Evidence map›Paper›PMID 30810525›Full record

ArticleeLife2019

Functional instability allows access to DNA in longer transcription Activator-Like effector (TALE) arrays.

Kathryn Geiger-Schuller, Jaba Mitra, Taekjip Ha, Doug Barrick

Abstract read
In one paragraph

Article in eLife, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Tuning up Transcription Factors for Therapy.Molecules (Basel, Switzerland) · 2020
    Review
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors.

Kathryn Geiger-SchullerT.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.ORCID 0000-0002-6705-0681
Jaba MitraMaterials Science and Engineering, University of Illinois Urbana-Champaign, Urbana, United States.
Taekjip HaT.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.ORCID 0000-0003-2195-6258
Doug BarrickT.C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, United States.ORCID 0000-0001-7291-1389

Funding

PROGRAM IN MOLECULAR BIOPHYSICST32GM008403 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI BARRICK, DOUGLAS E. · 1990 to 2019
$13.5M
REPEAT-PROTEINS;STABILITY, FOLDING KINETICS &EVOLUTIONR01GM068462 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI BARRICK, DOUGLAS E. · 2005 to 2025
$6.3M
Single Molecule Studies of Nucleic Acids RemodelingR35GM122569 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI Taekjip Ha · 2017 to 2026
$3.5M
Quantitative Imaging and Modeling of Regulation by Bacterial Small RNAR01GM112659 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI HA, TAEKJIP, LUTHEY-SCHULTEN, ZAIDA · 2015 to 2018
$1.1M
STUDIES ON RNA POLYMERASE II TRANSCRIPTION TERMINATIONF32GM011296 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI REINES, DANIEL · 1986 to 1988
–
National Science Foundation PHY 1430124NIGMS NIH HHS GM1129659NIGMS NIH HHS R01 GM068462NIGMS NIH HHS R01-GM068462NIGMS NIH HHS R01 GM112659NIGMS NIH HHS R35 GM122569NIGMS NIH HHS T32 GM008403NIGMS NIH HHS T32-GM008403
6 · The paper itself

Abstract

Transcription activator-like effectors (TALEs) bind DNA through an array of tandem 34-residue repeats. How TALE repeat domains wrap around DNA, often extending more than 1.5 helical turns, without using external energy is not well understood. Here, we examine the kinetics of DNA binding of TALE arrays with varying numbers of identical repeats. Single molecule fluorescence analysis and deterministic modeling reveal conformational heterogeneity in both the free- and DNA-bound TALE arrays. Our findings, combined with previously identified partly folded states, indicate a TALE instability that is functionally important for DNA binding. For TALEs forming less than one superhelical turn around DNA, partly folded states inhibit DNA binding. In contrast, for TALEs forming more than one turn, partly folded states facilitate DNA binding, demonstrating a mode of 'functional instability' that facilitates macromolecular assembly. Increasing repeat number slows down interconversion between the various DNA-free and DNA-bound states.

Indexed as

DNAKineticsModels, MolecularProtein BindingProtein ConformationSingle Molecule ImagingTranscription Activator-Like EffectorsDNATranscription Activator-Like Effectorsbiochemistrychemical biologydeterministic modelingFRETfunctional instabilitymolecular biophysicsnonesingle-molecule biophysicsstructural biologyTALE repeat

Identifiers

PMID30810525
PMCPMC6461438

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.