The catalytic diversity of RNAs

MJ Fedor, JR Williamson - Nature reviews Molecular cell biology, 2005 - nature.com
The natural RNA enzymes catalyse phosphate-group transfer and peptide-bond formation.
Initially, metal ions were proposed to supply the chemical versatility that nucleotides lack. In …

Generation of 2′, 3′-cyclic phosphate-containing RNAs as a hidden layer of the transcriptome

M Shigematsu, T Kawamura, Y Kirino - Frontiers in genetics, 2018 - frontiersin.org
Cellular RNA molecules contain phosphate or hydroxyl ends. A 2′, 3′-cyclic phosphate
(cP) is one of the 3′-terminal forms of RNAs mainly generated from RNA cleavage by …

A conformational switch controls hepatitis delta virus ribozyme catalysis

A Ke, K Zhou, F Ding, JHD Cate, JA Doudna - Nature, 2004 - nature.com
Ribozymes enhance chemical reaction rates using many of the same catalytic strategies as
protein enzymes. In the hepatitis delta virus (HDV) ribozyme, site-specific self-cleavage of …

Novel ribozymes: discovery, catalytic mechanisms, and the quest to understand biological function

CE Weinberg, Z Weinberg… - Nucleic acids research, 2019 - academic.oup.com
Small endonucleolytic ribozymes promote the self-cleavage of their own phosphodiester
backbone at a specific linkage. The structures of and the reactions catalysed by members of …

Click chemistry for rapid labeling and ligation of RNA

E Paredes, SR Das - ChemBioChem, 2011 - Wiley Online Library
The copper (I)‐promoted azide–alkyne cycloaddition reaction (click chemistry) is shown to
be compatible with RNA (with free 2′‐hydroxyl groups) in spite of the intrinsic lability of …

General acid catalysis by the hepatitis delta virus ribozyme

SR Das, JA Piccirilli - Nature Chemical Biology, 2005 - nature.com
Recent crystallographic and functional analyses of RNA enzymes have raised the possibility
that the purine and pyrimidine nucleobases may function as general acid-base catalysts …

Crystallization of RNA and RNA–protein complexes

A Ke, JA Doudna - Methods, 2004 - Elsevier
RNA plays a direct role in a variety of cellular activities, and in many cases its biological
function is conferred by the RNA three-dimensional structure. X-ray crystallography is the …

[图书][B] From enzyme models to model enzymes

AJ Kirby, F Hollfelder - 2009 - books.google.com
Designing artificial systems with catalytic efficiencies to rival those of natural enzymes is one
of the great challenges facing science today. Our current level of understanding fails the …

How RNA unfolds and refolds

PTX Li, J Vieregg, I Tinoco Jr - Annu. Rev. Biochem., 2008 - annualreviews.org
Understanding how RNA folds and what causes it to unfold has become more important as
knowledge of the diverse functions of RNA has increased. Here we review the contributions …

Force Field for Mg2+, Mn2+, Zn2+, and Cd2+ Ions That Have Balanced Interactions with Nucleic Acids

MT Panteva, GM Giambasu… - The Journal of Physical …, 2015 - ACS Publications
Divalent metal ions are of fundamental importance to the function and folding of nucleic
acids. Divalent metal ion–nucleic acid interactions are complex in nature and include both …