Bubble Vision

Turning a liability into an asset, cryo-electron microscopists exploit an artifact to probe protein structure.

By | May 1, 2012

Cryo-electron microscopy (cryo-EM) is a powerful technique used to provide high-resolution images of biological specimens. But radiation from the electron beam also degrades the sample and occasionally causes the proteins in the frozen sample to form bubbles of hydrogen gas.

Normally “we go out of our way to avoid this kind of bubbling,” says James Conway, an electron microscopist at the University of Pittsburgh. But when colleagues of Alasdair Steven at the National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIAMS) came to him with a cryo-EM–damaged picture of a virus, he recognized the artifact right away as bubbling and wondered if it might be useful. The virus, a bacteriophage, was known to have a cylindrical “inner body” of protein within its shell, but the structure was hard to make out using conventional cryo-EM because the density of the protein is the same as that of the DNA surrounding it. The proteins of the inner body, however, appeared particularly sensitive to radiation damage.

So Steven and his colleagues upped the dosing to generate more bubbles and used computational methods to align the resulting images, ending up with “a marvelous representation of the structure,” he says, “turning the liability of radiation damage into an asset.” Generating bubbles, however, is the easy part. Aligning the images may be more challenging, says Conway, who sometimes collaborates with Steven. (Science, 335:182, 2012.)


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STATS TALK
COMPARING
METHODS:
SAMPLE BEST USES ELECTRON BEAM DOSAGE SOFTWARE
Standard Cryo-EM Minimize damage Fine structural detail 10 electrons per square angstrom Averages data
to obtain 3-D image
Bubbling Cryo-EM Increase damage Localization of internal protein structures 60–70 electrons per square angstrom Requires new software to align protein structure

 

 

 

 

 

 

 

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