RNA structural dynamics as captured by molecular simulations: a comprehensive overview
With both catalytic and genetic functions, ribonucleic acid (RNA) is perhaps the most
pluripotent chemical species in molecular biology, and its functions are intimately linked to …
pluripotent chemical species in molecular biology, and its functions are intimately linked to …
Multiscale simulation of DNA
Highlights•We describe the most recent methods to study DNA from electrons to
chromosomes.•Methods were classified as: electronic, atomistic, coarse grained, and …
chromosomes.•Methods were classified as: electronic, atomistic, coarse grained, and …
Monovalent metal ion binding promotes the first transesterification reaction in the spliceosome
Cleavage and formation of phosphodiester bonds in nucleic acids is accomplished by large
cellular machineries composed of both protein and RNA. Long thought to rely on a two …
cellular machineries composed of both protein and RNA. Long thought to rely on a two …
Frontiers of metal-coordinating drug design
Introduction: The occurrence of metal ions in biomolecules is required to exert vital cellular
functions. Metal-containing biomolecules can be modulated by small-molecule inhibitors …
functions. Metal-containing biomolecules can be modulated by small-molecule inhibitors …
Distinctive Formation of a DNA–Protein Cross-Link during the Repair of DNA Oxidative Damage: Insights into Human Disease from MD Simulations and QM/MM …
DJ Nikkel, SD Wetmore - Journal of the American Chemical …, 2023 - ACS Publications
Reactive oxygen species damage DNA and result in health issues. The major damage
product, 8-oxo-7, 8-dihydroguanine (8oG), is repaired by human adenine DNA glycosylase …
product, 8-oxo-7, 8-dihydroguanine (8oG), is repaired by human adenine DNA glycosylase …
Dual-mode FEN1 activity detection based on Nt. BstNBI-induced tandem signal amplification
H Yang, C Wang, E Xu, W Wei, Y Liu, S Liu - Analytical Chemistry, 2021 - ACS Publications
Flap endonuclease 1 (FEN1) is a structure-specific nuclease that cleaves the 5′ single-
stranded protrusion (also known as 5′ flap) during Okazaki fragment processing. It is …
stranded protrusion (also known as 5′ flap) during Okazaki fragment processing. It is …
Establishing the catalytic and regulatory mechanism of RNA‐based machineries
Ribonucleoprotein (RNP)‐machineries are comprised of intricate networks of long
noncoding RNAs and proteins that allow them to actively participate in transcription, RNA …
noncoding RNAs and proteins that allow them to actively participate in transcription, RNA …
Atomic-level mechanism of Pre-mRNA splicing in health and disease
Conspectus Intron removal from premature-mRNA (pre-mRNA splicing) is an essential part
of gene expression and regulation that is required for the production of mature, protein …
of gene expression and regulation that is required for the production of mature, protein …
Who activates the nucleophile in ribozyme catalysis? An answer from the splicing mechanism of group II introns
Group II introns are Mg2+-dependent ribozymes that are considered to be the evolutionary
ancestors of the eukaryotic spliceosome, thus representing an ideal model system to …
ancestors of the eukaryotic spliceosome, thus representing an ideal model system to …
Molecular basis of RNA-driven ATP hydrolysis in DExH-box helicases
The spliceosome machinery catalyzes precursor messenger (pre-m) RNA splicing. In each
cycle, the spliceosome experiences massive compositional and conformational remodeling …
cycle, the spliceosome experiences massive compositional and conformational remodeling …