Targeted Protein Degradation
Groups Bachmair Becker Clausen Dagdas Haselbach Karagöz Köhler Martens Piazza Ramundo Urbán Versteeg Winter Previously a member: Beli Previously a member: Loizou

Group Becker

Tailor-made ubiquitin chains for targeting the UPS or autophagy

Group Leader

Christian Becker

Christian F. W. Becker obtained his PhD in Chemistry in 2001. After becoming a group leader at the Max-Planck Institute of Molecular Physiology in 2004 and associated professor at the TU Munich in 2007, in 2011 he accepted a call to the University of Vienna as Full Professor and Head of the Institute of Biological Chemistry.

Projects within consortium

Access to homogeneous, ubiquitinated proteins provides a unique tool in deciphering the complex ubiquitin-proteasome system (UPS) and the autophagy-lysosomal pathway (ALP), as the exact molecular composition of ubiquitin-tags is critical for recognition by parts of the UPS and ALP. To provide such tools, we will generate a set of modified Ub building blocks via protein semisynthesis by combining solid phase peptide synthesis (SPPS) and expression of Ub-intein fusion constructs in E. coli.

The complexity of targeting substrates to the ubiquitin-proteasome system (UPS) and the autophagy-lysosomal pathway (ALP) is based on several aspects, such as the 8 different linkage types possible in ubiquitin (Ub) chains, the chain length, the modification site(s) in the target proteins and, only recently discovered, PTMs of Ub. Several approaches to assemble homogeneous, mono- and polyubiquitinated peptides and proteins that cannot easily be isolated from natural sources have been developed over the past three decades. Among them, enzymatic approaches that have advanced to a stage where different linkages and modification sites can be addressed if E2 and E3 enzymes are available but control over chain length and overall homogeneity is still lagging behind.

 

Combining intein-based generation of activated Ub chains with solid phase peptide synthesis (SPPS) to obtain Ubs with a potentially large set of modifications has arguably been the most successful strategy to generate fully defined Ub chains and Ub-modified proteins. As defined Ub chains can now be site-selectively linked to target proteins, degradation signals can be deciphered at much higher molecular resolution as demonstrated for several target proteins. In combination with defined Ub chains and binding assays for key components of the UPS and ALP, we will investigate the role of site-specific attachment of differently linked chains of up to 4 Ubs within this SFB.

Introducing posttranslational modifications via protein (semi-)synthesis. The blue and red linkage indicates the site of a chemoselective ligation to combine two peptide segments that can be of synthetic or biological origin.

Assembly of homo- or heterotypic ubiquitin chains of different but fully controlled length using chemoselective ligation reactions.

Project members

  • Postdoc

    Moritz Urschbach

    SFB Member

  • Former SFB Postdoc

    Susanne Huhmann

    (until 2022)

  • Postdoc

    Somnath Mukherjee

    Associated

  • Technical Assistant

    Gerhard Niederacher

    Associated

  • PhD Student

    Dominik Vogl

    Associated

Targeted Protein Degradation related publications by Group Becker

  • 2023 Light-Cleavable Auxiliary for Diselenide–Selenoester Ligations of Peptides and Proteins Chemistry Europe Schrems M, Kravchuk AV, Niederacher G, Exler F, Bello C, Becker CFW. Go to publication →
  • 2022 Site-selective photocatalytic functionalization of peptides and proteins at selenocysteine Nature Communications Dowman LJ, Kulkarni SS, Alegre-Requena JV, Giltrap AM, Norman AR, Sharma A, Gallegos LC, Mackay AS, Welegedara AP, Watson EE, van Raad D, Niederacher G, Huhmann S, Proschogo N, Patel K, Larance M, Becker CFW, Mackay JP, Lakhwani G, Huber T, Paton RS, Payne RJ Go to publication →
  • 2022 Expressed Protein Selenoester Ligation Angewandte Chemie International Ed. Kulkarni SS, Watson EE, Maxwell JWC, Niederacher G, Johansen-Leete J, Huhmann S, Mukherjee S, Norman AR, Kriegesmann J, Becker CFW, Payne RJ Go to publication →
  • 2020 Highly Precise Protein Semisynthesis through Ligation–Desulfurization Chemistry in Combination with Phenacyl Protection of Native Cysteines Methods in Molecular Biology Mukherjee S, Matveenko M, Becker CFW Go to publication →
  • 2019 Labeling and Natural Post-Translational Modification of Peptides and Proteins via Chemoselective Pd-Catalyzed Prenylation of Cysteine Journal of American Chemical Society Schlatzer T, Kriegesmann J, Schröder H, Trobe M, Lembacher-Fadum C, Santner S, Kravchuk AV, Becker CFW, Breinbauer R Go to publication →
  • 2019 Single Posttranslational Modifications in the Central Repeat Domains of Tau4 Impact its Aggregation and Tubulin Binding Angewandte Chemie International Ed. Ellmer D, Brehs M, Haj-Yahya M, Lashuel HA, Becker CFW Go to publication →
  • 2018 Native chemical ligation in protein synthesis and semi-synthesis Chem. Soc. Rev. Conibear AC, Watson EE, Payne RJ, Becker CFW Go to publication →
  • 2017 Semisynthetic prion protein (PrP) variants carrying glycan mimics at position 181 and 197 do not form fibrils Chem. Sci. Araman C, Thompson RE, Wang S, Hackl S, Payne RJ, Becker CFW Go to publication →