Het Protein Centre kan u voorzien van gezuiverde eiwitten die essentieel zijn voor vele experimenten, variërend van in-vitro-inhibitorscreening en enzymatische analyse tot manipulatie van levende cellen.

This thesis describes the use of bioorthogonal proteins in immunological settings. It provides an introduction towards the field of protein modification, which was used throughout the thesis for the expression of proteins containing unnatural amino acids.

Promotores: C.A.M.J.J. van den Hondel, V. Meyer, Co-promotor: A.F.J. Ram

Promotor: M. Ubbink, Co-promotor: G. Siegal

Promotor: Prof.dr. E.J.J. Groenen, Co-Promotor: M. Huber

For each living organism health is ensured by correct functioning of its cells. Cells therefore have elaborate methods for regulation of their proteins.

Promotor: Prof.dr. M. Ubbink, Co-promotor: G. Siegal

Promotor: W. Jiskoot, Co-promotor: A. Hawe

Promotor: H.S. Overkleeft, Co-promotor: M. van der Stelt

Promotor: Prof.dr. M. Ubbink

In the last decades, activity-based protein profiling (ABPP) has emerged as a powerful chemical tool that may aid the ever-challenging drug discovery process.

Glycosidases are important enzymes in the turnover of polysaccharides and glycoconjugates, and are involved in a range of human pathologies including genetic disorders such as Gaucher and Pompe disease, but also in various cancers.

This thesis describes the importance of being able to control the selectivity of potential drug candidates.

Bacteria often experience external challenges, such as changes in environmental conditions or attacks by bacteriophages.

The aim of the research presented in this thesis was to develop new methods forchallenging systems in liquid-state NMR using paramagnetic effects generated by thetwo-armed probe CLaNP-5.

Promotor: Prof.dr. M. Ubbink

Wiskunde en Natuurwetenschappen

The work described in this thesis focuses on the development of linear or cyclized peptide probes against protein N-methyltransferases to characterize their specific binding behavior, providing further binding details for inhibitory activity study.

Supervisor: P.J.J. Hooykaas

The thesis describes the use of electron paramagnetic resonance (EPR) spectroscopy, in continuous wave and pulse modes, to address the interaction of α-Synuclein (αS) with membranes and the aggregation of αS.

Promotores: H.S. Overkleeft, G.A. van der Marel, Co-promotor: B.I. Florea

Supervisor: P.J.J. Hooykaas Co-Supervisor: R. Offringa

In our research protein translocation from Agrobacterium into yeast and plant cells is studied to obtain fundamental insights in the translocation process

The RNA guided endonuclease based on the CRISPR/Cas system of Streptococcus pyogenus is a potent new tool for genome engineering in plants.

Promotor: W. Jiskoot, Co-promotor: H.A. Every

Promotor: Prof.dr. M. Ubbink

The main subject of this thesis is the design and synthesis of paramagnetic molecules for protein studies with NMR and EPR spectroscopy.

Promotor: Jaap Brouwer, Co-promotor: Remus Th. Dame

Promotor: A. Kros

The present thesis focuses on the pharmacological concept of drug-target interaction, which dates back to the beginning of modern pharmacology.

Protein–protein complexes are formed via transient states called encounter complexes that greatly influence the formation of the stereospecific complex.

Every organisms in the tree of life faces the same challenge: the length of its DNA exceeds the volume of the cell it needs to fit in. Several strategies have evolved to solve this problem, one of them being the expression of proteins that bind and organize the DNA.

This thesis describes the structural and biochemical characterization of the β-lactamase BlaC from Mycobacterium tuberculosis (Mtb), and the Alr and YlmE proteins from Streptomyces coelicolor A3(2).Mtb is the main cause of tuberculosis.

Promotor: M. Ubbink, Co-Promotor: R. T. Dame

In this thesis I describe the results of Pulsed Interleaved Excitation and Fluorescence (Cross) Correlation Spectroscopy (PIE-F(C)CS) combined with single-pair Förster Resonance Energy Transfer (spFRET) used to study dynamics in single nucleosomes, which depends on subtle differences in the length of…

Overkleeft

Acute cardiovascular clinical events such as myocardial infarction and cerebral stroke represent the major cause of death in Western societies. These pathologies are primarily resulting from atherosclerosis, a progressive condition characterized by the accumulation of lipids, immune cells, and fibrous…

Climate change is one of the largest challenges faced by humanity. To combat this research into alternatives to fossil fuels is ongoing. Dihydrogen is considered a good alternative fuel, since its burning only forms water.

Promotor: H.S. Overkleeft, Co-Promotor: B.I. Florea

Schneider

Promotor: A.P. IJzerman

Streptomyces present a valuable platform for natural product discovery. Lugdunomycin is a novel angucycline-derived polyketide from Streptomyces sp QL37, with unprecedented skeleton and antimicrobial activity.

Promotor: A.P. IJzerman

Promotor: A.P. IJzerman

Promotor: Prof.dr. J.P. Abrahams, Co-Promotor: N.S. Pannu

Over several decades, a variety of computational methods for drug discovery have been proposed and applied in practice. With the accumulation of data and the development of machine learning methods, computational drug design methods have gradually shifted to a new paradigm, i.e. deep learning methods…

Evolution acts via mutations in amino acid sequences. Substitution of essential amino acids leads to a nonfunctional protein. l.

Dr. Marcellus Ubbink is dit voorjaar bij de Faculteit Wiskunde en Natuurwetenschappen benoemd tot hoogleraar Protein Chemistry. Ubbink kreeg in 2008 een Vici-subsidie van NWO.

Producing green energy has become the main goal in our society in the search of reducing or eliminating the carbon emission from fossil fuels.

Promotor: Prof.dr. M. Ubbink