Results 21 to 30 of about 1,301,283 (332)
Structural 3D Domain Reconstruction of the RNA Genome from Viruses with Secondary Structure Models
Viruses, 2021 Three-dimensional RNA domain reconstruction is important for the assembly, disassembly and delivery functionalities of a packed proteinaceus capsid. However, to date, the self-association of RNA molecules is still an open problem. Recent chemical probing
Simón Poblete, Horacio V. Guzman
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Current Opinion in Structural Biology, 1998 New information concerning RNA structure is accumulating at an ever increasing rate-from short helices with mismatched bases of 5S rRNA and complex RNA aptamers. The importance of recurring structural motifs, ion binding, and the kinetics and energetics of folding in RNA structure and function is now being recognized and addressed.
Conn, Graeme L., Draper, David E.
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Frontiers in Microbiology, 2017 Active efflux is regarded as a common mechanism for antibiotic and biocide resistance. However, the role of many drug efflux pumps in biocide resistance in Acinetobacter baumannii remains unknown. Using biocide-resistant A.
Fei Lin +8 more
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BMC Bioinformatics, 2021 Background The functions of RNA molecules are mainly determined by their secondary structures. These functions can also be predicted using bioinformatic tools that enable the alignment of multiple RNAs to determine functional domains and/or classify RNA ...
Tomasz Woźniak +3 more
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Deep Learning in RNA Structure Studies
Frontiers in Molecular Biosciences, 2022 Deep learning, or artificial neural networks, is a type of machine learning algorithm that can decipher underlying relationships from large volumes of data and has been successfully applied to solve structural biology questions, such as RNA structure ...
Haopeng Yu, Yiman Qi, Yiliang Ding
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Scaling properties of RNA as a randomly branching polymer [PDF]
J. Chem. Phys. 158, 234901 (2023), 2023 Formation of base pairs between the nucleotides of an RNA sequence gives rise to a complex and often highly branched RNA structure. While numerous studies have demonstrated the functional importance of the high degree of RNA branching -- for instance, for its spatial compactness or interaction with other biological macromolecules -- RNA branching ...
arxiv +1 more source
Mechanism and structural diversity of exoribonuclease-resistant RNA structures in flaviviral RNAs [PDF]
Nature Communications, 2018 AbstractFlaviviruses such as Yellow fever, Dengue, West Nile, and Zika generate disease-linked viral noncoding RNAs called subgenomic flavivirus RNAs. Subgenomic flavivirus RNAs result when the 5′–3′ progression of cellular exoribonuclease Xrn1 is blocked by RNA elements called Xrn1-resistant RNAs located within the viral genome’s 3′-untranslated ...
Erich G. Chapman +9 more
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Topological Classification of RNA Structures [PDF]
Journal of Molecular Biology, 2008 We present a novel topological classification of RNA secondary structures with pseudoknots. It is based on the topological genus of the circular diagram associated to the RNA base-pair structure. The genus is a positive integer number, whose value quantifies the topological complexity of the folded RNA structure.
Michael Bon +4 more
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The interaction networks of structured RNAs [PDF]
Nucleic Acids Research, 2006 All pairwise interactions occurring between bases which could be detected in three-dimensional structures of crystallized RNA molecules are annotated on new planar diagrams. The diagrams attempt to map the underlying complex networks of base-base interactions and, especially, they aim at conveying key relationships between helical domains: co-axial ...
Lescoute, Aurelie, Westhof, Eric
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RNA Secondary Structure Prediction [PDF]
Current Protocols in Nucleic Acid Chemistry, 2000 AbstractDetails for predicting secondary structure of RNA sequences using free energy minimization are given. Protocols present the use of the RNAstructure computer program (for PCs) and the mfold server (for Unix platforms). The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted.
Mathews, David H. +2 more
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