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View article: Structural basis for ligand recognition in the tobramycin riboswitch
Structural basis for ligand recognition in the tobramycin riboswitch Open
Recently, a novel tobramycin-responsive riboswitch was developed by a combination of Capture-SELEX and in vivo screening. This riboswitch regulates translation initiation in eukaryotes with a high dynamic range and remarkable ligand affini…
View article: Investigating the Conformational Diversity of the TMR-3 Aptamer
Investigating the Conformational Diversity of the TMR-3 Aptamer Open
Aptamers are a class of in vitro selected small RNA motifs that bind a small-molecule ligand with high affinity and specificity. They are promising candidates for the regulation of gene expression in vivo and can aid in further understandi…
View article: Protonated Glutamate and Aspartate Side Chains Can Recognize Phosphodiester Groups via Strong and Short Hydrogen Bonds in Biomacromolecular Complexes
Protonated Glutamate and Aspartate Side Chains Can Recognize Phosphodiester Groups via Strong and Short Hydrogen Bonds in Biomacromolecular Complexes Open
Phosphodiester groups occur ubiquitously in nature, e.g. in nucleic acids or in cyclic (di‐)nucleotides important for signal transduction. Proteins often use polar or positively charged amino acids to interact with the negatively charged p…
View article: In biomakromolekularen Komplexen können protonierte Glutamat‐ und Aspartat‐Seitenketten durch kurze und starke Wasserstoffbrückenbindungen zur Phosphodiestergruppenerkennung beitragen
In biomakromolekularen Komplexen können protonierte Glutamat‐ und Aspartat‐Seitenketten durch kurze und starke Wasserstoffbrückenbindungen zur Phosphodiestergruppenerkennung beitragen Open
Zusammenfassung Phosphodiestergruppen sind in der Natur weit verbreitet. Sie kommen z. B. in Nukleinsäuren oder in für die Signaltransduktion wichtigen zyklischen (Di‐)Nukleotiden vor. Proteine verwenden häufig polare oder positiv geladene…
View article: NMR Solution Structure of the N‐Terminal GSPII Domain from the <i>Thermus Thermophilus</i> Traffic ATPase PilF and Reconstruction of its c‐di‐GMP Binding Capability
NMR Solution Structure of the N‐Terminal GSPII Domain from the <i>Thermus Thermophilus</i> Traffic ATPase PilF and Reconstruction of its c‐di‐GMP Binding Capability Open
The cyclic dinucleotide c‐di‐GMP is an important second messenger molecule in bacteria and interacts with a variety of receptor molecules including RNA and protein domains. An important class of c‐di‐GMP‐binding protein domains are the gen…
View article: Chemical reactivity of RNA and its modifications with hydrazine
Chemical reactivity of RNA and its modifications with hydrazine Open
RNA modifications are essential for the regulation of cellular processes and have a key role in diseases such as cancer and neurological disorders. A major challenge in the analysis of RNA modification is the differentiation between isomer…
View article: The structural basis for high-affinity c-di-GMP binding to the GSPII-B domain of the traffic ATPase PilF from Thermus thermophilus
The structural basis for high-affinity c-di-GMP binding to the GSPII-B domain of the traffic ATPase PilF from Thermus thermophilus Open
c-di-GMP is an important second messenger in bacteria regulating, for example motility, biofilm formation, cell wall biosynthesis, infectivity, and natural transformability. It binds to a multitude of intracellular receptors. This includes…
View article: Structure of an internal loop motif with three consecutive U•U mismatches from stem–loop 1 in the 3′-UTR of the SARS-CoV-2 genomic RNA
Structure of an internal loop motif with three consecutive U•U mismatches from stem–loop 1 in the 3′-UTR of the SARS-CoV-2 genomic RNA Open
The single-stranded RNA genome of SARS-CoV-2 is highly structured. Numerous helical stem–loop structures interrupted by mismatch motifs are present in the functionally important 5′- and 3′-UTRs. These mismatches modulate local helical geom…
