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3 results on '"Maria Alexandra Wirtz Martin"'

1. Large-Scale Recombinant Production of the SARS-CoV-2 Proteome for High-Throughput and Structural Biology Applications

Author

Nadide Altincekic, Sophie Marianne Korn, Nusrat Shahin Qureshi, Marie Dujardin, Martí Ninot-Pedrosa, Rupert Abele, Marie Jose Abi Saad, Caterina Alfano, Fabio C. L. Almeida, Islam Alshamleh, Gisele Cardoso de Amorim, Thomas K. Anderson, Cristiane D. Anobom, Chelsea Anorma, Jasleen Kaur Bains, Adriaan Bax, Martin Blackledge, Julius Blechar, Anja Böckmann, Louis Brigandat, Anna Bula, Matthias Bütikofer, Aldo R. Camacho-Zarco, Teresa Carlomagno, Icaro Putinhon Caruso, Betül Ceylan, Apirat Chaikuad, Feixia Chu, Laura Cole, Marquise G. Crosby, Vanessa de Jesus, Karthikeyan Dhamotharan, Isabella C. Felli, Jan Ferner, Yanick Fleischmann, Marie-Laure Fogeron, Nikolaos K. Fourkiotis, Christin Fuks, Boris Fürtig, Angelo Gallo, Santosh L. Gande, Juan Atilio Gerez, Dhiman Ghosh, Francisco Gomes-Neto, Oksana Gorbatyuk, Serafima Guseva, Carolin Hacker, Sabine Häfner, Bing Hao, Bruno Hargittay, K. Henzler-Wildman, Jeffrey C. Hoch, Katharina F. Hohmann, Marie T. Hutchison, Kristaps Jaudzems, Katarina Jović, Janina Kaderli, Gints Kalniņš, Iveta Kaņepe, Robert N. Kirchdoerfer, John Kirkpatrick, Stefan Knapp, Robin Krishnathas, Felicitas Kutz, Susanne zur Lage, Roderick Lambertz, Andras Lang, Douglas Laurents, Lauriane Lecoq, Verena Linhard, Frank Löhr, Anas Malki, Luiza Mamigonian Bessa, Rachel W. Martin, Tobias Matzel, Damien Maurin, Seth W. McNutt, Nathane Cunha Mebus-Antunes, Beat H. Meier, Nathalie Meiser, Miguel Mompeán, Elisa Monaca, Roland Montserret, Laura Mariño Perez, Celine Moser, Claudia Muhle-Goll, Thais Cristtina Neves-Martins, Xiamonin Ni, Brenna Norton-Baker, Roberta Pierattelli, Letizia Pontoriero, Yulia Pustovalova, Oliver Ohlenschläger, Julien Orts, Andrea T. Da Poian, Dennis J. Pyper, Christian Richter, Roland Riek, Chad M. Rienstra, Angus Robertson, Anderson S. Pinheiro, Raffaele Sabbatella, Nicola Salvi, Krishna Saxena, Linda Schulte, Marco Schiavina, Harald Schwalbe, Mara Silber, Marcius da Silva Almeida, Marc A. Sprague-Piercy, Georgios A. Spyroulias, Sridhar Sreeramulu, Jan-Niklas Tants, Kaspars Tārs, Felix Torres, Sabrina Töws, Miguel Á. Treviño, Sven Trucks, Aikaterini C. Tsika, Krisztina Varga, Ying Wang, Marco E. Weber, Julia E. Weigand, Christoph Wiedemann, Julia Wirmer-Bartoschek, Maria Alexandra Wirtz Martin, Johannes Zehnder, Martin Hengesbach, and Andreas Schlundt

Subjects
COVID-19, SARS-CoV-2, nonstructural proteins, structural proteins, accessory proteins, intrinsically disordered region, Biology (General), QH301-705.5
Abstract

The highly infectious disease COVID-19 caused by the Betacoronavirus SARS-CoV-2 poses a severe threat to humanity and demands the redirection of scientific efforts and criteria to organized research projects. The international COVID19-NMR consortium seeks to provide such new approaches by gathering scientific expertise worldwide. In particular, making available viral proteins and RNAs will pave the way to understanding the SARS-CoV-2 molecular components in detail. The research in COVID19-NMR and the resources provided through the consortium are fully disclosed to accelerate access and exploitation. NMR investigations of the viral molecular components are designated to provide the essential basis for further work, including macromolecular interaction studies and high-throughput drug screening. Here, we present the extensive catalog of a holistic SARS-CoV-2 protein preparation approach based on the consortium’s collective efforts. We provide protocols for the large-scale production of more than 80% of all SARS-CoV-2 proteins or essential parts of them. Several of the proteins were produced in more than one laboratory, demonstrating the high interoperability between NMR groups worldwide. For the majority of proteins, we can produce isotope-labeled samples of HSQC-grade. Together with several NMR chemical shift assignments made publicly available on covid19-nmr.com, we here provide highly valuable resources for the production of SARS-CoV-2 proteins in isotope-labeled form.

