1,470 search results for “chemical wapens” in the Public website
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Photocleavable activity-based acid glucosylceramidase probes
Lysosomal acid glucosylceramidase (GBA1) is a lysosomal enzyme that degrades glucolipids with its main substrate being glucosylceramide (GlcCer). Defects in the GBA1 gene lead to glycosphingolipidosis Gaucher disease (GD), in which the hydrolysis of GlcCer is impaired and therefore, it accumulates in…
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Development of highly accurate density functionals for H2 dissociation on transition metals
Metals surfaces form a group of effective catalysts for the reaction of small molecules such as hydrogen (H2).
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Discovery of selective diacylglycerol lipase β inhibitors
Diacylglycerol lipases (DAGLα and DAGLβ) are responsible for the biosynthesis of the endocannabinoid 2-arachidonoylglycerol (2-AG) in the brain and peripheral tissues. Selective DAGLβ inhibitors have been proposed as a potential treatment for inflammatory diseases with reduced potential for central…
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Research
Research at the BPOC/SSNMR group is comprised of the following research themes:
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Coiled-coil mediated liposomal fusion: Asymmetric behaving peptide fusogens
Membrane fusion is a vital process in living organisms and is mediated by zipper-like proteins.
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Blowup in the complex Ginzburg-Landau equation
Promotor: A. Doelman, Co-promotor: V. Rottschäfer
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The relation between dynamics and activity of phospholipase A/acyltransferase homologs
Phospholipase A/acyltransferase 3 (PLAAT3) and PLAAT4 are enzymes involved in the synthesis of bioactive lipids. Despite sequential and structural similarities, the two enzymes differ in activity and specificity.
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Quantum computation with Majorana zero modes in superconducting circuits
Promotor: C.W.J. Beenakker, Co-Promotor: A.R. Akhmerov
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The Infrared Spectrum of Massive Protostars
We have conducted a full spectral line survey of the 3-13 micron region of two massive protostars, AFGL 2591 and AFGL 2136, for the first time at high spectral resolution.
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Molecular diagnostics of dense regions in nearby galaxies
This research delves into a region of space known as the interstellar medium (ISM), which is essentially the area between the stars filled with gas and dust.
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Surface-structure dependence of water-related adsorbates on platinum
Promotor: M.T.M. Koper, Co-promotor: J.B.F. Juurlink
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Identification and characterization of viral Xrn1-resistant RNAs
Several single-stranded RNA viruses make use of Xrn1-resistant RNAs in their 3’ untranslated regions of their genome RNAs in order to increase their pathogenicity.
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Luminescence and applications of lanthanoid coordination polymers
Promotor: E. Bouwman, Co-Promotor: S. Bonnet
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Biophysical characterization of membrane protein-small molecule interactions
Promotor: M. Ubbink, Co-promotor: G. Siegal
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Discovery of novel inhibitors to investigate diacylglycerol lipases and α/β hydrolase domain 16A
Promotor: H.S. Overkleeft, Co-promotor: M. van der Stelt
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Medicinal Chemistry
The mission in this division, headed by Laura Heitman, is to design and synthesize novel and better ligands for drug targets. Drug discovery is a lengthy but inspiring adventure. It is often an interplay between academic institutes and pharmaceutical industry, in which scientists at university develop…
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Exploring the metabolism and toxicity of amino sugars and 2-deoxyglucose in Streptomyces
Streptomyces are prolific producers of enzymes and secondary metabolites, including more than 50% of all clinical antibiotics. This makes them highly attractive for medical, biotechnological, and industrial purposes.
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The puzzle of protoplanetary disk masses
My work focuses on a class of astronomical objects called protoplanetary disks.
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Glycosyl Cations in Glycosylation Reactions
This thesis describes the use of a combined approach of computational and experimental techniques to gain novel insights to understand the glycosylation reaction and its reactive intermediates.
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Exploring structure dependencies of gas-surface interactions with curved single crystals
Curved single crystals provide variable, but well-defined surface structures.
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Mesoporous silica nanoparticle-based protein delivery systems for biomedical applications
Promotor: A. Kros
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Antibiotic Discovery: From mechanistic studies to target ID
The investigations described in this thesis lay out strategies aimed at advancing antibiotic research and development. The examples presented revolve around two main approaches: understanding drug-target interactions and target identification.
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The dynamic organization of prokaryotic genomes: DNA bridging and wrapping proteins across the tree of life
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.
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Nuclear Quantum Effects in Solid Water
Ice, the solid state of water, plays an important role on our planet as well as the entire universe.Despite the fact that an individual water molecule has a very simple structure, its chemical bonding in the solid phase can be surprisingly complex.
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Key publications
Key publications of the Computational Drug Discovery group
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China’s industrial carbon emissions: Historical drivers at the regional and sectoral levels and projections in light of policy
This thesis studied in depth the energy use and CO2 emissions of the industrial sector in China.
