Radiation damage within nucleoprotein complexes studied by macromolecular X-ray crystallography

Bury, Charles S.; Carmichael, Ian; McGeehan, John E.; Garman, Elspeth F.

doi:10.1016/j.radphyschem.2016.05.023

Title: Radiation damage within nucleoprotein complexes studied by macromolecular X-ray crystallography

Journal Article · Tue Nov 01 00:00:00 EDT 2016 · Radiation Physics and Chemistry

DOI:https://doi.org/10.1016/j.radphyschem.2016.05.023· OSTI ID:1352289

Bury, Charles S.; Carmichael, Ian; McGeehan, John E.; Garman, Elspeth F.

View Journal Article

Cite

Export

Save

Sponsoring Organization:: USDOE

Grant/Contract Number:: FC02–04ER1553

OSTI ID:: 1352289

Journal Information:: Radiation Physics and Chemistry, Journal Name: Radiation Physics and Chemistry Vol. 128 Journal Issue: C; ISSN 0969-806X

Publisher:: ElsevierCopyright Statement

Country of Publication:: United Kingdom

Language:: English

Citation Metrics:

Cited by: 2 works

Citation information provided by
Web of Science

References (59)

An electron spin resonance study of .gamma.-irradiated frozen aqueous solutions containing dipeptides. Mechanisms of radical reaction Sevilla, Michael D.; D'Arcy, James B.; Morehouse, Kim M. The Journal of Physical Chemistry, Vol. 83, Issue 22 https://doi.org/10.1021/j100485a016	journal	November 1979
Room-temperature macromolecular serial crystallography using synchrotron radiation Stellato, Francesco; Oberthür, Dominik; Liang, Mengning IUCrJ, Vol. 1, Issue 4, p. 204-212 https://doi.org/10.1107/S2052252514010070	journal	May 2014
Investigating DNA Radiation Damage Using X-Ray Absorption Spectroscopy Czapla-Masztafiak, Joanna; Szlachetko, Jakub; Milne, Christopher J. Biophysical Journal, Vol. 110, Issue 6 https://doi.org/10.1016/j.bpj.2016.01.031	journal	March 2016
The interaction of a protein–DNA surface complex with low-energy electrons Solomun, T.; Skalický, T. Chemical Physics Letters, Vol. 453, Issue 1-3 https://doi.org/10.1016/j.cplett.2007.12.078	journal	February 2008
Exploiting fast detectors to enter a new dimension in room-temperature crystallography Owen, Robin L.; Paterson, Neil; Axford, Danny Acta Crystallographica Section D Biological Crystallography, Vol. 70, Issue 5 https://doi.org/10.1107/S1399004714005379	journal	April 2014
Effective scavenging at cryotemperatures: further increasing the dose tolerance of protein crystals De la Mora, Eugenio; Carmichael, Ian; Garman, Elspeth F. Journal of Synchrotron Radiation, Vol. 18, Issue 3 https://doi.org/10.1107/S0909049511007163	journal	April 2011
Examining the conformational dynamics of macromolecules with time-resolved synchrotron X-ray ‘footprinting’ Chance, Mark R.; Sclavi, Bianca; Woodson, Sarah A. Structure, Vol. 5, Issue 7 https://doi.org/10.1016/S0969-2126(97)00241-4	journal	July 1997
Radiation damage in protein crystals is reduced with a micron-sized X-ray beam Sanishvili, R.; Yoder, D. W.; Pothineni, S. B. Proceedings of the National Academy of Sciences, Vol. 108, Issue 15 https://doi.org/10.1073/pnas.1017701108	journal	March 2011
Outrunning free radicals in room-temperature macromolecular crystallography Owen, Robin L.; Axford, Danny; Nettleship, Joanne E. Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 7 https://doi.org/10.1107/S0907444912012553	journal	June 2012
Measurement of inelastic cross sections for low-energy electron scattering from DNA bases Michaud, Marc; Bazin, Marc; Sanche, Le´on International Journal of Radiation Biology, Vol. 88, Issue 1-2 https://doi.org/10.3109/09553002.2011.577505	journal	May 2011
Predicting the X-ray lifetime of protein crystals Zeldin, O. B.; Brockhauser, S.; Bremridge, J. Proceedings of the National Academy of Sciences, Vol. 110, Issue 51 https://doi.org/10.1073/pnas.1315879110	journal	December 2013
Radiation damage to nucleoprotein complexes in macromolecular crystallography Bury, Charles; Garman, Elspeth F.; Ginn, Helen Mary Journal of Synchrotron Radiation, Vol. 22, Issue 2 https://doi.org/10.1107/S1600577514026289	journal	January 2015
