Current Protocols in Nucleic Acid Chemistry, 2002 Peer Reviewed ; https://deepblue.lib.umich.edu/bitstream/2027.42/143692/1/cpnc1100 ...
openaire +3 more sources
Influence of ground-state structure and Mg2+ binding on folding kinetics of the guanine-sensing riboswitch aptamer domain [PDF]
, 2011 Riboswitch RNAs fold into complex tertiary structures upon binding to their cognate ligand. Ligand recognition is accomplished by key residues in the binding pocket.
Julia Wirmer-Bartoschek +17 more
core +1 more source
Novel endoribonucleases as central players in various pathways of eukaryotic RNA metabolism [PDF]
, 2010 For a long time it has been assumed that the decay of RNA in eukaryotes is mainly carried out by exoribonucleases, which is in contrast to bacteria, where endoribonucleases are well documented to initiate RNA degradation.
Tomecki, Rafał, Dziembowski, Andrzej
core +3 more sources
TBI server: a web server for predicting ion effects in RNA folding. [PDF]
PLoS ONE, 2015 Metal ions play a critical role in the stabilization of RNA structures. Therefore, accurate prediction of the ion effects in RNA folding can have a far-reaching impact on our understanding of RNA structure and function. Multivalent ions, especially Mg²⁺,
Yuhong Zhu, Zhaojian He, Shi-Jie Chen
doaj +1 more source
Current Protocols in Nucleic Acid Chemistry, 2000 AbstractA general overview of the questions and problems in RNA folding is presented. Topics include the differences in the folding problems/questions that apply to RNA versus proteins, methods for determination of final structures, folding versus unfolding, resolution of space and time, and conformational switching.
openaire +3 more sources
Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics [PDF]
, 2004 Reeder J, Giegerich R. Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinformatics. 2004;5(1): 104.Background: The general problem of RNA secondary structure prediction under the widely ...
Reeder Jens +5 more
core +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
Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domain [PDF]
, 2010 Divalent cations are important in the folding and stabilization of complex RNA structures. The adenine-sensing riboswitch controls the expression of mRNAs for proteins involved in purine metabolism by directly sensing intracellular adenine levels ...
Wöhnert, Jens +2 more
core +1 more source
Nondenaturing purification of co-transcriptionally folded RNA avoids common folding heterogeneity.
PLoS ONE, 2010 Due to the energetic frustration of RNA folding, tertiary structured RNA is typically characterized by a rugged folding free energy landscape where deep kinetic barriers separate numerous misfolded states from one or more native states.
Miguel J B Pereira +2 more
doaj +1 more source
Study of E. coli Hfq's RNA annealing acceleration and duplex destabilization activities using substrates with different GC-contents [PDF]
, 2012 Folding of RNA molecules into their functional three-dimensional structures is often supported by RNA chaperones, some of which can catalyse the two elementary reactions helix disruption and helix formation.
Saxena, Krishna +6 more
core +1 more source