ArticleNucleic acids research2020
Secondary structure determination of conserved SARS-CoV-2 RNA elements by NMR spectroscopy.
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Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 122 papers.
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122citing papers in PubMed
10.9field-weighted citation impact, top 1% of its field
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122 citing papers in PubMed, 187 citations in OpenAlex.
- Integrative in silico and in vitro screening of small molecules targeting RNA.Current protocols · 2026Article
- Unraveling the Mechanism of Drug Binding to SARS-CoV-2 RNA Pseudoknot With Thermodynamics-Driven Machine Learning.Journal of computational chemistry · 2026Article
- RNA circularization preserves dynamics and enables in-cell relaxation NMR.Nucleic acids research · 2026Article
- A potential RNA-RNA distal interaction competing with a functional pseudoknot in the 3'-untranslated region of SARS-like coronaviruses.Nucleic acids research · 2026Article
- Open questions on viral frameshifting: Exploiting the structural plasticity of the frameshifting element for therapeutic intervention.Biophysical journal · 2026Review
- SARS-CoV-2 Antivirals Identified from Small Molecule Modulators of Programmed -1 Ribosomal Frameshifting.ACS infectious diseases · 2026Article
- Structure and sequence characteristics of 5'-stem-loop 1 modulate the escape from nsp1-mediated repression in SARS-CoV-2 variants.Nucleic acids research · 2026Article
- Coronavirus genome packaging and nucleocapsid assembly.Journal of virology · 2026Review
- DNP-Enhanced Magic Angle Spinning Solid-State NMR Spectroscopy to Determine RNA-Ligand Interactions.Journal of the American Chemical Society · 2026Article
- NMR and molecular dynamics demonstrate the RNA internal loop GAGU is dynamic and adjacent basepairs determine conformational preference.Biophysical journal · 2026Article
- Integrative In Silico and In Vitro Screening of Low Molecular Weight Compounds Targeting SARS-CoV-2 RNA Elements.Chembiochem : a European journal of chemical biology · 2025Article
- Application of NMR to Large RNAs.Journal of molecular biology · 2025Review
- Article
- Characterization of the binding features between SARS-CoV-2 5'-proximal transcripts of genomic RNA and nucleocapsid proteins.RNA biology · 2025Review
- A DNA Scaffold Approach Facilitates 5' Labeling of the SARS-CoV-2 RNA Pseudoknot for Single-Molecule Förster Resonance Energy Transfer Investigation.Chemphyschem : a European journal of chemical physics and physical chemistry · 2025Article
- Integrated NMR and MD structure and dynamics of the stem-loop-II motif (s2m) from the Omicron variant of SARS-CoV-2.RNA (New York, N.Y.) · 2025Article
- Enhanced Generalizability of RNA Secondary Structure Prediction via Convolutional Block Attention Network and Ensemble Learning.Molecules (Basel, Switzerland) · 2025Article
- Targeting the SARS-CoV-2 RNA Translation Initiation Element SL1 by Molecules of Low Molecular Weight.Journal of the American Chemical Society · 2025Article
- Structural Prediction of Coronavirus s2m Kissing Complexes and Extended Duplexes.ACS physical chemistry Au · 2025Article
- Tiny but multi-stable: four distinct conformational states govern the ligand-free state of the preQ1 riboswitch from a thermophilic bacterium.Nucleic acids research · 2025Article
62 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
63 authors at 7 institutions in 6 countries.
Anna WackerInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Julia E WeigandDepartment of Biology, Technical University of Darmstadt, Schnittspahnstrasse 10, 64287 Darmstadt, Germany.
Sabine R AkabayovFaculty of Chemistry, Weizmann Institute of Science, 7610001 Rehovot, Israel.
Nadide AltincekicInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Jasleen Kaur BainsInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Elnaz BanijamaliDepartment of Medical Biochemistry and Biophysics, Karolinska Institute, Biomedicum 9B, Solnavägen 9, 17177 Stockholm, Sweden.
Oliver BinasInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Jesus Castillo-MartinezSchool of Medicine, Catholic University of Valencia, C/Quevedo 2, 46001 Valencia, Spain.
Erhan CetinerInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Betül CeylanInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Liang-Yuan ChiuDepartment of Chemistry, Case Western Reserve University, Cleveland, OH 44106, USA.
Jesse Davila-CalderonDepartment of Chemistry, Case Western Reserve University, Cleveland, OH 44106, USA.
Karthikeyan DhamotharanInstitute for Molecular Biosciences.
Elke Duchardt-FernerInstitute for Molecular Biosciences.
Jan FernerInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Lucio FrydmanFaculty of Chemistry, Weizmann Institute of Science, 7610001 Rehovot, Israel.
Boris FürtigInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
José GallegoSchool of Medicine, Catholic University of Valencia, C/Quevedo 2, 46001 Valencia, Spain.
J Tassilo GrünInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Carolin HackerSignals GmbH & Co. KG, Graf-von-Stauffenberg-Allee 83, 60438 Frankfurt/M, Germany.
Christina HaddadDepartment of Chemistry, Case Western Reserve University, Cleveland, OH 44106, USA.
Martin HähnkeSignals GmbH & Co. KG, Graf-von-Stauffenberg-Allee 83, 60438 Frankfurt/M, Germany.
Martin HengesbachInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Fabian HillerSignals GmbH & Co. KG, Graf-von-Stauffenberg-Allee 83, 60438 Frankfurt/M, Germany.