Alanine-scanning mutagenesis of Bacillus subtilis trp RNA-binding attenuation protein (TRAP) reveals residues involved in tryptophan binding and RNA binding Yang, Min; Chen, Xiao-ping; Militello, Kevin Journal of Molecular Biology, Vol. 270, Issue 5 https://doi.org/10.1006/jmbi.1997.1149	journal	August 1997
Structure of the restriction–modification controller protein C. Esp 1396I Ball, N.; Streeter, S. D.; Kneale, G. G. Acta Crystallographica Section D Biological Crystallography, Vol. 65, Issue 9 https://doi.org/10.1107/S0907444909020514	journal	August 2009
Radiation damage to DNA–protein specific complexes: estrogen response element–estrogen receptor complex Štísová, Viktorie; Goffinont, Stephane; Spotheim-Maurizot, Melanie Radiation Protection Dosimetry, Vol. 122, Issue 1-4 https://doi.org/10.1093/rpd/ncl443	journal	December 2006
How Do Low-Energy (0.1−2 eV) Electrons Cause DNA-Strand Breaks? Simons, Jack Accounts of Chemical Research, Vol. 39, Issue 10 https://doi.org/10.1021/ar0680769	journal	October 2006
Resonant Formation of DNA Strand Breaks by Low-Energy (3 to 20 eV) Electrons Boudaïffa, B. Science, Vol. 287, Issue 5458 https://doi.org/10.1126/science.287.5458.1658	journal	March 2000
Radiation Damage to DNA: The Indirect Effect of Low-Energy Electrons Alizadeh, Elahe; Sanz, Ana G.; García, Gustavo The Journal of Physical Chemistry Letters, Vol. 4, Issue 5 https://doi.org/10.1021/jz4000998	journal	February 2013
Structure of the trp RNA-binding attenuation protein, TRAP, bound to RNA Antson, Alfred A.; Dodson, Eleanor J.; Dodson, Guy Nature, Vol. 401, Issue 6750 https://doi.org/10.1038/45730	journal	September 1999
Radiation Disrupts Protein–DNA Complexes through Damage to the Protein. The lac Repressor–Operator System Eon, Séverine; Culard, Françoise; Sy, Denise Radiation Research, Vol. 156, Issue 1 https://doi.org/10.1667/0033-7587(2001)156[0110:RDPDCT]2.0.CO;2	journal	July 2001
Specific chemical and structural damage to proteins produced by synchrotron radiation Weik, M.; Ravelli, R. B. G.; Kryger, G. Proceedings of the National Academy of Sciences, Vol. 97, Issue 2 https://doi.org/10.1073/pnas.97.2.623	journal	January 2000
Cleavage of thymine N3–H bonds by low-energy electrons attached to base π∗ orbitals Théodore, Magali; Sobczyk, Monika; Simons, Jack Chemical Physics, Vol. 329, Issue 1-3 https://doi.org/10.1016/j.chemphys.2006.05.012	journal	October 2006
Structure and mobility of electron gain and loss centres in proteins Jones, George D. D.; Lea, Jeremy S.; Symons, Martyn C. R. Nature, Vol. 330, Issue 6150 https://doi.org/10.1038/330772a0	journal	December 1987
Architecture of the Photosynthetic Oxygen-Evolving Center Ferreira, K. N. Science, Vol. 303, Issue 5665 https://doi.org/10.1126/science.1093087	journal	March 2004
X-ray radiation-induced damage in DNA monitored by online Raman McGeehan, John E.; Carpentier, Philippe; Royant, Antoine Journal of Synchrotron Radiation, Vol. 14, Issue 1 https://doi.org/10.1107/S0909049506043251	journal	December 2006
Low-energy-electron interactions with DNA: approaching cellular conditions with atmospheric experiments Alizadeh, Elahe; Sanche, Léon The European Physical Journal D, Vol. 68, Issue 4 https://doi.org/10.1140/epjd/e2014-40775-5	journal	April 2014
RNA protects a nucleoprotein complex against radiation damage Bury, Charles S.; McGeehan, John E.; Antson, Alfred A. Acta Crystallographica Section D Structural Biology, Vol. 72, Issue 5 https://doi.org/10.1107/S2059798316003351	journal	April 2016
Observation of Decreased Radiation Damage at Higher Dose Rates in Room Temperature Protein Crystallography Southworth-Davies, Robert J.; Medina, Melissa A.; Carmichael, Ian Structure, Vol. 15, Issue 12 https://doi.org/10.1016/j.str.2007.10.013	journal	December 2007
To scavenge or not to scavenge, that is STILL the question Allan, Elizabeth G.; Kander, Melissa C.; Carmichael, Ian Journal of Synchrotron Radiation, Vol. 20, Issue 1 https://doi.org/10.1107/S0909049512046237	journal	December 2012
