Microcrystal electron diffraction sample preparation workflow

Microcrystal electron diffraction (MicroED) enables fast, high-resolution, structural determination of small molecules and proteins. Atomic details can be extracted from individual nanocrystals (<200 nm in depth), even in a heterogeneous mixture. Data is acquired by cryo-TEM, using electrons as the incident beam. Samples must be crystallized for MicroED in order to provide the repeating lattice of molecules required to produce a lattice diffraction pattern. Sample preparation for MicroED varies between small molecule and protein samples, but similar methods to those used for X-ray crystallography can by used in both cases.


Protein sample preparation for MicroED

Protein expression

Using the right protein expression system for cryo-EM is critical to success. Consider protein solubility, functionality, purification speed, and yield when choosing an expression system. We offer a wide selection of protein expression systems to suit your research needs. Check out our protein expression system tool to find the right products for your research work. 

Mammalian Protein Expression

Cell Free Protein Expression

Membrane Protein Expression

Protein purification and optimization

It is critical to purify the protein in order to obtain a solution containing the isolated target proteins. The protein sample must be highly purified to crystalize. From a variety of reliable affinity chromatography reagents enabling protein and antibody purification, to an assortment of proteases for efficient tag removal, we have your needs covered. Check our protein sample preparation product options.

Protein extraction and isolation

Protein purification

Protein clean-up

Detergents for protein solubilization

Sample vitrification

Microcrystals can be grown using standard methods, including vapour diffusion by hanging or sitting drop, under oil or batch crystallization. Conditions may have to be adapted, for example utilizing seeding, increased precipitant or increased protein concentration to encourage more nucleation, rather then the growth of a small number of large crystals, as is more commonly preferred. Once a shower of microcrystals has been produced, they can be deposited on EM grids by pipette, as with other protein samples. For vitrification, grids are blotted and plunged into liquid ethane using a Thermo Scientific Vitrobot System.

Vitrobot System

The Thermo Scientific Vitrobot Mark IV System automates the vitrification process to provide fast, easy, reproducible sample preparation—the first step in obtaining high-quality images and repeatable experimental results.

Cryo-FIB milling

If the crystals are too thick to be examined by cryo-transmission electron microscopy (cryo-TEM), the strong scattering of the electrons make it impossible to efficiently penetrate the crystals with the electron beam. Cryo-FIB milling can be used for thinning the microcrystals to thicknesses that are suitable for MicroED investigation.

Aquilos 2 Cryo-FIB

Hydra Bio Plasma-FIB

Arctis Cryo-Plasma-FIB


Small molecule preparation for MicroED

Small molecule crystals are usually dry and can often be prepared at room temperature. Mechanical grinding can easily be used to reduce the size of large crystals, or crystallization conditions can be optimized to produce a shower of microcrystals via evaporation or other techniques. MicroED necessitates thin crystals (<200 nm) but samples can be cut or milled from larger crystals using a focused ion beam (FIB), if necessary. It's important to note that crystals thicker than 200 nm have increased secondary scattering, which convolutes the data.


For Research Use Only. Not for use in diagnostic procedures.