Results 21 to 30 of about 9,541,112 (326)
Evolution of tertiary structure of viral RNA dependent polymerases.
PLoS ONE, 2014 Viral RNA dependent polymerases (vRdPs) are present in all RNA viruses; unfortunately, their sequence similarity is too low for phylogenetic studies. Nevertheless, vRdP protein structures are remarkably conserved.
Jiří Černý +4 more
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Folding of RNA tertiary structure: linkages between backbone phosphates, ions, and water [PDF]
Biopolymers, 2013 The functional forms of many RNAs have compact architectures. The placement of phosphates within such structures must be influenced not only by the strong electrostatic repulsion between phosphates, but also by networks of interactions between phosphates,
D. Draper
semanticscholar +2 more sources
RNA tertiary structure energetics predicted by an ensemble model of the RNA double helix
bioRxiv, 2018 Over 50% of residues within functional structured RNAs are base-paired in Watson-Crick helices, but it is not fully understood how these helices’ geometric preferences and flexibility might influence RNA tertiary structure.
J. Yesselman +5 more
semanticscholar +2 more sources
From Visualization to Manipulation of RNA Secondary and Tertiary Structures [PDF]
Tenth International Conference on Information Visualisation (IV'06), 2006 Ribonucleic Acid (RNA) is an important molecule which performs a wide range of functions in biological systems. We present a method for visualizing, exploring and editing RNA molecules. The method relies on the visualization of the 3D tertiary structure of RNA as well as on the automatic extraction and visualization of the 2D secondary structure.
Gilles Bailly +2 more
openaire +2 more sources
RNA seeing double: close-packing of helices in RNA tertiary structure.
Trends in Biochemical Sciences, 1997 Structured RNA molecules play essential roles in RNA processing, chromosome maintenance and protein biosynthesis. RNA necessarily uses different strategies than proteins for folding and assembly of complex architectures.
S. Strobel, J. Doudna
semanticscholar +3 more sources
Transformers in RNA structure prediction: A review [PDF]
Computational and Structural Biotechnology JournalThe Transformer is a deep neural network based on the self-attention mechanism, designed to handle sequential data. Given its tremendous advantages in natural language processing, it has gained traction for other applications. As the primary structure of
Mayank Chaturvedi +2 more
doaj +2 more sources
, 2000 Ribonucleic acids are negatively charged polymers assembled from four different types of monomers. Each monomer is made of an invariant phosphorylated sugar to which is attached one of the four standard nucleic acid bases; the pyrimidines uracil and cytosine, and thepurines guanine and adenine.
Auffinger, Pascal, Westhof, Eric
core +3 more sources
ARTS: alignment of RNA tertiary structures [PDF]
Bioinformatics, 2005 Abstract Motivation: A fast growing number of non-coding RNAs have recently been discovered to play essential roles in many cellular processes. Similar to proteins, understanding the functions of these active RNAs requires methods for analyzing their tertiary structures.
Oranit Dror +2 more
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RNA tertiary structure prediction with ModeRNA [PDF]
Briefings in Bioinformatics, 2011 Noncoding RNAs perform important roles in the cell. As their function is tightly connected with structure, and as experimental methods are time-consuming and expensive, the field of RNA structure prediction is developing rapidly. Here, we present a detailed study on using the ModeRNA software.
Rother M, Rother K, Puton T, Bujnicki JM
openaire +3 more sources
Structure Prediction of RNA Loops with a Probabilistic Approach. [PDF]
PLoS Computational Biology, 2016 The knowledge of the tertiary structure of RNA loops is important for understanding their functions. In this work we develop an efficient approach named RNApps, specifically designed for predicting the tertiary structure of RNA loops, including hairpin ...
Jun Li +4 more
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