Katharina F HohmannInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Daniel HymonInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Vanessa de JesusInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Henry JonkerInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Heiko KellerInstitute for Molecular Biosciences.
Bozana KnezicInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Tom LandgrafInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Frank LöhrInstitute of Biophysical Chemistry, Center for Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang Goethe-University Frankfurt, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Le LuoDepartment of Medical Biochemistry and Biophysics, Karolinska Institute, Biomedicum 9B, Solnavägen 9, 17177 Stockholm, Sweden.
Klara R MertinkusInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Christina MuhsInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Mihajlo NovakovicFaculty of Chemistry, Weizmann Institute of Science, 7610001 Rehovot, Israel.
Andreas OxenfarthInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Martina Palomino-SchätzleinSchool of Medicine, Catholic University of Valencia, C/Quevedo 2, 46001 Valencia, Spain.
Katja PetzoldDepartment of Medical Biochemistry and Biophysics, Karolinska Institute, Biomedicum 9B, Solnavägen 9, 17177 Stockholm, Sweden.
Stephen A PeterDepartment of Biology, Technical University of Darmstadt, Schnittspahnstrasse 10, 64287 Darmstadt, Germany.
Dennis J PyperInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Nusrat S QureshiInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Magdalena RiadDepartment of Medical Biochemistry and Biophysics, Karolinska Institute, Biomedicum 9B, Solnavägen 9, 17177 Stockholm, Sweden.
Christian RichterInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Krishna SaxenaInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Tatjana SchamberInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Tali ScherfFaculty of Chemistry, Weizmann Institute of Science, 7610001 Rehovot, Israel.
Judith SchlagnitweitDepartment of Medical Biochemistry and Biophysics, Karolinska Institute, Biomedicum 9B, Solnavägen 9, 17177 Stockholm, Sweden.
Andreas SchlundtInstitute for Molecular Biosciences.
Robbin SchniedersInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Harald SchwalbeInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Alvaro Simba-LahuasiSchool of Medicine, Catholic University of Valencia, C/Quevedo 2, 46001 Valencia, Spain.
Sridhar SreeramuluInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Elke StirnalInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Alexey SudakovInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Jan-Niklas TantsInstitute for Molecular Biosciences.
Blanton S TolbertDepartment of Chemistry, Case Western Reserve University, Cleveland, OH 44106, USA.
Jennifer VögeleInstitute for Molecular Biosciences.
Lena WeißInstitute for Molecular Biosciences.
Julia Wirmer-BartoschekInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Maria A Wirtz MartinInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Jens WöhnertInstitute for Molecular Biosciences.
Heidi ZetzscheInstitute for Organic Chemistry and Chemical Biology, Max-von-Laue-Strasse 7, 60438 Frankfurt/M., Germany.
Institute for Marine Biosciences · CAKarolinska Institutet · SECase Western Reserve University · USUniversitat de València · ESWeizmann Institute of Science · ILTechnische Universität Darmstadt · DEGoethe University Frankfurt · DE
Funding
GRADUATE TRAINING IN CELLULAR AND MOLECULAR BIOLOGYT32GM008056 · NIGMS · CASE WESTERN RESERVE UNIVERSITY · PI DIEHL, JOHN ALAN, SNIDER, MARTIN D · 1985 to 2019
$7.1MQuantum Helium Recovery SystemR01GM126833 · NIGMS · CASE WESTERN RESERVE UNIVERSITY · PI BREWER, GARY A., TOLBERT, BLANTON SMITH · 2018 to 2021
$1.9MInhibitor of FtsZ Polymerization in M. tuberculosisR01AI050470 · NIAID · SOUTHERN RESEARCH INSTITUTE · PI REYNOLDS, ROBERT C · 2002 to 2004
$1.7MNIAID NIH HHS R01 AI050470NIGMS NIH HHS R01 GM126833NIGMS NIH HHS T32 GM008056NIH HHS U54AI50470
Abstract
The current pandemic situation caused by the Betacoronavirus SARS-CoV-2 (SCoV2) highlights the need for coordinated research to combat COVID-19. A particularly important aspect is the development of medication. In addition to viral proteins, structured RNA elements represent a potent alternative as drug targets. The search for drugs that target RNA requires their high-resolution structural characterization. Using nuclear magnetic resonance (NMR) spectroscopy, a worldwide consortium of NMR researchers aims to characterize potential RNA drug targets of SCoV2. Here, we report the characterization of 15 conserved RNA elements located at the 5' end, the ribosomal frameshift segment and the 3'-untranslated region (3'-UTR) of the SCoV2 genome, their large-scale production and NMR-based secondary structure determination. The NMR data are corroborated with secondary structure probing by DMS footprinting experiments. The close agreement of NMR secondary structure determination of isolated RNA elements with DMS footprinting and NMR performed on larger RNA regions shows that the secondary structure elements fold independently. The NMR data reported here provide the basis for NMR investigations of RNA function, RNA interactions with viral and host proteins and screening campaigns to identify potential RNA binders for pharmaceutical intervention.
Indexed as
Nucleic Acid Conformation3' Untranslated RegionsBase SequenceCOVID-19Frameshifting, RibosomalGenome, ViralHumansMagnetic Resonance SpectroscopyModels, MolecularPandemicsRNA, ViralSARS-CoV-23' Untranslated RegionsRNA, Viral
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