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Publications

Breaking the radiation damage limit with cryo-SAXS

Cornell Affiliated Author(s)
Author
S.P. Meisburger
M. Warkentin
H. Chen
J.B. Hopkins
R.E. Gillilan
L. Pollack
R.E. Thorne
Abstract

Small angle x-ray scattering (SAXS) is a versatile and widely used technique for obtaining low-resolution structures of macromolecules and complexes. SAXS experiments measure molecules in solution, without the need for labeling or crystallization. However, radiation damage currently limits the application of SAXS to molecules that can be produced in microgram quantities; for typical proteins, 10-20 μL of solution at 1 mg/mL is required to accumulate adequate signal before irreversible x-ray damage is observed.

Journal
Biophysical Journal
Date Published
Group (Lab)
Robert Thorne Group

Global radiation damage: Temperature dependence, time dependence and how to outrun it

Cornell Affiliated Author(s)
Author
M. Warkentin
J.B. Hopkins
R. Badeau
A.M. Mulichak
L.J. Keefe
R.E. Thorne
Abstract

A series of studies that provide a consistent and illuminating picture of global radiation damage to protein crystals, especially at temperatures above 200 K, are described. The radiation sensitivity shows a transition near 200 K, above which it appears to be limited by solvent-coupled diffusive processes. Consistent with this interpretation, a component of global damage proceeds on timescales of several minutes at 180 K, decreasing to seconds near room temperature. As a result, data collection times of order 1 s allow up to half of global damage to be outrun at 260 K.

Journal
Journal of Synchrotron Radiation
Date Published
Group (Lab)
Robert Thorne Group

Effect of common cryoprotectants on critical warming rates and ice formation in aqueous solutions

Cornell Affiliated Author(s)
Author
J.B. Hopkins
R. Badeau
M. Warkentin
R.E. Thorne
Abstract

Ice formation on warming is of comparable or greater importance to ice formation on cooling in determining survival of cryopreserved samples. Critical warming rates required for ice-free warming of vitrified aqueous solutions of glycerol, dimethyl sulfoxide, ethylene glycol, polyethylene glycol 200 and sucrose have been measured for warming rates of order 10-104K/s. Critical warming rates are typically one to three orders of magnitude larger than critical cooling rates.

Journal
Cryobiology
Date Published
Group (Lab)
Robert Thorne Group

Spatial distribution of radiation damage to crystalline proteins at 25-300 K

Cornell Affiliated Author(s)
Author
M. Warkentin
R. Badeau
J.B. Hopkins
R.E. Thorne
Abstract

The spatial distribution of radiation damage (assayed by increases in atomic B factors) to thaumatin and urease crystals at temperatures ranging from 25 to 300 K is reported. The nature of the damage changes dramatically at approximately 180 K. Above this temperature the role of solvent diffusion is apparent in thaumatin crystals, as solvent-exposed turns and loops are especially sensitive. In urease, a flap covering the active site is the most sensitive part of the molecule and nearby loops show enhanced sensitivity.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Research Area
Group (Lab)
Robert Thorne Group

Dual-detector X-ray fluorescence imaging of ancient artifacts with surface relief

Cornell Affiliated Author(s)
Author
D.-M. Smilgies
J.A. Powers
D.H. Bilderback
R.E. Thorne
Abstract

Interpretation of X-ray fluorescence images of archeological artifacts is complicated by the presence of surface relief and roughness. Using two symmetrically arranged fluorescence detectors in a back-reflection geometry, the proper X-ray fluorescence yield can be distinguished from intensity variations caused by surface topography. This technique has been applied to the study of Roman inscriptions on marble. © 2012 International Union of Crystallography.

Journal
Journal of Synchrotron Radiation
Date Published
Group (Lab)
Robert Thorne Group

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

Cornell Affiliated Author(s)
Author
M. Warkentin
R. Badeau
J.B. Hopkins
A.M. Mulichak
L.J. Keefe
R.E. Thorne
Abstract

Global radiation damage to 19 thaumatin crystals has been measured using dose rates from 3 to 680 kGy s -1. At room temperature damage per unit dose appears to be roughly independent of dose rate, suggesting that the timescales for important damage processes are less than ∼1 s. However, at T = 260 K approximately half of the global damage manifested at dose rates of 10 kGy s -1 can be outrun by collecting data at 680 kGy s -1. Appreciable sample-to-sample variability in global radiation sensitivity at fixed dose rate is observed.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Group (Lab)
Robert Thorne Group

Can radiation damage to protein crystals be reduced using small-molecule compounds?

Cornell Affiliated Author(s)
Author
J. Kmetko
M. Warkentin
U. Englich
R.E. Thorne
Abstract

Recent studies have defined a data-collection protocol and a metric that provide a robust measure of global radiation damage to protein crystals. Using this protocol and metric, 19 small-molecule compounds (introduced either by cocrystalliz-ation or soaking) were evaluated for their ability to protect lysozyme crystals from radiation damage. The compounds were selected based upon their ability to interact with radiolytic products (e.g.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Research Area
Group (Lab)
Robert Thorne Group

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

Cornell Affiliated Author(s)
Author
M. Warkentin
R. Badeau
J. Hopkins
R.E. Thorne
Abstract

Can radiation damage to protein crystals be outrun by collecting a structural data set before damage is manifested? Recent experiments using ultra-intense pulses from a free-electron laser show that the answer is yes. Here, evidence is presented that significant reductions in global damage at temperatures above 200 K may be possible using conventional X-ray sources and current or soon-to-be available detectors.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Research Area
Group (Lab)
Robert Thorne Group

Development of high-performance X-ray transparent crystallization plates for in situ protein crystal screening and analysis

Cornell Affiliated Author(s)
Author
A.S.M. Soliman
M. Warkentin
B. Apker
R.E. Thorne
Abstract

X-ray transparent crystallization plates based upon a novel drop-pinning technology provide a flexible, simple and inexpensive approach to protein crystallization and screening. The plates consist of open cells sealed top and bottom by thin optically, UV and X-ray transparent films. The plates do not need wells or depressions to contain liquids. Instead, protein drops and reservoir solution are held in place by rings with micrometre dimensions that are patterned onto the bottom film.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Research Area
Group (Lab)
Robert Thorne Group

Glass transition in thaumatin crystals revealed through temperature-dependent radiation-sensitivity measurements

Cornell Affiliated Author(s)
Author
M. Warkentin
R.E. Thorne
Abstract

The temperature-dependence of radiation damage to thaumatin crystals between T = 300 and 100 K is reported. The amount of damage for a given dose decreases sharply as the temperature decreases from 300 to 220 K and then decreases more gradually on further cooling below the protein-solvent glass transition. Two regimes of temperature-activated behavior were observed. At temperatures above ∼200 K the activation energy of 18.0 kJ mol-1 indicates that radiation damage is dominated by diffusive motions in the protein and solvent.

Journal
Acta Crystallographica Section D: Biological Crystallography
Date Published
Research Area
Group (Lab)
Robert Thorne Group