View article: Development of a novel tobramycin dependent riboswitch
Development of a novel tobramycin dependent riboswitch Open
We herein report the selection and characterization of a new riboswitch dependent on the aminoglycoside tobramycin. Its dynamic range rivals even the tetracycline dependent riboswitch to be the current best performing, synthetic riboswitch…
View article: High-resolution structure of stem-loop 4 from the 5′-UTR of SARS-CoV-2 solved by solution state NMR
High-resolution structure of stem-loop 4 from the 5′-UTR of SARS-CoV-2 solved by solution state NMR Open
We present the high-resolution structure of stem-loop 4 of the 5′-untranslated region (5_SL4) of the severe acute respiratory syndrome coronavirus type 2 (SARS-CoV-2) genome solved by solution state nuclear magnetic resonance spectroscopy.…
View article: <sup>19</sup>F NMR Untersuchung des Konformationsaustauschs mehrerer Zustände im synthetischen Neomycin‐bindenden Riboschalter
<sup>19</sup>F NMR Untersuchung des Konformationsaustauschs mehrerer Zustände im synthetischen Neomycin‐bindenden Riboschalter Open
Der synthetische Neomycin‐bindende Riboschalter interagiert mit seinem Liganden Neomycin sowie mit den verwandten Antibiotika Ribostamycin und Paromomycin. Die Bindung dieser Aminoglykoside induziert sehr ähnliche Grundzustandsstrukturen i…
View article: Multi‐Site Conformational Exchange in the Synthetic Neomycin‐Sensing Riboswitch Studied by <sup>19</sup>F NMR
Multi‐Site Conformational Exchange in the Synthetic Neomycin‐Sensing Riboswitch Studied by <sup>19</sup>F NMR Open
The synthetic neomycin‐sensing riboswitch interacts with its cognate ligand neomycin as well as with the related antibiotics ribostamycin and paromomycin. Binding of these aminoglycosides induces a very similar ground state structure in th…
View article: Structural and dynamic effects of pseudouridine modifications on noncanonical interactions in RNA
Structural and dynamic effects of pseudouridine modifications on noncanonical interactions in RNA Open
Pseudouridine is the most frequently naturally occurring RNA modification, found in all classes of biologically functional RNAs. Compared to uridine, pseudouridine contains an additional hydrogen bond donor group and is therefore widely re…
View article: Structural and dynamic effects of pseudouridine modifications on non-canonical interactions in RNA
Structural and dynamic effects of pseudouridine modifications on non-canonical interactions in RNA Open
This Zenodo deposition contains the molecular dynamics simulation data (i.e. trajectories, inputs, outputs, restarts) discussed in the article "Structural and dynamic effects of pseudouridine modifications on non-canonical interact…
View article: Comprehensive Fragment Screening of the SARS‐CoV‐2 Proteome Explores Novel Chemical Space for Drug Development
Comprehensive Fragment Screening of the SARS‐CoV‐2 Proteome Explores Novel Chemical Space for Drug Development Open
SARS‐CoV‐2 (SCoV2) and its variants of concern pose serious challenges to the public health. The variants increased challenges to vaccines, thus necessitating for development of new intervention strategies including anti‐virals. Within the…
View article: Comprehensive Fragment Screening of the SARS‐CoV‐2 Proteome Explores Novel Chemical Space for Drug Development
Comprehensive Fragment Screening of the SARS‐CoV‐2 Proteome Explores Novel Chemical Space for Drug Development Open
SARS‐CoV‐2 (SCoV2) and its variants of concern pose serious challenges to the public health. The variants increased challenges to vaccines, thus necessitating for development of new intervention strategies including anti‐virals. Within the…
View article: NMR assignment of non-modified tRNAIle from Escherichia coli
NMR assignment of non-modified tRNAIle from Escherichia coli Open
View article: 1H, 13C and 15N chemical shift assignment of the stem-loops 5b + c from the 5′-UTR of SARS-CoV-2
1H, 13C and 15N chemical shift assignment of the stem-loops 5b + c from the 5′-UTR of SARS-CoV-2 Open
