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Protein Degradation Toolkit

As specialists in the design and synthesis of small molecules at ComInnex we have also involved ourselves into the increasingly important area of protein degradation and proteolysis targeted chimeras (PROTAC technology) in particular. Our approach is a toolkit approach enabling researchers to access novel structures for their chimeras, and in particular in the provision of E3 Ligase ligands and linkers. Merck Millipore has chosen ComInnex as a technology partner in terms of protein degradation products!

Fast Compound Design and Validation Platform (FCDVP)

Underlying our work is a software supported workflow and method for the rapid design and also validation of novel structures. ComInnex developed the Fast Compound Design and Validation Platform (FCDVP) as part of an oncology based research project and has validated it in a number of in-vivo studies. The platform can rapidly identify, via text-mining and ontological searching relevant compounds based on existing known published pharmacological data. From this FCDVP, combining machine learning, computer aided compound design and the intuition and experience of our chemists, generates potential compound libraries. These designs are further validated via in silico models and then checked for novelty.

All the compounds in our protein degrader toolkits have been developed by this method. Currently we have the following high purity PROTAC related compounds are available for purchase:

  • E3 ligase ligands for Cereblon
  • E3 ligase ligands for IAPidentified a further 2,500 compounds that could be developed further as ligands.
  • Semi rigid linkersover 1500 linkers and have 200 immediately available.

In the field of Linkers we set up a four partner open collaboration with Merck Millipore, GSK, UCB and C4 Therapeutics.

Custom Compound Sets

If the toolkit does not have what you are looking for then our custom chemistry group can:

  • Design and synthesize novel ligands for your E3 ligases. We can apply our experience to the E3 ligase of your choice and develop bespoke compound sets for you.
  • Custom synthesize full or partial chimeras.
  • Design and enumerate both partial and full chimera libraries being combinations of linkers and ligands.

Empower your drug discovery with us as your custom PROTAC service provider.

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What Our Clients Say

“To offer novel chemistry in this space, we have partnered with ComInnex to develop IAP degrader building blocks containing three novel, in silico-derived IAP lead compounds. Each is conjugated at the N- or C-terminus with both long and short aliphatic and PEG-based linkers. Together, these reagents accelerate synthesis of IAP-mediated degraders at early stages of TPD research and assessment.”

Special thanks to ComInnex for jointly preparing this technology spotlight!

“At UPPTHERA we have developed a platform for the identification of new E3 Ligases and our collaboration with ComInnex will allow expansion of novel E3 ligase ligands, which is a key bottleneck in targeted protein degradation drug discovery.”

SiWoo Choi

Founder and CEO , UPPTHERA

Open Collaboration

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