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Medicinal Chemistry

The research mission of Medicinal Chemistry is to obtain detailed molecular understanding of the binding and the mechanism of action of biologically active molecules.

Medicinal Chemistry uses an integrated research approach which combines design, synthesis, pharmacological and biochemical characterization of biologically active molecules. Emerging scientific concepts such as chemogenomics, molecular signaling networks, ligand-biased signalling and the thermodynamic and kinetic aspects of ligand-protein binding are currently being investigated. Advances in these fields will lead to more efficient and rational drug discovery. We focus on two research lines, G protein-coupled receptors (GPCRs) and Fragment-Based Drug Design (FBDD). The interface of these research lines - structure-based FBDD in the field of GPCRs - is a major scientific challenge.

Prof. Dr. Martine Smit, full Professor Target and Systems Biochemistry        
Prof. Dr. Iwan de Esch, full Professor Drug Design & Synthesis
Prof. Dr. Rob Leurs, full Professor      

Medicinal Chemistry consists of two research lines:

G-protein-coupled receptors (GPCRS)
GPCRs are one the most successful drug targets to date and remain an important focus point in modern drug discovery.

The group undertakes the design and synthesis of new ligands for several GPCRs, like the histamine receptors H1, H3 and H4 as well as chemokine receptors CXCR3, CXCR4 and CXCR7. We have obtained detailed understanding of the action of selected ligands by combining modern molecular pharmacological concepts (e.g. allosteric modulation, dimerization, inverse agonism, ligand-biased signaling and signalling networks), receptor mutagenesis and computational modeling.

We have a specific emphasis on virally encoded GPCRs (vGPCRs). The division is leading in the molecular characterization of the human cytomegalovirus (HCMV)-encoded vGPCRs and their role in redirecting cellular signaling networks. Currently, we have directed this research focus to the understanding of the systems pharmacology of these vGPCRs in relation to HCMV-associated diseases like cancer.

Besides small ligands targeting GPCRs, nanobodies (llama-derived antibodies) have been generated targeting above-mentioned GPCRs. These GPCR-targeting nanobodies serve as attractive research tools to modulate and monitor (viral) GPCR function.

Fragment-based drug design
Moreover, Medicinal Chemistry is focusing on structure-based drug design, and in particular on Fragment-Based Drug Design (FBDD). Fragment-based approaches are ideal for academic and small biotech drug discovery efforts, as these technologies are design-intensive rather than resource-intensive. We have established a fragment library containing 1500 low molecular weight compounds. Currently, this library is effectively used as a starting point to develop ligands against a variety of targets: GPCRs, kinases, ligand-gated ion channels, protein-protein interactions, etc.

Next to pharmacological screening, alternative fragment screening technologies are being explored such as in silico docking, SPR screening, NMR and X-ray analysis. The usage of these screening technologies is performed in collaboration with diverse research institutes and pharmaceutical companies. Targets include acetylcholine binding protein (AChBP), a structural homolog of the ligand-binding domain of cys-loop receptors (e.g. nicotinic acetylcholine-, serotonin 5HT3- and GABA receptors), tyrosine kinases, protein-protein interactions, phosphodiesterases and GPCRs.

In addition, phosphodiesterases (PDEs) relevant in combating neglected diseases (e.g African sleeping disease) and antimicrobials are important targets which are currently under investigation using multidsiciplinairy drug discovery approaches.

Our team

Do you want to know more?

Feel free to contact us.

Prof. Dr. Martine Smit -

Prof. Dr. Iwan de Esch -

Vrije Universiteit Amsterdam
Department of Chemistry and Pharmaceutical Sciences
De Boelelaan 1108
1081 HZ Amsterdam