941 search results for “protein” in the Public website
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Regulation of the arabidopsis AGC kinase PINOID by PDK1 and the microtubule cytoskeleton
Plants, are sessile organisms, have developed strategies to adapt to changes in their environment, in part by altering their growth and development.
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In vitro investigation of the photoprotection mechanism of Light Harvesting Complex II
Solar energy is used by photosynthetic organisms to drive energy required cellular processes. Is absorbed by two groups of pigments, located in the LHCs.
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Chemical tools to study lipid signaling
Synthesis and application of chemical biology tools to study immunomodulatory signaling lipids.
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Substrate adaptability of β-lactamase
The research aims to explore the evolutionary adaptability of enzymes and the impact of temperature on protein evolution pathways, using M. tuberculosis β-lactamase BlaC as the object of study. Enzymes inherently embody a delicate balance between activity and stability, and the acquisition of new enzymatic…
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Development of kinase inhibitors and activity-based probes
Promotor: H.S. Overkleeft, J. Neefjes, Co-promotor: M. van der Stelt
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Visualization of Vitamin A Metabolism
Vitamin A or retinol is essential in embryonic development, the visual cycle and the immune system.
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Chromatin organisation & dynamics
The genomic DNA of every organism is organized and compacted in order to fit inside the cell. This is achieved by the joint action of numerous architectural proteins that aid in folding the genome. Genome folding is tightly interconnected with transcription, with genes in certain regions being silenced,…
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Structure and regulation in photosynthesis
Plants, algae and cyanobacteria have the amazing capacity to perform delicate photophysical and photochemical processes of light capture, excitation transfer, charge separation and catalysis in fluctuating living environments. As a consequence, photosynthetic proteins and membranes form dynamic architectures.…
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Interactions from lipid membrane deformations
Biological cells, the basic building blocks of all life forms, are surrounded by a lipid membrane. More than half of the membrane is occupied by membrane proteins, which can regulate the cell functionality through specific arrangements.
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How Electrostatic Interactions Drive Nucleosome Binding of RNF168 & PSIP1
The studies presented in the work show the potential of the integrative use of biophysical data in defining the structural basis of protein interactions.
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Inhibitors and probes targeting mannanases
This thesis describes the synthesis and biochemical evaluation of a variety of cyclophellitol based activity-based probes and inhibitors targeting various endo- and exo-acting retaining glycosidases. In the last two decades a variety of probes and inhibitors for (hemi)cellulose degrading enzymes have…
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Cyclophellitol analogues for profiling of exo- and endo-glycosidases
To this day, all cyclophellitol-based inhibitors and ABPs have been close analogues of their natural substrate counterparts. As a result, these probes showed high selectivity towards their target glycosidases.
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Multi-omics studies of the control of growth and antibiotic production of Streptomyces
Actinobacteria are Gram-positive bacteria that have a complex multicellular life cycle and are well known for their ability to produce a wide range of bioactive natural products (NPs).
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Whole-cell biosensor for label-free detection of GPCR-mediated drug responses in personal cell lines
Source: Biosens Bioelectron, Volume 74, pp. 233-42 (2015)
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In shape for photoregulation
How does the photoregulation mechanism work in detail?
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Microbial Chemotaxis
In order to gain insight into the structure and function of the molecular complexes involved in chemotaxis, we use electron cryotomography (ECT). This technique allows us to directly study microbes in their native state at resolutions capable of visualizing individual proteins.
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Proteochemometrics
Research question
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Single gold nanorods in live cells
Visualization of biomolecules in living cells by tagging with gold nanoparticles.
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Research
The current projects of the Molecular Physiology group focus on proteins of the endocannabinoid system, kinases and antibacterial targets. MSc- and BSc-students can contact Jessica van Krimpen-Kraaijenoord to apply for research internships.
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The road to insurmountability: Novel avenues to better target CC Chemokine receptors
This thesis explores different avenues to develop insurmountable antagonists for CC Chemokine Receptors, such as CCR1, CCR2 and CCR5.
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Inhibitor Selectivity: Profiling and Prediction
Less than 1 in 10 drug candidates that enter phase 1 clinical trials actually gets approved for human use.
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Chromatin organization & dynamics (Dr. Remus Dame)
Throughout all domains of life, from bacteria and archaea to eukaryotes, genomes adopt well-organized three-dimensional structures that can change in space and time to accommodate preferred transcriptional programs for environmental adaptation, the maintenance of cellular identity and differentiation…
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Unraveling cross-presentation pathways using a chemical biology approach
Is it possible for sugar patterns on cells to activate the immune system to combat cancer?