Published
2021
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2. 19F‐NMR‐based fragment screening for 14 different biologically active RNAs and 10 DNA and protein counter‐screens

Author

Tatjana Schamber, Kamal Azzaoui, Nusrat S. Qureshi, Boris Fürtig, Oliver Binas, Jason N Martins, Marcel J. J. Blommers, Daniel Hymon, Alix Tröster, Jasleen Kaur Bains, Christian Richter, Harald Schwalbe, Elke Stirnal, Andreas Oxenfarth, Julia Wirmer-Bartoschek, Hannes Berg, Anna Wacker, Robbin Schnieders, Tom Landgraf, Vanessa de Jesus, Santosh Lakshmi Gande, Sridhar Sreeramulu, Thomas Biedenbänder, Maria Alexandra Wirtz Martin, Albrecht Eduard Völklein, and Anna Niesteruk

Subjects
fragment-based screening 19F NMR RNA DNA proteins, Riboswitch, Full Paper, 010405 organic chemistry, Organic Chemistry, Druggability, RNA, 010402 general chemistry, 01 natural sciences, Biochemistry, Protein tertiary structure, 3. Good health, 0104 chemical sciences, chemistry.chemical_compound, Terminator (genetics), chemistry, Acridine, Molecular Medicine, Molecular Biology, DNA, Binding selectivity
Abstract

We report here on the nuclear magnetic resonance (NMR) 19 F screening of 14 RNA targets with different secondary and tertiary structure to systematically assess druggability of RNAs. Our RNA targets include representative bacterial riboswitches that naturally bind with nanomolar affinity and high specificity to cellular metabolites of low molecular weight. Based on counter‐screens against five DNAs and five proteins, we can show that RNA can be specifically targeted. To demonstrate the quality of the initial fragment library that has been designed for easy follow‐up chemistry, we further show how to increase binding affinity from an initial fragment hit by chemistry that links the identified fragment to the intercalator acridine. Thus, we achieve low micromolar binding affinity without losing binding specificity between two different terminator structures.

Published
2020
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3. Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome

Author

Martin Hengesbach, Jennifer Adam, Sridhar Sreeramulu, Maria Alexandra Wirtz Martin, Jan Ferner, Boris Fürtig, Dennis J. Pyper, Nadide Altincekic, Daniel Hymon, Robbin Schnieders, Ute Scheffer, Betül Ceylan, Klara R. Mertinkus, Marcel J. J. Blommers, Jasleen Kaur Bains, Kamal Azzaoui, Julia E. Weigand, Julia Wirmer-Bartoschek, Anna Niesteruk, Anna Wacker, Tobias Matzel, Christian Richter, Stephen A. Peter, J Tassilo Grün, Jason N Martins, Alix Tröster, Bozana Knezic, Katharina F. Hohmann, Michael W. Göbel, Harald Schwalbe, Hannes Berg, Alexey Sudakov, Elke Stirnal, Jens Wöhnert, Andreas Schlundt, Nusrat S. Qureshi, and Jennifer Vögele

Subjects
Coronavirus disease 2019 (COVID-19), Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), Proton Magnetic Resonance Spectroscopy, Druggability, Drug Evaluation, Preclinical, Computational biology, 010402 general chemistry, Ligands, 01 natural sciences, Genome, Catalysis, Small Molecule Libraries, 03 medical and health sciences, NMR spectroscopy, In vivo, Nucleotide, Research Articles, Covid Virus, 030304 developmental biology, Covid19-nmr, chemistry.chemical_classification, 0303 health sciences, Molecular Structure, SARS-CoV-2, RNA, fragment screening, General Medicine, General Chemistry, Nuclear magnetic resonance spectroscopy, 0104 chemical sciences, 3. Good health, chemistry, Nucleic Acid Conformation, RNA, Viral, Research Article
Abstract

SARS‐CoV‐2 contains a positive single‐stranded RNA genome of approximately 30 000 nucleotides. Within this genome, 15 RNA elements were identified as conserved between SARS‐CoV and SARS‐CoV‐2. By nuclear magnetic resonance (NMR) spectroscopy, we previously determined that these elements fold independently, in line with data from in vivo and ex‐vivo structural probing experiments. These elements contain non‐base‐paired regions that potentially harbor ligand‐binding pockets. Here, we performed an NMR‐based screening of a poised fragment library of 768 compounds for binding to these RNAs, employing three different 1H‐based 1D NMR binding assays. The screening identified common as well as RNA‐element specific hits. The results allow selection of the most promising of the 15 RNA elements as putative drug targets. Based on the identified hits, we derive key functional units and groups in ligands for effective targeting of the RNA of SARS‐CoV‐2., The RNA genome of SARS‐CoV‐2 contains 15 independently folded regulatory RNA elements. By NMR‐based fragment screening, the RNA target space for small molecule binding, functional mapping and inhibition is defined.

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