Targeted Protein Degradation (TPD)

Discovery And Development

Expert-led PROTAC and molecular glue discovery and development services

How do integrated solutions unlock the advantages of TPD therapeutics?

PROTACs and molecular glues introduce distinct design and optimization challenges, including molecular complexity, cellular activity and developability considerations. At Concept Life Sciences, our multidisciplinary team use advanced Computer Aided Drug Design (CADD) and Direct-to-Biology (D2B) workflows to drive coordinated design–make–test cycles, confident decision-making and faster progress.

Unlocking the potential of targeted protein degradation

Targeted Protein Degradation (TPD) is redefining what is druggable. By harnessing the cell’s ubiquitin-proteasome system, modalities such as PROTACs (proteolysis targeting chimeras) and molecular glues enable selective removal of disease-causing proteins, including targets previously considered undruggable.

Unlike traditional small molecule inhibitors that transiently block protein activity, PROTACs and molecular glues drive target protein degradation, offering improved potency and durability of response, access to non-enzymatic and scaffolding proteins and expanded therapeutic space beyond conventional binding pockets.

From rational PROTAC design to molecular glue discovery strategies, we help you unlock the full potential of targeted degradation biology.

Capabilities to streamline your PROTAC or molecular glue program

TPD therapeutic discovery and development presents distinct challenges compared with small molecules, requiring unique capabilities and expertise.

Our approach is built around fully integrated workflows that combine medicinal chemistry, advanced computational chemistry (CADD), protein science, in vitro biology and DMPK expertise, and incorporates Direct-to-Biology (D2B) workflows to overcome PROTAC and molecular glue-specific challenges, streamline design–make–test cycles and reduce time to decision.

D2B in PROTAC development: cut the iteration cycle

Direct to biology (D2B) is an approach for rapidly exploring chemistry space, identifying hits and validating biological activity quickly. Compared to conventional methods of PROTAC synthesis, D2B provides cost and time savings enabled by a 10-fold reduction in reaction scale combined with optimized processes.

View our poster to see how we applied a D2B approach to enable rapid exploration of linker intermediates, providing a time- and cost-effective route to PROTAC optimization.

Advanced CADD: Streamline with focus on fewer, better molecules

Small changes to structure can have large, unpredictable effects on degradation. CADD helps navigate this complexity by enabling the team to focus on few, better designed PROTACs, accelerating early discovery.

By combining computational insight with experimental validation, we enable a more predictive and efficient approach to PROTAC discovery.

PROTAC design and optimization
  • Identification of ligands for the protein of interest and ligands for E3 ligase recruitment.
  • CADD modeling supports design and identification of preferred vectors for linker attachment.
  • Virtual screening followed by Medicinal Chemistry/CADD triage and in vitro biological profiling enables the selection of new ligands for the PROTAC protein of interest (POI).
  • Linker design and structure-activity optimization.
  • Library design and focused degrader synthesis.
  • Physicochemical and developability profiling.
  • In-house diverse library of amine-linked E3 ligase ligands available to react with POI ligand, enabling rapid synthesis of PROTAC libraries.
  • No requirement to purify PROTACs following focused library preparation.
  • Co-located in vitro biology and ADME enable rapid analysis of PROTACs prepared using D2B.
  • Reactions conducted in 96-well plates enable rapid automated QC analysis and heatmap generation to determine reaction conversion across the plate.
  • Jess Western blot and HiBiT assays available to determine protein degradation.
  • False negatives minimized due to the hook effect by screening at two different concentrations.
  • Environmentally friendly approach by reducing solvent consumption (e.g. DMF).
Molecular glue design and optimization

Bespoke screening strategies are used to identify glue-like degraders, supported by:

  • Computational chemistry (CADD), including in silico prediction of protein–protein and protein–ligand complexes and structure-based approaches.
  • Access to Cryo-EM and X-ray crystallography to resolve ternary complex structures.
  • Innovative discovery approaches exploring scaffolds beyond thalidomide derivatives and targeting alternative E3 ligases.
  • Hit validation and mechanism elucidation.
  • Ternary complex characterization.
  • Iterative optimization to enhance selectivity and degradation efficiency.
Biological evaluation and mechanistic profiling
  • Protein production to prepare POI, with support for establishing biology assays and structural biology.
  • Cellular degradation assays, including DC50 and Dmax determination.
  • Time-course degradation kinetics.
  • Biophysical, biochemical, and structural characterization.
  • Target engagement and ubiquitination studies.
  • Safety profiling, including selectivity, off-target assessment, and drug-drug interaction profiling.
Integrated ADME and developability support
  • Initial ADME assays including aqueous solubility, permeability, metabolic stability, LogD, plasma protein binding, and CYP inhibition.
  • PK and PK/PD strategy support.
  • Early risk mitigation for large, complex degrader molecules.

Why choose Concept Life Sciences for your PROTAC and molecular glue discovery and development project?

With specialist expertise and capabilities, we understand the unique challenges presented by TPD therapeutic discovery and development, and build sophisticated integrated workflows to directly address these.

Our multidisciplinary teams work in iterative design-make-test cycles to reduce timelines, de-risk decision-making and accelerate progression toward candidate nomination.

Targeted Protein Degradation FAQs

Q: What is targeted protein degradation (TPD) in drug discovery?

A: Targeted protein degradation (TPD) is a therapeutic approach that uses the cell’s ubiquitin–proteasome system to selectively remove disease-causing proteins. Modalities such as PROTACs and molecular glues enable degradation of targets that are difficult or impossible to inhibit with traditional small molecules.

Q: What makes PROTAC drug discovery different from small molecule drug discovery?

A: PROTAC drug discovery is more complex because it depends on ternary complex formation between the target protein, PROTAC, and an E3 ligase. Small structural changes can significantly impact degradation, making optimization less predictable than traditional small molecule approaches.

Q: Can Concept Life Sciences support end-to-end PROTAC and molecular glue discovery?

A: Yes. Concept Life Sciences provides integrated support from hit identification and design through optimisation, mechanistic profiling, and developability, helping accelerate programs toward candidate selection.

Q: What is Direct-to-Biology (D2B), and why does it matter?

A: D2B enables rapid synthesis and immediate biological testing of compounds, reducing reaction scale by up to 10× and delivering faster insight into functional degradation activity.

Get started today

Discover how Concept Life Sciences can help you rapidly progress your targeted protein degraded program today. Contact us today for a confidential discussion with our team of expert scientists.