Characterizing micro-to-millisecond chemical exchange in nucleic acids using off-resonance R1ρ relaxation dispersion
This review describes off-resonance R 1ρ relaxation dispersion NMR methods for
characterizing microsecond-to-millisecond chemical exchange in uniformly 13 C/15 N …
characterizing microsecond-to-millisecond chemical exchange in uniformly 13 C/15 N …
DNA mismatches reveal conformational penalties in protein–DNA recognition
Transcription factors recognize specific genomic sequences to regulate complex gene-
expression programs. Although it is well-established that transcription factors bind to specific …
expression programs. Although it is well-established that transcription factors bind to specific …
Developments in solution-state NMR yield broader and deeper views of the dynamic ensembles of nucleic acids
B Liu, H Shi, HM Al-Hashimi - Current opinion in structural biology, 2021 - Elsevier
Nucleic acids do not fold into a single conformation, and dynamic ensembles are needed to
describe their propensities to cycle between different conformations when performing …
describe their propensities to cycle between different conformations when performing …
Kinetic resolution of the atomic 3D structures formed by ground and excited conformational states in an RNA dynamic ensemble
Knowing the 3D structures formed by the various conformations populating the RNA free-
energy landscape, their relative abundance, and kinetic interconversion rates is required to …
energy landscape, their relative abundance, and kinetic interconversion rates is required to …
An RNA excited conformational state at atomic resolution
Sparse and short-lived excited RNA conformational states are essential players in cell
physiology, disease, and therapeutic development, yet determining their 3D structures …
physiology, disease, and therapeutic development, yet determining their 3D structures …
Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction
Biomolecules form dynamic ensembles of many inter-converting conformations which are
key for understanding how they fold and function. However, determining ensembles is …
key for understanding how they fold and function. However, determining ensembles is …
NMR Chemical Exchange Measurements Reveal That N6-Methyladenosine Slows RNA Annealing
H Shi, B Liu, F Nussbaumer… - Journal of the …, 2019 - ACS Publications
N 6-Methyladenosine (m6A) is an abundant epitranscriptomic modification that plays
important roles in many aspects of RNA metabolism. While m6A is thought to mainly function …
important roles in many aspects of RNA metabolism. While m6A is thought to mainly function …
Probing Watson-Crick and Hoogsteen base pairing in duplex DNA using dynamic nuclear polarization solid-state NMR spectroscopy
The majority of base pairs in double-stranded DNA exist in the canonical Watson-Crick
geometry. However, they can also adopt alternate Hoogsteen conformations in various …
geometry. However, they can also adopt alternate Hoogsteen conformations in various …
Probing the hydrogen-bonding environment of individual bases in DNA duplexes with isotope-edited infrared spectroscopy
RJ Fick, AY Liu, F Nussbaumer, C Kreutz… - The Journal of …, 2021 - ACS Publications
Measuring the strength of the hydrogen bonds between DNA base pairs is of vital
importance for understanding how our genetic code is physically accessed and recognized …
importance for understanding how our genetic code is physically accessed and recognized …
New insights into the role of DNA shape on its recognition by p53 proteins
The tumor suppressor p53 acts as a transcription factor recognizing diverse DNA response
elements (REs). Previous structural studies of p53-DNA complexes revealed non-canonical …
elements (REs). Previous structural studies of p53-DNA complexes revealed non-canonical …