View article: 1H, 13C and 15N assignment of stem-loop SL1 from the 5'-UTR of SARS-CoV-2
1H, 13C and 15N assignment of stem-loop SL1 from the 5'-UTR of SARS-CoV-2 Open
View article: Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome
Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome Open
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) spectrosco…
View article: Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome
Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome Open
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) spectrosco…
View article: Correction to ‘Secondary structure determination of conserved SARS-CoV-2 RNA elements by NMR spectroscopy’
Correction to ‘Secondary structure determination of conserved SARS-CoV-2 RNA elements by NMR spectroscopy’ Open
View article: 1H, 13C, 15N and 31P chemical shift assignment for stem-loop 4 from the 5′-UTR of SARS-CoV-2
1H, 13C, 15N and 31P chemical shift assignment for stem-loop 4 from the 5′-UTR of SARS-CoV-2 Open
View article: Cooperation between a T Domain and a Minimal C‐Terminal Docking Domain to Enable Specific Assembly in a Multiprotein NRPS
Cooperation between a T Domain and a Minimal C‐Terminal Docking Domain to Enable Specific Assembly in a Multiprotein NRPS Open
Non‐ribosomal peptide synthetases (NRPS) produce natural products from amino acid building blocks. They often consist of multiple polypeptide chains which assemble in a specific linear order via specialized N‐ and C‐terminal docking domain…
View article: Kooperation zwischen T‐Domäne und minimaler C‐terminaler Docking‐Domäne für funktionelle Proteininteraktionen in Multiprotein‐NRPS
Kooperation zwischen T‐Domäne und minimaler C‐terminaler Docking‐Domäne für funktionelle Proteininteraktionen in Multiprotein‐NRPS Open
Nicht‐ribosomale Peptidsynthetasen (NRPS) bestehen oft aus mehreren Einzelproteinen, deren gerichtete Interaktionen bei der Biosynthese von Naturstoffen aus Aminosäurebausteinen durch die Wechselwirkung spezialisierter N‐ und C‐terminaler …
View article: NMR resonance assignments for a docking domain pair with an attached thiolation domain from the PAX peptide-producing NRPS from Xenorhabdus cabanillasii
NMR resonance assignments for a docking domain pair with an attached thiolation domain from the PAX peptide-producing NRPS from Xenorhabdus cabanillasii Open
Non-ribosomal peptide synthetases (NRPSs) are large multienzyme machineries. They synthesize numerous important natural products starting from amino acids. For peptide synthesis functionally specialized NRPS modules interact in a defined m…
View article: 1H, 13C and 15N chemical shift assignment of the stem-loop 5a from the 5′-UTR of SARS-CoV-2
1H, 13C and 15N chemical shift assignment of the stem-loop 5a from the 5′-UTR of SARS-CoV-2 Open
The SARS-CoV-2 (SCoV-2) virus is the causative agent of the ongoing COVID-19 pandemic. It contains a positive sense single-stranded RNA genome and belongs to the genus of Betacoronaviruses. The 5′- and 3′-genomic ends of the 30 kb SCoV-2 g…
View article: 1H, 13C, and 15N backbone chemical shift assignments of the C-terminal dimerization domain of SARS-CoV-2 nucleocapsid protein
1H, 13C, and 15N backbone chemical shift assignments of the C-terminal dimerization domain of SARS-CoV-2 nucleocapsid protein Open
The current outbreak of the highly infectious COVID-19 respiratory disease is caused by the novel coronavirus SARS-CoV-2 (Severe Acute Respiratory Syndrome Coronavirus 2). To fight the pandemic, the search for promising viral drug targets …
View article: LILBID laser dissociation curves: a mass spectrometry-based method for the quantitative assessment of dsDNA binding affinities
LILBID laser dissociation curves: a mass spectrometry-based method for the quantitative assessment of dsDNA binding affinities Open
View article: 1H, 13C, and 15N backbone chemical shift assignments of coronavirus-2 non-structural protein Nsp10
1H, 13C, and 15N backbone chemical shift assignments of coronavirus-2 non-structural protein Nsp10 Open