The Interaction of RNA with TRAP: The Role of Triplet Repeats and Separating Spacer Nucleotides Hopcroft, Nicholas H.; Manfredo, Amanda; Wendt, Alice L. Journal of Molecular Biology, Vol. 338, Issue 1 https://doi.org/10.1016/j.jmb.2004.02.038	journal	April 2004
Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome Voorhees, Rebecca M.; Weixlbaumer, Albert; Loakes, David Nature Structural & Molecular Biology, Vol. 16, Issue 5 https://doi.org/10.1038/nsmb.1577	journal	April 2009
Radiation damage in macromolecular crystallography: what is it and why should we care? Garman, Elspeth F. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4 https://doi.org/10.1107/S0907444910008656	journal	March 2010
Identifying and quantifying radiation damage at the atomic level Gerstel, Markus; Deane, Charlotte M.; Garman, Elspeth F. Journal of Synchrotron Radiation, Vol. 22, Issue 2 https://doi.org/10.1107/S1600577515002131	journal	February 2015
Electron Movement Through Proteins and DNA Symons, Martyn C. R. Free Radical Biology and Medicine, Vol. 22, Issue 7 https://doi.org/10.1016/S0891-5849(96)00548-5	journal	January 1997
Damage to Model DNA Fragments by 0.25−1.0 eV Electrons Attached to a Thymine π* Orbital Berdys, Joanna; Skurski, Piotr; Simons, Jack The Journal of Physical Chemistry B, Vol. 108, Issue 18 https://doi.org/10.1021/jp049728i	journal	May 2004
The mechanism of RNA binding to TRAP: Initiation and cooperative interactions Elliott, Matthew B.; Gottlieb, Philip A.; Gollnick, Paul RNA, Vol. 7, Issue 1 https://doi.org/10.1017/S135583820100173X	journal	January 2001
Insights into the mechanism of X-ray-induced disulfide-bond cleavage in lysozyme crystals based on EPR, optical absorption and X-ray diffraction studies Sutton, Kristin A.; Black, Paul J.; Mercer, Kermit R. Acta Crystallographica Section D Biological Crystallography, Vol. 69, Issue 12 https://doi.org/10.1107/S0907444913022117	journal	November 2013
Specificity of TRAP–RNA interactions: crystal structures of two complexes with different RNA sequences Hopcroft, Nicholas H.; Wendt, Alice L.; Gollnick, Paul Acta Crystallographica Section D Biological Crystallography, Vol. 58, Issue 4 https://doi.org/10.1107/S0907444902003189	journal	March 2002
Radiolysis of lac Repressor by γ-Rays and Heavy Ions: A Two-Hit Model for Protein Inactivation Charlier, Michel; Eon, Séverine; Sèche, Édouard Biophysical Journal, Vol. 82, Issue 5 https://doi.org/10.1016/S0006-3495(02)75582-3	journal	May 2002
X-ray damage to the Mn4Ca complex in single crystals of photosystem II: A case study for metalloprotein crystallography Yano, J.; Kern, J.; Irrgang, K. -D. Proceedings of the National Academy of Sciences, Vol. 102, Issue 34 https://doi.org/10.1073/pnas.0505207102	journal	August 2005
Radiation damage in macromolecular cryocrystallography Ravelli, R.; Garman, E. Current Opinion in Structural Biology, Vol. 16, Issue 5 https://doi.org/10.1016/j.sbi.2006.08.001	journal	October 2006
Low-dose X-ray radiation induces structural alterations in proteins Borshchevskiy, Valentin; Round, Ekaterina; Erofeev, Ivan Acta Crystallographica Section D Biological Crystallography, Vol. 70, Issue 10 https://doi.org/10.1107/S1399004714017295	journal	September 2014
Protection of DNA against low-energy electrons by amino acids: a first-principles molecular dynamics study Gu, Bin; Smyth, Maeve; Kohanoff, Jorge Phys. Chem. Chem. Phys., Vol. 16, Issue 44 https://doi.org/10.1039/C4CP03906H	journal	January 2014
Mechanism for Damage to DNA by Low-Energy Electrons ^† Barrios, Robyn; Skurski, Piotr; Simons, Jack The Journal of Physical Chemistry B, Vol. 106, Issue 33 https://doi.org/10.1021/jp013861i	journal	August 2002
Radiation Affects Binding of Fpg Repair Protein to an Abasic Site Containing DNA Gillard, Nathalie; Begusova, Marie; Castaing, Bertrand Radiation Research, Vol. 162, Issue 5 https://doi.org/10.1667/RR3247	journal	November 2004
Physical and chemical considerations of damage induced in protein crystals by synchrotron radiation: a radiation chemical perspective O'Neill, Peter; Stevens, David L.; Garman, Elspeth F. Journal of Synchrotron Radiation, Vol. 9, Issue 6 https://doi.org/10.1107/S0909049502014553	journal	November 2002
