Binding Kinetics I Conformational Changes
|Affinity, dose response||KD, IC50, fM sensitivity||Protein diameter||DH, ΔDH = 0.1 nm|
|Kinetics||kON, kOFF||Thermodynamics||ΔH, ΔS, ΔG|
|Avidity, bispecifics||Two-color detection||Nucleic acid enzyme activity||kcat, KM, kEXO|
|Conformational changes||% friction change|
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Dr. Michael Schraeml, Head Protein and Enzyme Technologies
ROCHE DIAGNOSTICS GMBH
Browse through the latest publications.
Paper in Science Advances I 05 Jan 2022
This work addresses key questions on kinetic properties of DNA-scaffolded enzymes using thrombin, a model of allosterically regulated serine proteases, encaged into DNA origami cavities with distinct structural and electrostatic features.
Besides demonstrating how DNA nanostructures affect charge-dependent mechanisms of encaged enzymes, thereby offering an alternative strategy to regulate allosteric processes through spatial confinement, the kinetic binding properties of thrombin were also characterized with switchSENSE® technology. The heliX® biosensor is ideal to study DNA-protein interaction, and it was used to support the findings on the thrombin binding properties to the thrombin-binding DNA aptamers.
Paper in Advanced Materials Technologies I 29 Oct 2021
The peptide called “PeB” specifically binds the viral surface protein hemagglutinin and is coupled to a three-armed DNA nanostructure, which is optimized for hybridization in the switchSENSE® biosensor.
The oligovalent arrangement mirrors the homo-trimeric structure of the target protein hemagglutinin. Virus binding to peptide-DNA-nanostructures can be observed directly as a decrease in fluorescence intensity in static mode measurements.
Subsequently, the immobilized viruses are used as ligands to determine rate constants of the individual peptide-protein interactions. Furthermore, influenza virus subtypes are varied, and their binding behavior is compared.
The switchSENSE® method is shown to be applicable to characterize virus-receptor interactions.
Paper in Nature Communications I 18 June 2021
The paper shows that an engineered anti-Her2 tetravalent antibody construct that binds to two different Her2 epitopes (biparatopic) significantly increases the anti-tumoral efficacy over trastuzumab or pertuzumab treatments. The biparatopic tetravalent antibody induces cluster formation of Her2 molecules on the cancer cell surface by its crosslinking capabilities leading to enhanced Her2 growth factor receptor internalization and degradation.
Besides determination of precise binding kinetics of all constructs, the superior distance-dependent crosslinking capabilities of the tetravalent construct over its parental antibody constructs at different Her2 surface densities were measured and quantified by the switchSENSE® technology. A dynamicBIOSENSORS’ internal simulation algorithm confirmed the measured crosslinking effects at different Her2 densities.