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Lava worlds: characterising atmospheres of impossible nature
Over the last three decades, the discovery of exoplanets has revealed the boundless variety of worlds beyond our own Solar System. Majority of planetary systems contain short-period planets that are larger than Earth but smaller than Neptune.
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Impaired barrier of inflammatory skin diseases
Focus in skin research
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Novel detectors and algorithms for electron nano-crystallography
Promotor: Prof.dr. J.P. Abrahams, Prof.dr. M. van Heel
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Protostellar jets and planet-forming disks: Witnessing the formation of Solar System analogues with interferometry
The focus of this thesis is how stars like our Sun and planets like Jupiter, Saturn, and Earth are formed.
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Development of automatic image analysis methods for high-throughput and high-content screening
Promotor: B. van de Water, Co-Promotores: J.H.N. Meerman, F.J. Verbeek
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Plasmonic enhancement of single-molecule fluorescence under one- and two-photon excitation
This thesis aims to improve the detection from ultra-weak single emitter by enhancing their emission properties with plasmonic nanostructures. We exploit the wet-chemically synthesized single crystalline gold nanorods (GNRs) as our basic frameworks in the whole studies, simply because of their unique…
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Cryo Electron Tomography Studies On Bacterial Chemosensory Arrays
Bacterial chemosensory arrays are protein assemblies that are the key structural and functional component for motile bacteria to sense their internal or environmental chemical signals.
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Gold nanoparticle-peptide conjugates for biomedical applications
Despite the fact that gold nanoparticles (GNPs) are one of the most studied nanoparticles, there is still a necessity for new approaches allowing for effective protective coating to enable wider use of GNPs in biomedical applications.
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Design, synthesis and application of paramagnetic probes for protein structure studies
The main subject of this thesis is the design and synthesis of paramagnetic molecules for protein studies with NMR and EPR spectroscopy.
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Fluorescence Polarization Activity-Based Protein Profiling on Retaining Glycosidases
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.
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Molecular inheritance from cloud to disk: a story of complex organics and accretion shocks
Stars like the sun are born in large molecular clouds existing from gas and dust. During the formation process, the chemical composition of the material can be altered drastically by the changing physical conditions.
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Understanding protein complex formation: The role of charge distribution in the encounter complex
Protein–protein complexes are formed via transient states called encounter complexes that greatly influence the formation of the stereospecific complex.
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Exploring strange new worlds with high-dispersion spectroscopy
Until the 1990s, the only known planets were those in our Solar System. Three decades later, several thousand exoplanets have been discovered orbiting stars other than the Sun, and substantial efforts have been made to explore these strange new worlds through spectroscopic analyses of their atmosphe…
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Phenotypic engineering of photosynthesis related traits in Arabidopsis thaliana using genome interrogation
Promotor: P.J.J. Hooykaas, Co-Promotor: E.J. van der Zaal
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A new method to reconstruct the structure from crystal images
Promotor: J.P. Abrahams, Co-promotor: T. Grüne
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Evolutionary adaptability of β-lactamase: a study of inhibitor susceptibility in various model systems
β-Lactamases are enzymes that can break down β-lactam substrates, such as antibiotics, preventing the use of these antibiotics for the treatment of various infectious diseases. However, some compounds, β-lactamase inhibitors, can block these enzymes allowing for possible treatments using a combination…
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Microstructural and Metabolic Alterations in the Zebrafish Brain Induced by Toll-Like Receptor 2 Deficiency
Advanced UHF MRI techniques provide powerful tools for studying the zebrafish brain, an emerging model in neurological research. In this work, various MRI and localized MRS methods are optimized and employed for UHF strength for studying the zebrafish brain.
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Perovskite-based Photoelectrochemical Investigations for Artificial Photosynthesis
Inspired by natural photosynthesis, perovskite-based photoelectrochemical (PEC) systems are being developed for artificial photosynthesis, aiming to enhance solar-to-hydrogen conversion for green energy.
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A large-scale crop protection bioassay data set
ChEMBL is a large-scale drug discovery database containing bioactivity information primarily extracted from scientific literature.
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Omics data integration with genome-scale modelling of dopaminergic neuronal metabolism
Parkinson's disease is the second most common neurodegenerative disease in the world. One of its symptoms is the loss of dopaminergic neurons in the substantia nigra pars compacta.
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Linking simple molecules to grain evolution across planet-forming disks
Planets are formed in disks of gas and dust around young stars.
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Unconventional fabrication of 2D nanostructures and graphene edges
In this work, we illustrate unconventional approaches towards the fabrication of edge functionalized graphene nanostructures and bidimensional architectures in polymeric and metallic supports, with an outlook towards molecular sensing devices.
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Squaramide-based supramolecular polymers: from self-assembly to in vivo application
The aim of this thesis is to develop and study a robust and adaptable scaffold for supramolecular polymer self-assembly in water.
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Identification of productive and futile encounters in an electron transfer protein complex
PNAS publication on protein encounter complexes