Drug discovery – Novel chemical modalities – Nucleic acid binding proteins
Our Focus
The Pomplun Lab, led by Associate Professor Sebastian Pomplun, focuses on developing innovative chemical modalities to address challenging drug targets, with a particular emphasis on oncology. Key research directions include the creation of advanced technologies for high-throughput screening of synthetic libraries containing millions of drug-like compounds. This platform facilitates the identification of novel drug candidates by enabling the screening of not only classical small molecules but also peptidomimetics and macrocycles—an approach well-suited for targeting complex protein-protein and protein-nucleic acid interactions.
In addition to high-throughput screening, the Pomplun Lab engages in rational drug design, developing peptidomimetics and mini- proteins that disrupt cancer-related protein-nucleic acid complexes. Current oncology-focused targets include MYC, Evi1, and Exo1, which are critical in tumour progression and malignancy. By combining innovative screening technologies with rational design, the lab aims to overcome traditional limitations in drug discovery, opening new avenues for cancer therapeutics.
About Sebastian Pomplun
Sebastian Pomplun
My Research
Sebastian Pomplun studied Chemistry and Pharmaceutical Technologies at the University Sapienza, in Rome. In his doctoral studies in organic and medicinal chemistry at the Max-Planck-Institute of Psychiatry in Munich (supervised by Prof. Felix Hausch) he developed asymmetric synthesis strategies for caged bicylic inhibitors of the psychiatric risk factor protein FKBP51. The resulting PhD thesis was awarded with Summa cum Laude in 2015. Sebastian then joined the Chemistry R&D department of Roche Diagnostics GmbH in Penzberg, Germany, as a postdoctoral research scientist. He developed novel bioconjugation reagents, cleavable linkers for peptides and functional building blocks for nanopore sequencing strategies. In 2019 Sebastian received a postdoctoral fellowship from the German Research Foundation (DFG) and joined the Pentelute Lab at the Massachusetts Institute of Technology in Cambridge, USA. At MIT he worked on rational and combinatorial strategies for the discovery of biohybrid molecules targeting disease related nucleic acids. In September 2021 Sebastian started as a tenure track assistant professor at the Leiden Academic Centre for Drug Research (LACDR) at Leiden University. His research is funded by LACDR, an ERC Starting Grant, NWO open competition funding and by the Oncode Accelerator program. Since 2024 Sebastian is a junior investigator in the Oncode Institute. https://pomplunlab.com/
Awards
2022: ERC Starting Grant (SynTra)
Key Publications
- 2025 | AlphaFold-Guided Discovery of an Overlapping MYC/Miz-1 Interface Enables Peptidomimetic Disruption of MYC/MAX | Brecht D. Ellenbroek et al. | ChemMedChem | View publication
- 2025 | Barcode-free hit discovery from massive libraries enabled by automated small molecule structure annotation | Edith van der Nol et al. | Nature Communications | View publication
- 2025 | Evaluating BindCraft for Generative Design of High-Affinity Peptides | Mike Filius et al. | ACS Chemical Biology | View publication
- 2025 | ReCHEMbinant stapling enhances intracellular delivery and bioactivity of engineered protein inhibitors | Jan Pascal Kahler et al. | Chem | View publication
- 2024 | Development of DuoMYC: a synthetic cell penetrant miniprotein that efficiently inhibits the oncogenic transcription factor MYC | Brecht D. Ellenbroek et al. | Angewandte Chemie International Edition | View publication
- 2023 | Advances in Ultrahigh Throughput Hit Discovery with Tandem Mass Spectrometry Encoded Libraries | J. Miguel Mata et al. | Journal of the American Chemical Society | View publication
- 2021 | Parallel automated flow synthesis of covalent protein complexes that inhibit MYC-driven transcription | Sebastian Pomplun et al. | ACS Central Science | View publication
- 2021 | De Novo Discovery of High Affinity Peptide Binders for the SARS-CoV-2 Spike Protein | Sebastian Pomplun et al. | ACS Central Science | View publication
- 2020 | Discovery of nucleic acid binding molecules from combinatorial biohybrid nucleobase peptide libraries | Sebastian Pomplun et al. | Journal of the American Chemical Society | View publication
- 2019 | Efficient Pictet Spengler Bioconjugation with N-Substituted Pyrrolyl Alanine Derivatives | Sebastian Pomplun et al. | Angewandte Chemie International Edition | View publication
Members
| Sebastian Pomplun Group leader | Athanasios Patsos Phd student | Brecht Ellenbroek PhD student |
| Edith van der Nol Phd student | Hugo Minnee Lab Technician | J. Miguel Mata PhD student |
| Jan Pascal Kahler Postdoc | Jingming Liu PhD student | Gianluca Turco |
| Patryk Krajczy PhD student | Monika Gnatzy Dr. | Mike Filius Dr. |