(Q24601482)

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Ensemble of secondary structures for encapsidated satellite tobacco mosaic virus RNA consistent with chemical probing and crystallography constraints

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scholarly article

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Ensemble of secondary structures for encapsidated satellite tobacco mosaic virus RNA consistent with chemical probing and crystallography constraints (English)

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crystallography

1 reference

based on heuristic

inferred from title

tobacco mosaic virus

object named as

tobacco mosaic virus

1 reference

based on heuristic

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author name string

Susan J Schroeder

1

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Jonathan W Stone

2

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Samuel Bleckley

3

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Theodore Gibbons

4

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Deborah M Mathews

5

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language of work or name

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publication date

6 July 2011

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Biophysical Journal

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101

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1

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167-75

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Multiple native states reveal persistent ruggedness of an RNA folding landscape

1 reference

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7 April 2017

Architecture and secondary structure of an entire HIV-1 RNA genome

1 reference

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7 April 2017

The Vienna RNA websuite

1 reference

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7 April 2017

VIPERdb: a relational database for structural virology

1 reference

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Structural polymorphism of the HIV-1 leader region explored by computational methods

1 reference

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Sfold web server for statistical folding and rational design of nucleic acids

1 reference

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7 April 2017

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

1 reference

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7 April 2017

A statistical sampling algorithm for RNA secondary structure prediction

1 reference

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7 April 2017

Mfold web server for nucleic acid folding and hybridization prediction

1 reference

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7 April 2017

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

1 reference

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7 April 2017

Refined structure of satellite tobacco mosaic virus at 1.8 A resolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

7 April 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

7 April 2017

Vienna RNA secondary structure server

1 reference

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7 April 2017

The equilibrium partition function and base pair binding probabilities for RNA secondary structure

1 reference

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7 April 2017

On finding all suboptimal foldings of an RNA molecule

1 reference

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7 April 2017

Discrete structure of an RNA folding intermediate revealed by cryo-electron microscopy

1 reference

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27 September 2017

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1 reference

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27 September 2017

Evaluation of the information content of RNA structure mapping data for secondary structure prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

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Secondary structure of the mature ex virio Moloney murine leukemia virus genomic RNA dimerization domain

1 reference

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27 September 2017

Advances in RNA structure prediction from sequence: new tools for generating hypotheses about viral RNA structure-function relationships

1 reference

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27 September 2017

Sequencing and analyses of all known human rhinovirus genomes reveal structure and evolution

1 reference

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27 September 2017

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1 reference

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27 September 2017

Effect of target secondary structure on RNAi efficiency

1 reference

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27 September 2017

The structural and functional role of RNA in icosahedral virus assembly

1 reference

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27 September 2017

Molecular dynamics simulations of the complete satellite tobacco mosaic virus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

27 September 2017

Revolutions in RNA secondary structure prediction

1 reference

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27 September 2017

First snapshots of the HIV-1 RNA structure in infected cells and in virions.

1 reference

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27 September 2017

The energetics of small internal loops in RNA.

1 reference

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27 September 2017

Two alternating structures of the HIV-1 leader RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

27 September 2017

Satellite tobacco mosaic virus RNA: structure and implications for assembly

1 reference

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27 September 2017

Dimerization of HIV-1 genomic RNA of subtypes A and B: RNA loop structure and magnesium binding

1 reference

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27 September 2017

Double-helical RNA in satellite tobacco mosaic virus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

27 September 2017

A histidine accepting tRNA-like fold at the 3'-end of satellite tobacco mosaic virus RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

27 September 2017

Mutation analyses of molecularly cloned satellite tobacco mosaic virus during serial passage in plants: evidence for hotspots of genetic change.

1 reference

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27 September 2017

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1 reference

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27 September 2017

Potential intra- and intermolecular interactions involving the unique-5' region of the HIV-1 5'-UTR.

1 reference

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30 May 2018

Complete suboptimal folding of RNA and the stability of secondary structures.

1 reference

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30 May 2018

Analysis of genetic heterogeneity within the type strain of satellite tobacco mosaic virus reveals several variants and a strong bias for G to A substitution mutations

1 reference

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3' terminal nucleotides determine thermodynamic stabilities of mismatches at the ends of RNA helices

1 reference

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1 reference

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1 reference

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Multiple secondary structure rearrangements during HIV-1 RNA dimerization

1 reference

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RNase protection analyses show high genetic diversity among field isolates of satellite tobacco mosaic virus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127170

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1 reference

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1 reference

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Structural analysis of a necrogenic strain of cucumber mosaic cucumovirus satellite RNA in planta

1 reference

https://pubmed.ncbi.nlm.nih.gov/21723827

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Stretching of homopolymeric RNA reveals single-stranded helices and base-stacking

1 reference

https://pubmed.ncbi.nlm.nih.gov/21723827

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inferred from PubMed ID database lookup

Factors affecting the thermodynamic stability of small asymmetric internal loops in RNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/21723827

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based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1016/J.BPJ.2011.05.053

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release_n5r4dz2b6bgnvoa3axlkwqapqy

1 reference

https://api.fatcat.wiki/v0/release/n5r4dz2b6bgnvoa3axlkwqapqy

24 November 2022

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