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  Leveraging Ligand Affinity and Properties: Discovery of Novel Benzamide-Type Cereblon Binders for the Design of PROTACs

Steinebach, C., Bricelj, A., Murgai, A., Sosič, I., Bischof, L., Ng, Y., et al. (2023). Leveraging Ligand Affinity and Properties: Discovery of Novel Benzamide-Type Cereblon Binders for the Design of PROTACs. Current Medicinal Chemistry, 66(21), 14513-14543. doi:10.1021/acs.jmedchem.3c00851.

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Steinebach, C, Author
Bricelj, A, Author
Murgai, A, Author
Sosič, I, Author
Bischof, L1, 2, Author                 
Ng, YLD, Author
Heim, C1, 2, Author                 
Maiwald, S1, 2, Author                 
Proj, M, Author
Voget, R, Author
Feller, F, Author
Košmrlj, J, Author
Sapozhnikova, V, Author
Schmidt, A, Author
Zuleeg, MR, Author
Lemnitzer, P, Author
Mertins, P, Author
Hansen, FK, Author
Gütschow, M, Author
Krönke, J, Author
Hartmann, MD1, 2, Author                  more..
Affiliations:
1Department Protein Evolution, Max Planck Institute for Biology Tübingen, Max Planck Society, ou_3371683              
2Molecular Recognition and Catalysis Group, Department Protein Evolution, Max Planck Institute for Biology Tübingen, Max Planck Society, ou_3477391              

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 Abstract: Immunomodulatory imide drugs (IMiDs) such as thalidomide, pomalidomide, and lenalidomide are the most common cereblon (CRBN) recruiters in proteolysis-targeting chimera (PROTAC) design. However, these CRBN ligands induce the degradation of IMiD neosubstrates and are inherently unstable, degrading hydrolytically under moderate conditions. In this work, we simultaneously optimized physiochemical properties, stability, on-target affinity, and off-target neosubstrate modulation features to develop novel nonphthalimide CRBN binders. These efforts led to the discovery of conformationally locked benzamide-type derivatives that replicate the interactions of the natural CRBN degron, exhibit enhanced chemical stability, and display a favorable selectivity profile in terms of neosubstrate recruitment. The utility of the most potent ligands was demonstrated by their transformation into potent degraders of BRD4 and HDAC6 that outperform previously described reference PROTACs. Together with their significantly decreased neomorphic ligase activity on IKZF1/3 and SALL4, these ligands provide opportunities for the design of highly selective and potent chemically inert proximity-inducing compounds.

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 Dates: 2023-102023-11
 Publication Status: Issued
 Pages: -
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 Table of Contents: -
 Rev. Type: -
 Identifiers: DOI: 10.1021/acs.jmedchem.3c00851
PMID: 37902300
 Degree: -

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Title: Current Medicinal Chemistry
  Other : Curr. Med. Chem.
Source Genre: Journal
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Publ. Info: Schiphol, The Netherlands : Bentham Science Publishers
Pages: - Volume / Issue: 66 (21) Sequence Number: - Start / End Page: 14513 - 14543 Identifier: ISSN: 0929-8673
CoNE: https://pure.mpg.de/cone/journals/resource/954925568793