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Title: Radiation damage to nucleoprotein complexes in macromolecular crystallography

Abstract

Significant progress has been made in macromolecular crystallography over recent years in both the understanding and mitigation of X-ray induced radiation damage when collecting diffraction data from crystalline proteins. Despite the large field that is productively engaged in the study of radiation chemistry of nucleic acids, particularly of DNA, there are currently very few X-ray crystallographic studies on radiation damage mechanisms in nucleic acids. Quantitative comparison of damage to protein and DNA crystals separately is challenging, but many of the issues are circumvented by studying pre-formed biological nucleoprotein complexes where direct comparison of each component can be made under the same controlled conditions. A model protein–DNA complex C.Esp1396I is employed to investigate specific damage mechanisms for protein and DNA in a biologically relevant complex over a large dose range (2.07–44.63 MGy). In order to allow a quantitative analysis of radiation damage sites from a complex series of macromolecular diffraction data, a computational method has been developed that is generally applicable to the field. Typical specific damage was observed for both the protein on particular amino acids and for the DNA on, for example, the cleavage of base-sugar N1—C and sugar-phosphate C—O bonds. Strikingly the DNA component was determined to bemore » far more resistant to specific damage than the protein for the investigated dose range. We observed the protein at low doses and found that they were susceptible to radiation damage while the DNA was far more resistant, damage only being observed at significantly higher doses.« less

Authors:
 [1];  [1];  [1];  [2];  [3];  [4];  [4]
+ Show Author Affiliations
  1. Univ. of Oxford (United Kingdom). Dept. of Biochemistry
  2. Maastricht Univ. (Netherlands). Inst. of Nanoscopy
  3. Univ. of Notre Dame, IN (United States). Notre Dame Radiation Lab.
  4. Univ. of Portsmouth (United Kingdom). Inst. of Biomedical and Biomolecular Sciences
Publication Date:
Research Org.:
University of Notre Dame, IN (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
OSTI Identifier:
1345569
Grant/Contract Number:  
FC02-04ER15533
Resource Type:
Accepted Manuscript
Journal Name:
Journal of Synchrotron Radiation (Online)
Additional Journal Information:
Journal Name: Journal of Synchrotron Radiation (Online); Journal Volume: 22; Journal Issue: 2; Journal ID: ISSN 1600-5775
Publisher:
International Union of Crystallography
Country of Publication:
United States
Language:
English
Subject:
62 RADIOLOGY AND NUCLEAR MEDICINE; 60 APPLIED LIFE SCIENCES; macromolecular crystallography; radiation damage; protein–DNA complexes; specific damage

Citation Formats

Bury, Charles, Garman, Elspeth F., Ginn, Helen Mary, Ravelli, Raimond B. G., Carmichael, Ian, Kneale, Geoff, and McGeehan, John E. Radiation damage to nucleoprotein complexes in macromolecular crystallography. United States: N. p., 2015. Web. doi:10.1107/s1600577514026289.
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Bury, Charles, Garman, Elspeth F., Ginn, Helen Mary, Ravelli, Raimond B. G., Carmichael, Ian, Kneale, Geoff, & McGeehan, John E. Radiation damage to nucleoprotein complexes in macromolecular crystallography. United States. https://doi.org/10.1107/s1600577514026289
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Bury, Charles, Garman, Elspeth F., Ginn, Helen Mary, Ravelli, Raimond B. G., Carmichael, Ian, Kneale, Geoff, and McGeehan, John E. Fri . "Radiation damage to nucleoprotein complexes in macromolecular crystallography". United States. https://doi.org/10.1107/s1600577514026289. https://www.osti.gov/servlets/purl/1345569.
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@article{osti_1345569,
title = {Radiation damage to nucleoprotein complexes in macromolecular crystallography},
author = {Bury, Charles and Garman, Elspeth F. and Ginn, Helen Mary and Ravelli, Raimond B. G. and Carmichael, Ian and Kneale, Geoff and McGeehan, John E.},
abstractNote = {Significant progress has been made in macromolecular crystallography over recent years in both the understanding and mitigation of X-ray induced radiation damage when collecting diffraction data from crystalline proteins. Despite the large field that is productively engaged in the study of radiation chemistry of nucleic acids, particularly of DNA, there are currently very few X-ray crystallographic studies on radiation damage mechanisms in nucleic acids. Quantitative comparison of damage to protein and DNA crystals separately is challenging, but many of the issues are circumvented by studying pre-formed biological nucleoprotein complexes where direct comparison of each component can be made under the same controlled conditions. A model protein–DNA complex C.Esp1396I is employed to investigate specific damage mechanisms for protein and DNA in a biologically relevant complex over a large dose range (2.07–44.63 MGy). In order to allow a quantitative analysis of radiation damage sites from a complex series of macromolecular diffraction data, a computational method has been developed that is generally applicable to the field. Typical specific damage was observed for both the protein on particular amino acids and for the DNA on, for example, the cleavage of base-sugar N1—C and sugar-phosphate C—O bonds. Strikingly the DNA component was determined to be far more resistant to specific damage than the protein for the investigated dose range. We observed the protein at low doses and found that they were susceptible to radiation damage while the DNA was far more resistant, damage only being observed at significantly higher doses.},
doi = {10.1107/s1600577514026289},
journal = {Journal of Synchrotron Radiation (Online)},
number = 2,
volume = 22,
place = {United States},
year = {Fri Jan 30 00:00:00 EST 2015},
month = {Fri Jan 30 00:00:00 EST 2015}
}
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https://doi.org/10.1107/s1600577514026289
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