Nucleic acid structure characterization by small angle X-ray scattering (SAXS) (Q36554805)

14 August 2017

Nucleic acid structure characterization by small angle X-ray scattering (SAXS) (English)

1 reference

X-ray scattering techniques

14 August 2017

1 reference

Jordan E Burke

1

1 reference

PMCID

3552392

14 August 2017

Samuel E Butcher

series ordinal

2

1 reference

14 August 2017

1 December 2012

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Current protocols in nucleic acid chemistry / editorial board, Serge L. Beaucage ... [et al.]

14 August 2017

1 reference

14 August 2017

Chapter 7

1 reference

14 August 2017

Unit7.18

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Structure of the yeast U2/U6 snRNA complex

14 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Ionic strength-dependent persistence lengths of single-stranded RNA and DNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Solution structure of RNase P RNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

TurboFold: iterative probabilistic estimation of secondary structures for multiple RNA sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Structure of a Conserved Retroviral RNA Packaging Element by NMR Spectroscopy and Cryo-Electron Tomography

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Nondenaturing purification of co-transcriptionally folded RNA avoids common folding heterogeneity

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

RNA structure determination using SAXS data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Multistage collapse of a bacterial ribozyme observed by time-resolved small-angle X-ray scattering

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

SHAPE-directed RNA secondary structure prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Rapid global structure determination of large RNA and RNA complexes using NMR and small-angle X-ray scattering

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

FoXS: a web server for rapid computation and fitting of SAXS profiles

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Idiosyncratically tuned switching behavior of riboswitch aptamer domains revealed by comparative small-angle X-ray scattering analysis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Improving small-angle X-ray scattering data for structural analyses of the RNA world

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

The ligand-free state of the TPP riboswitch: a partially folded RNA structure

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Structure and flexibility within proteins as identified through small angle X-ray scattering

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Comparison and functional implications of the 3D architectures of viral tRNA-like structures

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Coarse-grained modeling of large RNA molecules with knowledge-based potentials and structural filters

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Solution structure of tRNAVal from refinement of homology model against residual dipolar coupling and SAXS data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

The complete VS ribozyme in solution studied by small-angle X-ray scattering

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Crystal structure of the lysine riboswitch regulatory mRNA element

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

RNA structure determination by NMR.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Recent advances in RNA structure determination by NMR.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Global molecular structure and interfaces: refining an RNA:RNA complex structure using solution X-ray scattering data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

X-ray solution scattering (SAXS) combined with crystallography and computation: defining accurate macromolecular structures, conformations and assemblies in solution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Structural characterization of flexible proteins using small-angle X-ray scattering

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Cryo-electron microscopy of spliceosomal components

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

ElNemo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Low-resolution reconstruction of a synthetic DNA holliday junction.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Revised UV extinction coefficients for nucleoside-5'-monophosphates and unpaired DNA and RNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

General plasmids for producing RNA in vitro transcripts with homogeneous ends

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Mfold web server for nucleic acid folding and hybridization prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Synthesis of small RNAs using T7 RNA polymerase

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Neutron scattering measurements of separation and shape of proteins in 30S ribosomal subunit of Escherichia coli: S2-S5, S5-S8, S3-S7

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Fast production of homogeneous recombinant RNA--towards large-scale production of RNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Small angle X-ray scattering reveals a compact intermediate in RNA folding

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

RNA secondary structure prediction based on free energy and phylogenetic analysis

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Comparative small-angle X-ray scattering studies on unacylated, acylated and cross-linked Escherichia coli transfer RNAIVal

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

A picornaviral loop-to-loop replication complex.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Characterization of globular protein solutions by dynamic light scattering, electrophoretic mobility, and viscosity measurements.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Topology of three-way junctions in folded RNAs

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Solution scattering structural analysis of the 70 S Escherichia coli ribosome by contrast variation. II. A model of the ribosome and its RNA at 3.5 nm resolution.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

Crystallization of RNA-protein complexes. I. Methods for the large-scale preparation of RNA suitable for crystallographic studies

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3552392

[10] Dynamic light scattering in evaluating crystallizability of macromolecules.

21 September 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

DAMMIF, a program for rapid ab-initio shape determination in small-angle scattering

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

Direct comparison of the crystal and solution structure of glucose/xylose isomerase from Streptomyces rubiginosus.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

Automated matching of high- and low-resolution structural models

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

DMSO-induced denaturation of hen egg white lysozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

The Fastest Global Events in RNA Folding: Electrostatic Relaxation and Tertiary Collapse of the Tetrahymena Ribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

PRIMUS: a Windows PC-based system for small-angle scattering data analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

New roles for structure in biology and drug discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2F0471142700.NC0718S51

Mg2+-dependent compaction and folding of yeast tRNAPhe and the catalytic domain of the B. subtilis RNase P RNA determined by small-angle X-ray scattering

21 January 2018

1 reference

12 December 2020

Time-resolved X-ray scattering and RNA folding

1 reference

12 December 2020

Time resolved SAXS and RNA folding

1 reference

12 December 2020

Yeast Transfer RNA: A Small-Angle X-Ray Study

1 reference

12 December 2020

Isolation and physical study of the 13S fragment of 16S RNA and its complex with ribosomal protein S4

1 reference

12 December 2020

10.1002/0471142700.NC0718S51

Identifiers

DOI

1 reference

14 August 2017

1 reference

14 August 2017

1 reference

PMCID

3552392