Dynamics of Cations around DNA and Protein as Revealed by 23Na Diffusion NMR Spectroscopy

B Yu, KG Bien, CC Pletka, J Iwahara - Analytical Chemistry, 2022 - ACS Publications
Counterions are vital for the structure and function of biomolecules. However, the behavior
of counterions remains elusive due to the difficulty in characterizing mobile ions. Here, we …

Diffusion NMR-based comparison of electrostatic influences of DNA on various monovalent cations

B Yu, KG Bien, T Wang, J Iwahara - Biophysical journal, 2022 - cell.com
Counterions are important constituents for the structure and function of nucleic acids. Using
7 Li and 133 Cs nuclear magnetic resonance (NMR) spectroscopy, we investigated how …

Detecting counterion dynamics in DNA–protein association

CC Pletka, R Nepravishta… - Angewandte Chemie …, 2020 - Wiley Online Library
Due to a high density of negative charges on its surface, DNA condenses cations as
counterions, forming the so‐called “ion atmosphere”. Although the release of counterions …

NMR cross-correlated relaxation rates reveal ion coordination sites in DNA

R Fiala, N Špačková… - Journal of the …, 2011 - ACS Publications
In this work, a novel NMR method for the identification of preferential coordination sites
between physiologically relevant counterions and nucleic acid bases is demonstrated. In …

Dynamics of ionic interactions at protein–nucleic acid interfaces

B Yu, BM Pettitt, J Iwahara - Accounts of chemical research, 2020 - ACS Publications
Conspectus Molecular association of proteins with nucleic acids is required for many
biological processes essential to life. Electrostatic interactions via ion pairs (salt bridges) of …

Sodium Dynamics in the Cellular Environment

Y Yin, Y Song, Y Jia, J Xia, R Bai… - Journal of the American …, 2023 - ACS Publications
Sodium ions are essential for the functions of biological cells, and they are maintained at the
balance between intra-and extracellular environments. The quantitative assessment of intra …

Measuring local electrostatic potentials around nucleic acids by paramagnetic NMR spectroscopy

B Yu, X Wang, J Iwahara - The journal of physical chemistry letters, 2022 - ACS Publications
Electrostatic potentials around macromolecules in the presence of mobile charges are
difficult to assess especially for highly charged systems. Here, we report measurements of …

Displacement of Mn2+ from RNA by K+, Mg2+, Neomycin B, and an Arginine-Rich Peptide:  Indirect Detection of Nucleic Acid/Ligand Interactions Using …

JS Summers, J Shimko, FL Freedman… - Journal of the …, 2002 - ACS Publications
We have developed a novel method to study the interactions of nucleic acids with cationic
species. The method, called phosphorus relaxation enhancement (PhoRE), uses 1H …

Direct observation of the ion-pair dynamics at a protein–DNA interface by NMR spectroscopy

KM Anderson, A Esadze, M Manoharan… - Journal of the …, 2013 - ACS Publications
Ion pairing is one of the most fundamental chemical interactions and is essential for
molecular recognition by biological macromolecules. From an experimental standpoint, very …

Sodium-23 NMR spin-lattice relaxation rate studies of mono-and bis-intercalation in DNA

H Eggert, J Dinesen, JP Jacobsen - Biochemistry, 1989 - ACS Publications
Jorgen Dinesen and Jens Peter Jacobsen* Department of Chemistry, Odense University,
Campusvej 55, DK-5230 Odense M, Denmark Received September 8, 1988; Revised …