert F Fischetti
Journal:  J Appl Crystallogr       Date:  2011-06-08       Impact factor: 3.304

5.  Dark progression reveals slow timescales for radiation damage between T = 180 and 240 K.

Authors:  Matthew Warkentin; Ryan Badeau; Jesse Hopkins; Robert E Thorne
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-08-09

6.  Automated sample-scanning methods for radiation damage mitigation and diffraction-based centering of macromolecular crystals.

Authors:  Mark C Hilgart; Ruslan Sanishvili; Craig M Ogata; Michael Becker; Nagarajan Venugopalan; Sergey Stepanov; Oleg Makarov; Janet L Smith; Robert F Fischetti
Journal:  J Synchrotron Radiat       Date:  2011-07-29       Impact factor: 2.616

7.  Predicted optical performance of the GM/CA@APS micro-focus beamline.

Authors:  Robert F Fischetti; Derek Yoder; Shenglan Xu; Oleg Makarov; Craig Ogata; Janet L Smith
Journal:  J Phys Conf Ser       Date:  2013

8.  Imaging local electric fields produced upon synchrotron X-ray exposure.

Authors:  Christopher M Dettmar; Justin A Newman; Scott J Toth; Michael Becker; Robert F Fischetti; Garth J Simpson
Journal:  Proc Natl Acad Sci U S A       Date:  2014-12-31       Impact factor: 11.205

9.  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

10.  On the variability of experimental data in macromolecular crystallography.

Authors:  Edwin Pozharski
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-08-18
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