Structural changes in a cryo-cooled protein crystal owing to radiation damage Burmeister, Wilhelm Pascal Acta Crystallographica Section D Biological Crystallography, Vol. 56, Issue 3 https://doi.org/10.1107/S0907444999016261	journal	March 2000
Investigation of possible free-radical scavengers and metrics for radiation damage in protein cryocrystallography Murray, James; Garman, Elspeth Journal of Synchrotron Radiation, Vol. 9, Issue 6 https://doi.org/10.1107/S0909049502014632	journal	November 2002
Structural analysis of the genetic switch that regulates the expression of restriction-modification genes McGeehan, John E.; Streeter, Simon D.; Thresh, Sarah -J. Nucleic Acids Research, Vol. 36, Issue 14 https://doi.org/10.1093/nar/gkn448	journal	July 2008
Will reduced radiation damage occur with very small crystals? Nave, Colin; Hill, Mark A. Journal of Synchrotron Radiation, Vol. 12, Issue 3 https://doi.org/10.1107/S0909049505003274	journal	April 2005
Hydroxyl radicals and DNA base damage Cadet, Jean; Delatour, Thierry; Douki, Thierry Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, Vol. 424, Issue 1-2 https://doi.org/10.1016/S0027-5107(99)00004-4	journal	March 1999
Radiation damage to DNA in DNA–protein complexes Spotheim-Maurizot, M.; Davídková, M. Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, Vol. 711, Issue 1-2 https://doi.org/10.1016/j.mrfmmm.2011.02.003	journal	June 2011
Biomolecular Damage Induced by Ionizing Radiation: The Direct and Indirect Effects of Low-Energy Electrons on DNA Alizadeh, Elahe; Orlando, Thomas M.; Sanche, Léon Annual Review of Physical Chemistry, Vol. 66, Issue 1 https://doi.org/10.1146/annurev-physchem-040513-103605	journal	April 2015
Experimental determination of the radiation dose limit for cryocooled protein crystals Owen, R. L.; Rudino-Pinera, E.; Garman, E. F. Proceedings of the National Academy of Sciences, Vol. 103, Issue 13 https://doi.org/10.1073/pnas.0600973103	journal	March 2006
Reaction mechanisms in the radiolysis of peptides, polypeptides, and proteins Garrison, Warren M. Chemical Reviews, Vol. 87, Issue 2 https://doi.org/10.1021/cr00078a006	journal	April 1987
Probing the TRAP–RNA interaction with nucleoside analogs Elliott, Matthew B.; Gottlieb, Philip A.; Gollnick, Paul RNA, Vol. 5, Issue 10 https://doi.org/10.1017/S1355838299991057	journal	October 1999
Radiosensitivity of DNA in a specific protein-DNA complex: the lac repressor- lac operator complex BĚgusová, M.; Eon, S.; Sy, D. International Journal of Radiation Biology, Vol. 77, Issue 6 https://doi.org/10.1080/09553000110041876	journal	January 2001
A beginner's guide to radiation damage Holton, James M. Journal of Synchrotron Radiation, Vol. 16, Issue 2 https://doi.org/10.1107/S0909049509004361	journal	February 2009
Specific radiation damage to acidic residues and its relation to their chemical and structural environment Fioravanti, Emanuela; Vellieux, Frédéric M. D.; Amara, Patricia Journal of Synchrotron Radiation, Vol. 14, Issue 1 https://doi.org/10.1107/S0909049506038623	journal	December 2006

Similar Records

Radiation damage to nucleoprotein complexes in macromolecular crystallography

Journal Article · Fri Jan 30 00:00:00 EST 2015 · Journal of Synchrotron Radiation (Online) · OSTI ID:1352289

Bury, Charles; Garman, Elspeth F.; Ginn, Helen Mary; +4 more

RNA protects a nucleoprotein complex against radiation damage

Journal Article · Tue Apr 26 00:00:00 EDT 2016 · Acta Crystallographica. Section D. Structural Biology · OSTI ID:1352289

Bury, Charles S.; McGeehan, John E.; Antson, Alfred A.; +4 more

X-Ray Damage to the Mn (4) Ca Complex in Single Crystals of Photosystem. II: a Case Study for Metalloprotein Crystallography

Journal Article · Wed Oct 25 00:00:00 EDT 2006 · Proc.Nat.Acad.Sci.102:12047-12052,2005 · OSTI ID:1352289

Yano, J; Kern, J; Irrgang, K -D; +10 more

Title: Radiation damage within nucleoprotein complexes studied by macromolecular X-ray crystallography

Citation Formats

References (59)

Similar Records

Related Subjects