Post-Translational Modifications (PTMs)

What causes post-translational modifications to occur?

Post-translational modifications (PTMs) occur when proteins are synthesized and many proteins are modified by the covalent addition of chemical groups or compounds to amino acid side chains.

The importance of post-translational modifications

Protein post-translational modifications significantly enhance the functional diversity of the proteome through the covalent addition of functional groups or proteins, proteolytic cleavage of regulatory subunits, or degradation of entire proteins. The resulting modifications can either regulate or modify the protein’s activity, localization, stability, or interaction with other proteins.

Types of post-translational modifications

There are a wide range of modifications, such as phosphorylation, glycosylation, lipidation, and ubiquitination. These modifications play a crucial role in several cellular processes, and their proper functioning is necessary for the healthy growth and development of an organism. In conclusion, a comprehensive understanding of these post-translational modifications can help researchers develop treatments for several diseases associated with protein misfolding.

Protein migration

Some post-translational modifications, such as ubiquitination, change the migration of the protein on a gel, making it possible to detect the modified protein on a Western blot by the appearance of a new, higher molecular weight band or bands. If the difference in migration is large enough, the modified and unmodified versions of the protein may be analyzed at once using a chemiluminescent Western blot detected with an antibody that recognizes both protein versions.

Other modifications, such as phosphorylation, have little or no effect on protein migration. To analyze phosphorylation by Western blot, two antibodies, one specific for the unmodified version and one for the modified version of the protein must be used. Because the two bands cannot be resolved based on migration, if they are detected using chemiluminescence, two experiments must be done.

Either duplicate blots must be run, each probed with a different antibody, or a single blot can be first probed with an antibody directed to the phosphorylated version of the protein, followed by stripping and re-probing the blot with an antibody specific for the unphosphorylated version. Duplicate blots require using twice as much sample and introduce the potential for inter-experimental variation due to differences in protein loading or transfer efficiency.

Fluorescent Western blot
Fluorescent Western Blot of STAT1 and phospho-STAT1. The blot was probed with anti-phospho-STAT1 and anti-STAT1 followed by fluorescent secondary antibodies, and then imaged on an Azure Imaging system. Top right is the green channel, using IR-800; top left is the image of the red channel, using IR-700. Bottom image is both channels merged.

However, stripping and re-probing a blot can affect data quality, potentially stripping target protein and reducing the ability to obtain quantitative data about the two protein versions. Additionally, stripping and re-probing is time consuming.

Multiplex fluorescent detection is the best option for analyzing two or more proteins of similar molecular weight by Western blot. Antibodies that recognize different epitopes, such as the phosphorylated and unphosphorylated versions of a protein, can be conjugated to fluorophores with non-overlapping excitation and emission spectra and imaged simultaneously.

The best way to detect post-translational modifications

Multiplex fluorescent detection allows the most powerful approach to the study of post-translational modifications by Western blot. Detecting both proteins on the same blot improves data quality, removing potential inter-experiment variation. Multiplex detection saves sample and streamlines workflow compared to running duplicate blots.

To enable quantitative analysis of two targets on one multiplex blot, a loading control or total-protein stain detected in a third channel can be included in the experimental design. Three-color Western blotting is possible with the Azure 400 or 600 system, as well as four-color Western blotting with the new Sapphire FL Biomolecular Imager. The Sapphire FL scans with up to three optical modules at once to create a four-channel fluorescent image to allow you to detect up to four proteins on the same Western blot.

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Reagents for fluorescent multiplex Western blots

Hand in blue glove putting liquid into a tube
For multiplex detection experiments, it can be convenient to use antibodies already validated by your lab, use AzureSpectra fluorescent antibody labeling kit to prepare primary or secondary antibodies conjugated with the fluorophore of your choice.

Azure provides fluorescent secondary antibodies, fluorescent Western blot buffersopaque incubation trays, and other products that can help you on your way to getting the best multiplexing data.

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