(Q53519708)

15 May 2018

title

Following molecular transitions with single residue spatial and millisecond time resolution. (English)

1 reference

15 May 2018

author name string

Inna Shcherbakova

1

1 reference

15 May 2018

Somdeb Mitra

2

1 reference

15 May 2018

Robert H Beer

3

1 reference

15 May 2018

Michael Brenowitz

4

1 reference

15 May 2018

publication date

1 January 2008

1 reference

15 May 2018

published in

Methods in Cell Biology

1 reference

15 May 2018

volume

84

1 reference

15 May 2018

page(s)

589-615

1 reference

15 May 2018

Quantitative model for gene regulation by lambda phage repressor

cites work

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Free energy coupling within macromolecules. The chemical work of ligand binding at the individual sites in co-operative systems

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Nanosecond laser-induced photochemical oxidation method for protein surface mapping with mass spectrometry

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

DNA strand breaking by the hydroxyl radical is governed by the accessible surface areas of the hydrogen atoms of the DNA backbone

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Probing the structural dynamics of nucleic acids by quantitative time-resolved and equilibrium hydroxyl radical "footprinting".

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Quantitative DNase footprint titration: a method for studying protein-DNA interactions

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Iron(II)-ethylenediaminetetraacetic acid catalyzed cleavage of RNA and DNA oligonucleotides: similar reactivity toward single- and double-stranded forms

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Visualizing the higher order folding of a catalytic RNA molecule

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Caged RNA: photo-control of a ribozyme reaction

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Characterization of the Tetrahymena ribozyme folding pathway using the kinetic footprinting reagent peroxynitrous acid

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Concerted binding and bending of DNA by Escherichia coli integration host factor.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Hydroxyl radical footprinting

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Identifying the site of initial tertiary structure disruption during apomyoglobin unfolding.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

LXXIII.—Oxidation of tartaric acid in presence of iron

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

DNAase footprinting a simple method for the detection of protein-DNA binding specificity

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

A preorganized active site in the crystal structure of the Tetrahymena ribozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Structural proteomics of macromolecular assemblies using oxidative footprinting and mass spectrometry

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Laser flash photolysis of hydrogen peroxide to oxidize protein solvent-accessible residues on the microsecond timescale.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Time-resolved hydroxyl-radical footprinting of RNA using Fe(II)-EDTA.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Footprinting protein-DNA complexes with gamma-rays

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Mapping protein domains involved in macromolecular interactions: a novel protein footprinting approach.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Quantitative kinetics footprinting of protein-DNA association reactions

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Comparison of the DNA association kinetics of the Lac repressor tetramer, its dimeric mutant LacIadi, and the native dimeric Gal repressor

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

'Footprinting' proteins on DNA with peroxonitrous acid

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Visualizing the Ca2+-dependent activation of gelsolin by using synchrotron footprinting

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Local kinetic measures of macromolecular structure reveal partitioning among multiple parallel pathways from the earliest steps in the folding of a large RNA molecule

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: a complete 3D model of the Tetrahymena thermophila ribozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Millisecond radiolytic modification of peptides by synchrotron X-rays identified by mass spectrometry

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Following the dynamics of changes in solvent accessibility of 16 S and 23 S rRNA during ribosomal subunit association using synchrotron-generated hydroxyl radicals

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

High-Resolution in Vivo Footprinting of a Protein−DNA Complex Using γ-Radiation

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Novel fluorometric assay for hydroxyl radical prevention capacity using fluorescein as the probe.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

A detailed interpretation of OH radical footprints in a TBP-DNA complex reveals the role of dynamics in the mechanism of sequence-specific binding

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

TATA element recognition by the TATA box-binding protein has been conserved throughout evolution

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Quantitative nucleic acids footprinting: thermodynamic and kinetic approaches

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

DNA sequence-specific recognition by the Saccharomyces cerevisiae "TATA" binding protein: promoter-dependent differences in the thermodynamics and kinetics of binding

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

[22] Time-resolved synchrotron X-ray footprinting and its application to RNA folding

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

RNA Folding at Millisecond Intervals by Synchrotron Hydroxyl Radical Footprinting

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Time-resolved synchrotron X-ray "footprinting", a new approach to the study of nucleic acid structure and function: application to protein-DNA interactions and RNA folding.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

[19] Following the folding of RNA with time-resolved synchrotron X-ray footprinting

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Real-time characterization of intermediates in the pathway to open complex formation by Escherichia coli RNA polymerase at the T7A1 promoter

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Quantitative analysis of electrophoresis data: novel curve fitting methodology and its application to the determination of a protein-DNA binding constant

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Analysis of protein solvent accessible surfaces by photochemical oxidation and mass spectrometry

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Fast Fenton footprinting: a laboratory-based method for the time-resolved analysis of DNA, RNA and proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Rapid mapping of protein structure, interactions, and ligand binding by misincorporation proton-alkyl exchange.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Productive folding to the native state by a group II intron ribozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Radiolytic protein footprinting with mass spectrometry to probe the structure of macromolecular complexes.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Semi-automated, single-band peak-fitting analysis of hydroxyl radical nucleic acid footprint autoradiograms for the quantitative analysis of transitions

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Monovalent cations mediate formation of native tertiary structure of the Tetrahymena thermophila ribozyme.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Iron(II) EDTA used to measure the helical twist along any DNA molecule

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Hydroxyl radical "footprinting": high-resolution information about DNA-protein contacts and application to lambda repressor and Cro protein

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Hydroxyl radical footprinting: a high-resolution method for mapping protein-DNA contacts

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Mapping nucleic acid structure by hydroxyl radical cleavage

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Multiple Monovalent Ion-dependent Pathways for the Folding of the L-21 Tetrahymena thermophila Ribozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

RNA SHAPE chemistry reveals nonhierarchical interactions dominate equilibrium structural transitions in tRNA(Asp) transcripts

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Secondary reactions and strategies to improve quantitative protein footprinting.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Radiolytic modification of basic amino acid residues in peptides: probes for examining protein-protein interactions.

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Kinetic intermediates in RNA folding

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Sequence-specific endoribonuclease activity of the Tetrahymena ribozyme: enhanced cleavage of certain oligonucleotide substrates that form mismatched ribozyme-substrate complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

Formation of a GNRA tetraloop in P5abc can disrupt an interdomain interaction in the Tetrahymena group I ribozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

A method for probing the topography and interactions of proteins: footprinting of myoglobin

1 reference

https://api.crossref.org/works/10.1016%2FS0091-679X%2807%2984019-2

7 January 2021

10.1016/S0091-679X(07)84019-2

Identifiers

DOI

1 reference

15 May 2018

PubMed ID

17964944

1 reference

15 May 2018