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Membrane Fusion Mediated Intracellular Delivery of Lipid Bilayer Coated Mesoporous Silica Nanoparticles
Alexander Kros and co-workers describe how mesoporous silica nanoparticles (MSNs) are delivered into cells via membrane fusion thereby omitting endocytosis pathways. Fusion is induced by a pair of complementary coiled-coil lipopeptides inserted into the membrane of cells and in the bilayer of lipid-coated…
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Hybrid vesicles
Synthetic cells, also known as artificial cells or protocells, have wide ranging applications from drug delivery vectors to cell models. In biotechnology they can function as micro- or nanoreactors with possible applications in biocatalysis and photocatalysis. Phospholipids are by far the most commonly…
- Leiden Academic Centre for Drug Research
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Noonan and LEOPARD syndrome in zebrafish: molecular mechanisms and cardiac development
Promotor: Prof.dr. J. den Hertog
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Mechanical and genetics basis of cellularization and serosal window closure in Tribolium castaneum
The applications of studying the early development of insects range from agriculture to material science.
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In silico characterization of a GPCR focused library
Supervisor: Gerard van Westen
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Cellular Forces: Adhering, Shaping, Sensing and Dividing
Promotor: Prof.dr. T. Schmidt
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The flux and flow of data: connecting large datasets with machine learning in a drug discovery envirionment
This thesis focuses on data found in the field of computational drug discovery. New insight can be obtained by applying machine learning in various ways and in a variety of domains. Two studies delved into the application of proteochemometrics (PCM), a machine learning technique that can be used to…
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Our approach
Our group operates at the cross-roads of different disciplines: molecular and cellular microbiology, biochemistry, structural biology and biophysics. The group harbors expertise in a multitude of molecular and cellular approaches including:
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Mechano-transduction mediated by integrin-based adhesion complexes: integration of cytoskeleton and adhesion dynamics
In this thesis, we focus on novel proteins/mechanisms that regulate integrin-adhesion mediated mechano-transduction.
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Novel receptor concepts
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Biological and Soft Matter Physics
Research groups in the Biological & Soft Matter Programme unravel mechanisms in biological processes and develop novel bio-inspired soft materials.
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Priyanka Chopra
Science
p.chopra@biology.leidenuniv.nl | +31 71 527 1886
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Adriaan IJzerman
Science
ijzerman@lacdr.leidenuniv.nl | +31 71 527 2727
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Elmer Maurits
Science
e.maurits@lic.leidenuniv.nl | +31 71 527 2727
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Joachim van Guyse
Science
j.f.r.van.guyse@lacdr.leidenuniv.nl | +31 71 527 2727
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Hermen Overkleeft
Science
h.s.overkleeft@chem.leidenuniv.nl | +31 71 527 5037
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Unveiling the invisible conformational landscape of cytochrome P450
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Cheminformatics: Analyzing small-molecule activity data
While bioinformatics methods deal with the analysis of sequence information (be it proteins or DNA), the field of cheminformatics is concerned with the analysis of small-molecule datasets.
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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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Bioorthogonal Antigens as Tool for Investigation of Antigen Processing and Presentation
In order to be able to develop effective medicine and treatments to prevent or cure autoimmune diseases or cancer we need to understand the mechanisms how they arise and what drives their course.Unravelling the fundamental molecular mechanisms influencing the onset and course of diseases such as allergies,…
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Student projects
Are you looking for a research project? We have projects available for motivated 6–9-month internship students with particular interest in organic/polymer synthesis, formulation development, gene delivery, protein delivery, and the preliminairy in vitro screening of drug delivery platforms. Students…
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Chemical Probe Facility
The Chemical Probe Facility is part of the Leiden Early Drug Discovery & Development (LED3) center. Activity-based protein profiling (ABPP) is one of the pillars of chemical biology. ABPP determines the activity of entire protein families in living cells and tissues under physiological conditions, such…
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Determining the structure of a chemotaxis kinase complex with receptor mimetics and cryo-EM
Can we determine the 3D structure of a chemotaxis core complex using single-particle reconstructions via cryo-EM?
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The Palaeoproteomic Identification of Pleistocene Hominin Skeletal Remains:
Towards a Biological Understanding of the Middle to Upper Palaeolithic Transition
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Functions of P38 and ERK kinases in zebrafish early development
Promotor: Prof.dr. H.P. Spaink Co-promotor: Dr. B.E. Snaar
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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.