The Bijvoet Center for Biomolecular Research at Utrecht University studies the relation between the structure and function of biomolecules.
The Bijvoet Center has solid state 950, 800, 700, 500 and 400 MHz NMR equipment for the characterization of biomolecules, their structure determination and dynamical and functional studies. All of the NMR instruments are state-of-the-art digital Bruker NMR spectrometers. In addition to the standard pulse sequences for spectroscopic, structural, dynamical, and functional characterization, tailored pulse sequences for structural determination of high molecular weight proteins and other special applications such as in-cell NMR experiments are also developed and available. Dynamic Nuclear Polarization (DNP) capabilities on the 800 and 400 MHz instruments provide a significant boost in sensitivity.
HADDOCK (High Ambiguity Driven protein-protein DOCKing) is an information-driven flexible docking approach for the modeling of biomolecular complexes. HADDOCK distinguishes itself from ab-initio docking methods in the fact that it encodes information from identified or predicted protein interfaces in ambiguous interaction restraints (AIRs) to drive the docking process. HADDOCK can deal with a large class of modeling problems including protein-protein, protein-nucleic acids and protein-ligand complexes. More information can be found on the HADDOCK web portal.
Native ion mobility mass spectrometry (IMMS), is a rather new tool in structural biology. Complementary to the separation of the ions based on mass, they are also separated according to their physical size. Typically, ions with a larger cross section (volume) exhibit longer drift times in the gas-filled ion mobility chamber. Therefore, IMMS can reveal direct information regarding the shape and conformation of a protein complex. The Biomolecular Mass Spectrometry and Proteomics group at the Bijvoet Center has a Waters Synapt HD HDMS mass spectrometer for ion mobility analysis of proteins and protein complexes.
Native mass spectrometry allows the structural investigation of protein complexes. It will not provide a structural model in atomic detail, but the sensitivity, speed, selectivity, unlimited mass range and accuracy of the analysis provides important advantages over other techniques. It’s sensitivity allows the investigation of endogenous protein complexes. For native MS, the Biomolecular Mass Spectrometry and Proteomics group at the Bijvoet Center has LCT mass spectrometers for the analysis of peptides, unfolded proteins and native proteins and protein complexes and modified Q-ToF mass spectrometers for structural analysis proteins and protein complexes.
Mass spectrometry based proteomics enables the indentification and quantification of cellular proteins and their modified forms. The Biomolecular Mass Spectrometry and Proteomics group at the Bijvoet Center provides access to qualititave and quantitative proteomics analysis of proteins in complex samples. Instrumentation available includes advanced (2D)-HPLC and state-of-the-art mass spectrometers such as Thermo Scientific Q-Exactive Orbitraps and LTQ-Orbitraps and AB Sciex TripleTOF mass spectrometers.
The Bijvoet Center has 950, 900, 750, 600 and 500 MHz solution state NMR spectrometers, equipped with cryoprobes (600, 900 and 950 MHz) and a variety of other special probes, for characterization of biomolecules in solution, structure determination and dynamical and functional studies. All of the NMR instruments are state-of-the-art digital Bruker spectrometers, suitable for all the standard pulse sequences. Tailored pulse sequences for structural determination of high molecular weight proteins and other dedicated applications are developed and available.
The Bijvoet Center for Biomolecular Research is part of the Instruct-NL national Instruct Centre in the Netherlands and has facilities for high-throughput mass spectrometry on proteins and peptides, X-ray crystal structure determination of biomolecules as well as small molecules and high-field NMR instrumentation for both liquid- and solid-phase NMR analysis of proteins.
The Bijvoet Center currently offers access to native protein mass spectrometry, which allows determination of protein mass, complex stoichiometry, and, in combination with ion mobility separation, overall characterization of the structure of protein complexes, to both liquid- and solid-phase NMR (primarily through iNEXT) to enable structure determination of biomolecules and/or the characterization of their macromolecular complexes and to computational approaches for NMR and SAXS data analysis and structural modelling through the WeNMR portal.
In Instruct, access is also especially offered to integrated projects, using multiple technologies, either at the Bijvoet Center, or in collaboration with on of the other Instruct Centres. Important: to ensure a smooth application process, we strongly recommend any users to contact us before submitting an application.
The Bijvoet Center is located at Utrecht Science Park "De Uithof" in Utrecht, the Netherlands. Please see the institute website for detailed contact information.
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