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Frankfurt scientists identify possible Achilles’ heel of SARS-CoV-2 virus
Geoscientists from Goethe University create sedimentary archive with annual resolution
Faster and simpler production of high-resolution, three-dimensional electron microscopy images of biomolecules
FRANKFURT/JENA. An interdisciplinary team from Frankfurt and Jena has developed a kind of bait with which to fish protein complexes out of mixtures. Thanks to this “bait", the desired protein is available much faster for further examination in the electron microscope. The research team has christened this innovative layer of ultrathin molecular carbon the “smart nanosheet". With the help of this new development, diseases and their treatment with drugs can be better understood, for example.
“With our process, new types of proteins can be isolated from mixtures and characterized within a week," explains Daniel Rhinow from the Max Planck Institute of Biophysics in Frankfurt. “To date, just the isolation of the proteins was often part of a doctorate lasting several years." Together with Andreas Terfort (Goethe University) and Andrey Turchanin (Friedrich Schiller University Jena), the idea evolved a few years ago of fishing the desired proteins directly out of mixtures by equipping a nanosheet with recognition sites onto which the target protein bonds. The researchers have now succeeded in making proteins directly available for examination using electron cryo-microscopy through a “smart nanosheet".
Electron cryo-microscopy is based on the shock-freezing of a sample at temperatures under -150 °C. In this process, the protein maintains its structure, no interfering fixing and coloring agents are needed, and the electrons can easily irradiate the frozen object. The result is high-resolution, three-dimensional images of the tiniest structures – for example of viruses and DNA, almost down to the scale of a hydrogen atom.
In preparation, the proteins are shock-frozen in an extremely thin layer of water on a minute metal grid. Previously, samples had to be cleaned in a complex procedure – often involving an extensive loss of material – prior to their examination in an electron microscope. The electron microscopy procedure is only successful if just one type of protein is bound in the water layer.
The research group led by Turchanin is now using nanosheets that are merely one nanometer thick and composed of a cross-linked molecular self-assembled monolayer. Terfort's group coats this nanosheet with a gelling agent as the basis for the thin film of water needed for freezing. The researchers then attach recognition sites (a special nitrilotriacetic acid group with nickel ions) to it. The team led by Rhinow uses the “smart nanosheets" treated in this way to fish proteins out of a mixture. These were marked beforehand with a histidine chain with which they bond to the recognition sites; all other interfering particles can be rinsed off. The nanosheet with the bound protein can then be examined directly with the electron microscope.
“Our smart nanosheets are particularly efficient because the hydrogel layer stabilizes the thin film of water required and at the same time suppresses the non-specific binding of interfering particles," explains Julian Scherr of Goethe University. “In this way, molecular structural biology can now examine protein structures and functions much faster." The knowledge gained from this can be used, for example, to better understand diseases and their treatment with drugs.
The team has patented the new nanosheets and additionally already found a manufacturer who will bring this useful tool onto the market.
Publication: Smart Molecular Nanosheets for Advanced Preparation of Biological Samples in Electron Cryo-Microscopy, ACS Nano 2020, https://doi.org/10.1021/acsnano.0c03052
Julian Scherr, Zian Tang, Maria Küllmer, Sebastian Balser, Alexander Stefan Scholz, Andreas Winter, Kristian Parey, Alexander Rittner, Martin Grininger, Volker Zickermann, Daniel Rhinow, Andreas Terfort und Andrey Turchanin; Department of Structural Biology, Max Planck Institute of Biophysics, Max-von-Laue-Str. 3, 60438 Frankfurt am Main; Faculty of Biochemistry, Chemistry and Pharmacy, Goethe University, Max-von-Laue-Str. 7, 60438 Frankfurt am Main; Institute of Physical Chemistry, Friedrich Schiller University Jena, Lessingstr. 10, 07743 Jena
A picture can be downloaded under: www.uni-frankfurt.de/90128243
Caption: The new nanosheet process: The protein complex to be examined (yellow) is attached to the smart nanosheet via a nickel complex with the aid of a marker (red chain with pentagons). Unwanted proteins (gray) are repelled by the hydrogel (black grid). After freezing the entire structure, including a thin film of water, this can be irradiated with electrons to obtain images of the bound proteins, from which a computer can then calculate the 3D structure of the protein.
Professor Andreas Terfort, Institute of Inorganic and Analytical Chemistry, Goethe University, Max-von-Laue-Str. 7, 60438 Frankfurt am Main, email@example.com, +49-69-798-29181, https://www.uni-frankfurt.de/53459866/terfort
Professor Andrey Turchanin, Friedrich Schiller University Jena, Lessingstr. 10, 07743 Jena, firstname.lastname@example.org, +49-3641-48370, www.apc.uni-jena.de
X-ray structure analysis gives detailed insights into molecular factory
Mystery about the cancer drug nelarabine solved after decades
FRANKFURT. Acute lymphoblastic leukaemia (ALL) is the most common kind of cancer in children. T-ALL, a subtype that resembles T-lymphocytes, can be treated successfully with the drug nelarabine. The drug has not been successful, however, with B-ALL, a subtype resembling B-lymphocytes. Since the 1980s, oncologists have been puzzled as to the cause of this difference. Now, an international research team headed by Goethe University and the University of Kent has discovered the reason: B-ALL cells contain the enzyme SAMHD1, which deactivates the drug.
In the current issue of “Communications Biology", Professor Jindrich Cinatl from the Institute for Medical Virology at Goethe University and Professor Martin Michaelis from the School of Biosciences at the University of Kent report on their investigations with nelarabine on different cell lines. “Nelarabine is the precursor of the drug, a prodrug, that does not become effective until it is combined with three phosphate groups in the leukaemia cell," explains Professor Cinatl. “In studies of various ALL cell lines and leukaemia cells from ALL patients, we have been able to demonstrate that the enzyme SAMHD1 splits the phosphate groups off so that the medicine loses its effect." Because B-ALL cells contain more SAMHD1 than T-ALL cells, nelarabine is less effective with B-ALL.
These results could improve the treatment of ALL in the future. In rare cases, B-ALL cells contain very little SAMHD1 so that treatment with nelarabine would be possible. On the contrary, there are also rare cases of T-ALL exhibiting a lot of SAMHD1. In such cases, the otherwise effective nelarabine would not be the right medication. Professor Michaelis observes: “SAMHD1 is thus a biomarker that allows us to better adapt treatment with nelarabine to the individual situation of ALL patients."
Tamara Rothenburger, whose doctoral dissertation was funded by the association “Hilfe für krebskranke Kinder Frankfurt e.V“, is satisfied when she looks back at her research. “I hope that many children with leukaemia will benefit from the results." The research was also supported by the Frankfurt Stiftung für krebskranke Kinder. Additional members of the research group are Ludwig-Maximilians-Universität Munich, and University College London.
Publication: Tamara Rothenburger, Katie-May McLaughlin, Tobias Herold, Constanze Schneider, Thomas Oellerich, Florian Rothweiler, Andrew Feber, Tim R. Fenton, Mark N. Wass, Oliver T. Keppler, Martin Michaelis, Jindrich Cinatl. SAMHD1 is a key regulator of the lineage-specific response of acute lymphoblastic leukaemias to nelarabine, in: Communications Biology, DOI 10.1038/s42003-020-1052-8, https://www.nature.com/commsbio/
Prof. Dr. rer. nat. Jindrich Cinatl
Institute for Medical Virology
University Hospital Frankfurt
Tel.: +49 69 6301-6409