Metal ions: supporting actors in the playbook of small ribozymes

AE Johnson-Buck, SE McDowell, NG Walter - 2011 - books.rsc.org
Since the 1980s, several small RNA motifs capable of chemical catalysis have been
discovered. These small ribozymes, composed of between approximately 40 and 200 …

Types and concentrations of metal ions affect local structure and dynamics of RNA

J Wang, Y Xiao - Physical Review E, 2016 - APS
The roles that metal ions play in the structure and dynamics of RNA molecules are long-
standing problems that have been studied extensively but are still not well understood. Here …

Mapping metal-binding sites in the catalytic domain of bacterial RNase P RNA

AV Kazantsev, AA Krivenko, NR Pace - RNA, 2009 - rnajournal.cshlp.org
Ribonuclease P (RNase P) is a ribonucleoprotein enzyme that contains a universally
conserved, catalytically active RNA component. RNase P RNA requires divalent metal ions …

Metal ion probing of rRNAs: evidence for evolutionarily conserved divalent cation binding pockets

N POLACEK, A BARTA - Rna, 1998 - cambridge.org
Ribosomes are multifunctional RNP complexes whose catalytic activities absolutely depend
on divalent metal ions. It is assumed that structurally and functionally important metal ions …

Rapid Kinetics of Pistol Ribozyme: Insights into Limits to RNA Catalysis

S Yoon, E Ollie, DM York, JA Piccirilli, ME Harris - Biochemistry, 2023 - ACS Publications
Pistol ribozyme (Psr) is a distinct class of small endonucleolytic ribozymes, which are
important experimental systems for defining fundamental principles of RNA catalysis and …

Functional identification of ligands for a catalytic metal ion in group I introns

M Forconi, J Lee, JK Lee, JA Piccirilli, D Herschlag - Biochemistry, 2008 - ACS Publications
Many enzymes use metal ions within their active sites to achieve enormous rate
acceleration. Understanding how metal ions mediate catalysis requires elucidation of metal …

[HTML][HTML] Cations and hydration in catalytic RNA: molecular dynamics of the hepatitis delta virus ribozyme

MV Krasovska, J Sefcikova, K Réblová, B Schneider… - Biophysical journal, 2006 - cell.com
The hepatitis delta virus (HDV) ribozyme is an RNA enzyme from the human pathogenic
HDV. Cations play a crucial role in self-cleavage of the HDV ribozyme, by promoting both …

Nucleic acid enzymes: playing with a fuller deck

GF Joyce - Proceedings of the National Academy of …, 1998 - National Acad Sciences
Poor RNA. Being comprised of only four subunits, and chemically similar subunits at that, it
is a wonder that RNA can have efficient enzymatic activity. Nonetheless, beginning with the …

An unconventional origin of metal-ion rescue and inhibition in the Tetrahymena group I ribozyme reaction

S Shan, D Herschlag - Rna, 2000 - cambridge.org
The presence of catalytic metal ions in RNA active sites has often been inferred from metal-
ion rescue of modified substrates and sometimes from inhibitory effects of alternative metal …

Charge density of divalent metal cations determines RNA stability

E Koculi, C Hyeon, D Thirumalai… - Journal of the American …, 2007 - ACS Publications
RNA molecules are exquisitely sensitive to the properties of counterions. The folding
equilibrium of the Tetrahymena ribozyme is measured by nondenaturing gel electrophoresis …