Results 81 to 90 of about 14,795 (267)
eLife, 2015 Internal ribosome entry sites (IRESs) are powerful model systems to understand how the translation machinery can be manipulated by structured RNAs and for exploring inherent features of ribosome function.
Marisa D Ruehle +7 more
doaj +1 more source
Advanced Science, Volume 13, Issue 2, 9 January 2026.The advent of aptamers has highlighted their potential as alternatives to antibodies, overcoming limitations of structural instability and production cost. However, conventional approaches such as SELEX remain slow and labor‐intensive. This review examines recent advances in aptamer engineering, emphasizing in vitro and AI‐driven in silico strategies ...
John V. L. Nguyen +5 more
wiley +1 more source
A bacterial riboswitch class for the thiamin precursor HMP-PP employs a terminator-embedded aptamer
eLife, 2019 We recently implemented a bioinformatics pipeline that can uncover novel, but rare, riboswitch candidates as well as other noncoding RNA structures in bacteria.
Ruben M Atilho +4 more
doaj +1 more source
Small synthetic molecule-stabilized RNA pseudoknot as an activator for –1 ribosomal frameshifting
Nucleic Acids Research, 2018 Programmed –1 ribosomal frameshifting (−1PRF) is a recoding mechanism to make alternative proteins from a single mRNA transcript. −1PRF is stimulated by cis-acting signals in mRNA, a seven-nucleotide slippery sequence and a downstream secondary structure
Saki Matsumoto +4 more
semanticscholar +1 more source
Proteins: Structure, Function, and Bioinformatics, Volume 94, Issue 1, Page 167-182, January 2026.ABSTRACT We present the methods and results of our protein complex and RNA structure predictions at CASP16. Our approach integrated multiple state‐of‐the‐art deep learning models with a consensus‐based scoring method. To enhance the depth of multiple sequence alignments (MSAs), we employed a large metagenomic sequence database.
Yuki Kagaya +10 more
wiley +1 more source
Pseudoknots in RNA folding landscapes
Bioinformatics, 2015 Abstract Motivation: The function of an RNA molecule is not only linked to its native structure, which is usually taken to be the ground state of its folding landscape, but also in many cases crucially depends on the details of the folding pathways such as stable folding intermediates or the timing of the folding process itself. To model
Kucharik, Marcel +3 more
openaire +4 more sources
An adaptive defect weighted sampling algorithm to design pseudoknotted RNA secondary structures
Frontiers in Genetics, 2016 Computational design of RNA sequences that fold into targeted secondary structures hasmany applications in biomedicine, nanotechnology and synthetic biology.
Kasra Zandi +3 more
doaj +1 more source
Topology of RNA-RNA interaction structures [PDF]
, 2011 The topological filtration of interacting RNA complexes is studied and the role is analyzed of certain diagrams called irreducible shadows, which form suitable building blocks for more general structures.
Andersen, Jørgen E. +3 more
core +3 more sources
Functional Relevance of CASP16 Nucleic Acid Predictions as Evaluated by Structure Providers
Proteins: Structure, Function, and Bioinformatics, Volume 94, Issue 1, Page 51-78, January 2026.ABSTRACT Accurate biomolecular structure prediction enables the prediction of mutational effects, the speculation of function based on predicted structural homology, the analysis of ligand binding modes, experimental model building, and many other applications.
Rachael C. Kretsch +32 more
wiley +1 more source
Theoretical Search for RNA Folding Nuclei
Entropy, 2015 The functions of RNA molecules are defined by their spatial structure, whose folding is regulated by numerous factors making RNA very similar to proteins.
Leonid B. Pereyaslavets +1 more
doaj +1 more source