Abstract Web 3DNA (w3DNA) 2.0 is a significantly enhanced version of the widely used
w3DNA server for the analysis, visualization, and modeling of 3D nucleic-acid-containing …

Abstract Structure and deformability of the DNA double helix play a key role in protein and
small ligand binding, in genome regulation via looping, or in nanotechnology applications …

The determination of the double helical structure of DNA in 1953 remains the landmark
event in the development of modern biological and biomedical science. This structure has …

OxDNA and oxRNA are popular coarse-grained models used by the DNA/RNA
nanotechnology community to prototype, analyze and rationalize designed DNA and RNA …

RNA origami is a method for designing RNA nanostructures that can self-assemble through
co-transcriptional folding with applications in nanomedicine and synthetic biology. However …

We present the results of microsecond molecular dynamics simulations carried out by the
ABC group of laboratories on a set of B-DNA oligomers containing the 136 distinct …

INTRODUCTION Rett syndrome is a severe neurodevelopmental disorder that is mainly
caused by mutations in the methyl-CpG-binding protein 2 gene (MeCP2). Initially, MeCP2 …

The interbacterial deaminase toxin DddA catalyzes cytosine-to-uracil conversion in double-
stranded (ds) DNA and enables CRISPR-free mitochondrial base editing, but the molecular …

Tn7 is a bacterial transposon with relatives containing element-encoded CRISPR-Cas
systems mediating RNA-guided transposon insertion. Here, we present the 2.7 Å …

The structure and dynamics of all the transversion and transition mismatches in three
different DNA environments have been characterized by molecular dynamics simulations …