Fluorescence Competition and Optical Melting Measurements of RNA Three-Way Multibranch Loops Provide a Revised Model for Thermodynamic Parameters (Q41891055)

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scientific article published on January 14, 2011

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English	Fluorescence Competition and Optical Melting Measurements of RNA Three-Way Multibranch Loops Provide a Revised Model for Thermodynamic Parameters	scientific article published on January 14, 2011

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scholarly article

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Europe PubMed Central

PMC publication ID

13 October 2017

Fluorescence competition and optical melting measurements of RNA three-way multibranch loops provide a revised model for thermodynamic parameters (English)

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Europe PubMed Central

PMC publication ID

13 October 2017

Fluorescence Competition and Optical Melting Measurements of RNA Three-Way Multibranch Loops Provide a Revised Model for Thermodynamic Parameters (English)

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10.1021/BI101470N

https://api.crossref.org/works/10.1021/BI101470N

19 November 2024

nucleic acid tertiary structure

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19 November 2024

Douglas H. Turner

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Douglas H Turner

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13 October 2017

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Biao Liu

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13 October 2017

Joshua M. Diamond

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David H. Mathews

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14 January 2011

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13 October 2017

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https://doi.org/10.1021/bi101470n

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19 November 2024

https://europepmc.org/articles/PMC3032278

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Europe PubMed Central

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A21133351

19 November 2024

https://europepmc.org/articles/PMC3032278?pdf=render

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content deliverer

Europe PubMed Central

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A21133351

19 November 2024

https://pubs.acs.org/doi/pdf/10.1021/bi101470n

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10.1021/BI101470N

https://api.crossref.org/works/10.1021/BI101470N

19 November 2024

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Europe PubMed Central

PMC publication ID

13 October 2017

50

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Europe PubMed Central

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13 October 2017

5

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Europe PubMed Central

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13 October 2017

640-653

1 reference

Europe PubMed Central

PMC publication ID

13 October 2017

Optical Melting Measurements of Nucleic Acid Thermodynamics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032278

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A two-length-scale polymer theory for RNA loop free energies and helix stacking

1 reference

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mRNA secondary structures fold sequentially but exchange rapidly in vivo

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Sequencing technologies - the next generation

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Fluorescence competition assay measurements of free energy changes for RNA pseudoknots

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Correlation of RNA secondary structure statistics with thermodynamic stability and applications to folding.

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Application of 'next-generation' sequencing technologies to microbial genetics

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RNA STRAND: the RNA secondary structure and statistical analysis database

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Crystal Structure of a Self-Spliced Group II Intron

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Predicting helical coaxial stacking in RNA multibranch loops

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A set of nearest neighbor parameters for predicting the enthalpy change of RNA secondary structure formation

1 reference

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Crystal structures of the thi-box riboswitch bound to thiamine pyrophosphate analogs reveal adaptive RNA-small molecule recognition

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CONTRAfold: RNA secondary structure prediction without physics-based models

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5 June 2018

Comprehensive thermodynamic analysis of 3' double-nucleotide overhangs neighboring Watson-Crick terminal base pairs

1 reference

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5 June 2018

Crystal structure of a bacterial ribonuclease P RNA.

1 reference

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5 June 2018

Extracting stacking interaction parameters for RNA from the data set of native structures

1 reference

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5 June 2018

Secondary structure models of the 3' untranslated regions of diverse R2 RNAs

1 reference

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Entropy-driven folding of an RNA helical junction: an isothermal titration calorimetric analysis of the hammerhead ribozyme.

1 reference

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5 June 2018

Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure

1 reference

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5 June 2018

A statistical sampling algorithm for RNA secondary structure prediction

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A novel method for finding tRNA genes

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5 June 2018

Crystal structure of the specificity domain of ribonuclease P

1 reference

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5 June 2018

Effects of magnesium ions on the stabilization of RNA oligomers of defined structures

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Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation

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5 June 2018

The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs

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5 June 2018

Crystal structure of the ribosome at 5.5 A resolution

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5 June 2018

The complete atomic structure of the large ribosomal subunit at 2.4 A resolution

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A quantitative method for evaluating the stabilities of nucleic acids

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5 June 2018

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

1 reference

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5 June 2018

Crystal structure of a conserved ribosomal protein-RNA complex

1 reference

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5 June 2018

A dynamic programming algorithm for RNA structure prediction including pseudoknots

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5 June 2018

A common motif organizes the structure of multi-helix loops in 16 S and 23 S ribosomal RNAs

1 reference

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5 June 2018

Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs

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5 June 2018

Global structure of four-way RNA junctions studied using fluorescence resonance energy transfer

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5 June 2018

Ion-induced folding of the hammerhead ribozyme: afluorescence resonance energy transfer study

1 reference

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5 June 2018

The ribonuclease P database

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5 June 2018

The structure of ribosomal protein S7 at 1.9 Å resolution reveals a β-hairpin motif that binds double-stranded nucleic acids

1 reference

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5 June 2018

Phylogenetic analysis of tmRNA secondary structure.

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5 June 2018

Investigation of the structural basis for thermodynamic stabilities of tandem GU mismatches: solution structure of (rGAGGUCUC)2 by two-dimensional NMR and simulated annealing

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5 June 2018

Thermodynamics of coaxially stacked helixes with GA and CC mismatches

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Hairpin ribozyme: current status and future prospects

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5 June 2018

Crystal structure of a group I ribozyme domain: principles of RNA packing

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5 June 2018

NMR studies of DNA three-way junctions containing two unpaired thymidine bases: the influence of the sequence at the junction on the stability of the stacking conformers

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The conformation of loop E of eukaryotic 5S ribosomal RNA.

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Three-dimensional structure of a hammerhead ribozyme

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The sarcin/ricin loop, a modular RNA.

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Helical stacking in DNA three-way junctions containing two unpaired pyrimidines: proton NMR studies

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Interaction ofEscherichia coliribosomal protein S7 with 16S rRNA

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Relative stabilities of DNA three-way, four-way and five-way junctions (multi-helix junction loops): unpaired nucleotides can be stabilizing or destabilizing

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A common RNA loop motif as a docking module and its function in the hammerhead ribozyme

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Sequence dependence of stability for coaxial stacking of RNA helixes with Watson-Crick base paired interfaces

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Keeping RNA happy.

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based on heuristic

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Long RNA Dangling End Has Large Energetic Contribution to Duplex Stability

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12 December 2020

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Conformation of polyribouridylic acid in solution

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Thermodynamics of three-way multibranch loops in RNA

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Folding of the four-way RNA junction of the hairpin ribozyme

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Studies of the temperature-dependent conformation and phase separation of polyriboadenylic acid solutions at neutral pH

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based on heuristic

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Conformational differences between bulged pyrimidines (C-C) and purines (A-A, I-I) at the branch point of three-stranded DNA junctions

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based on heuristic

inferred from PubMed ID database lookup

Folding of branched RNA species

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based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1021/BI101470N

1 reference

Europe PubMed Central

PMC publication ID

13 October 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

13 October 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

13 October 2017

ResearchGate publication ID

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