New insights into Hoogsteen base pairs in DNA duplexes from a structure-based survey
Hoogsteen (HG) base pairs (bps) provide an alternative pairing geometry to Watson–Crick
(WC) bps and can play unique functional roles in duplex DNA. Here, we use structural …
(WC) bps and can play unique functional roles in duplex DNA. Here, we use structural …
Inosine and its methyl derivatives: Occurrence, biogenesis, and function in RNA
Inosine is one of the most common post-transcriptional modifications. Since its discovery, it
has been noted for its ability to contribute to non-Watson-Crick interactions within RNA …
has been noted for its ability to contribute to non-Watson-Crick interactions within RNA …
Atomic structures of excited state A–T Hoogsteen base pairs in duplex DNA by combining NMR relaxation dispersion, mutagenesis, and chemical shift calculations
NMR relaxation dispersion studies indicate that in canonical duplex DNA, Watson–Crick
base pairs (bps) exist in dynamic equilibrium with short-lived low abundance excited state …
base pairs (bps) exist in dynamic equilibrium with short-lived low abundance excited state …
An intricate balance of hydrogen bonding, ion atmosphere and dynamics facilitates a seamless uracil to cytosine substitution in the U-turn of the neomycin-sensing …
M Krepl, J Vögele, H Kruse… - Nucleic acids …, 2018 - academic.oup.com
The neomycin sensing riboswitch is the smallest biologically functional RNA riboswitch,
forming a hairpin capped with a U-turn loop—a well-known RNA motif containing a …
forming a hairpin capped with a U-turn loop—a well-known RNA motif containing a …
Structural effects of inosine substitution in telomeric DNA quadruplex
YY Zheng, R Dartawan, Y Wu, C Wu, H Zhang… - Frontiers in …, 2024 - frontiersin.org
The telomeric DNA, a distal region of eukaryotic chromosome containing guanine-rich
repetitive sequence of (TTAGGG) n, has been shown to adopt higher-order structures …
repetitive sequence of (TTAGGG) n, has been shown to adopt higher-order structures …
Robust IR‐based detection of stable and fractionally populated G‐C+ and A‐T Hoogsteen base pairs in duplex DNA
Noncanonical G‐C+ and A‐T Hoogsteen base pairs can form in duplex DNA and play roles
in recognition, damage repair, and replication. Identifying Hoogsteen base pairs in DNA …
in recognition, damage repair, and replication. Identifying Hoogsteen base pairs in DNA …
Dissection of integrated readout reveals the structural thermodynamics of DNA selection by transcription factors
Nucleobases such as inosine have been extensively utilized to map direct contacts by
proteins in the DNA groove. Their deployment as targeted probes of dynamics and …
proteins in the DNA groove. Their deployment as targeted probes of dynamics and …
Dependence of fluorescence quenching of CY3 oligonucleotide conjugates on the oxidation potential of the stacking base pair
J Sobek, R Schlapbach - Molecules, 2020 - mdpi.com
To understand the complex fluorescence properties of astraphloxin (CY3)-labelled
oligonucleotides, it is necessary to take into account the redox properties of the …
oligonucleotides, it is necessary to take into account the redox properties of the …
[PDF][PDF] Occurrence and function of Hoogsteen base pairs in nucleic acids
H Zhou - 2016 - dukespace.lib.duke.edu
The double helix provides the structural basis for the storage and transfer of genetic
information. The B-form double helix adopted by DNA can dynamically accommodate …
information. The B-form double helix adopted by DNA can dynamically accommodate …
An AT Hoogsteen base pair in a naked DNA hairpin motif: A Protein-Recognized Conformation
In duplex DNA, AT and GC form Watson-Crick base pairs, and Hoogsteen pairing only
dominates upon protein binding or DNA damage. Using NMR, we show that an AT …
dominates upon protein binding or DNA damage. Using NMR, we show that an AT …