Evidence map›Paper›PMID 38642265›Full record

ArticleBiomolecular NMR assignments2024

Shibani Bhattacharya, Tassadite Dahmane, Michael J Goger, Michael J Rudolph, Nilgun E Tumer

Open access · hybridAbstract read
In one paragraph

Article in Biomolecular NMR assignments, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.5field-weighted citation impact, top 37% of its field
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

1 citing paper in PubMed, 2 citations in OpenAlex.

  1. A steady-state approach for analysis of high-resolution relaxometry.Journal of magnetic resonance (San Diego, Calif. : 1997) · 2025
    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

5 authors at 2 institutions in 1 country.

Shibani BhattacharyaNew York Structural Biology Center, 89 Convent Avenue, New York, NY, 10027, USA. sbhattacharya@nysbc.org.
Tassadite DahmaneNew York Structural Biology Center, 89 Convent Avenue, New York, NY, 10027, USA.
Michael J GogerNew York Structural Biology Center, 89 Convent Avenue, New York, NY, 10027, USA.
Michael J RudolphNew York Structural Biology Center, 89 Convent Avenue, New York, NY, 10027, USA.
Nilgun E TumerDepartment of Plant Biology and Pathology, School of Environmental and Biological Sciences, Rutgers University, 59 Dudley Road, New Brunswick, NJ, 08901-8520, USA.
New York Structural Biology Center · USRutgers, The State University of New Jersey · US

Funding

TR&D4: Integrated pipeline for data analysisP41GM118302 · NIGMS · NEW YORK STRUCTURAL BIOLOGY CENTER · PI PALMER, ARTHUR G · 2017 to 2021
$8.5M
RM1 Center on Macromolecular Dynamics by NMR Spectroscopy at the New York Structural Biology Center (CoMD/NMR)- Equipment Supplement RequestRM1GM145397 · NIGMS · NEW YORK STRUCTURAL BIOLOGY CENTER · PI ARTHUR G PALMER · 2022 to 2026
$8.3M
Training (303-338)P41GM116799 · NIGMS · NEW YORK STRUCTURAL BIOLOGY CENTER · PI HENDRICKSON, WAYNE A. · 2016 to 2020
$7.1M
What makes ricin ToxicR01AI072425 · NIAID · RUTGERS, THE STATE UNIV OF N.J. · PI TUMER, NILGUN E · 2007 to 2021
$5.8M
Small molecule inhibitors targeting the ribosome binding site of ricin and Shiga toxinR01AI178870 · NIAID · RUTGERS, THE STATE UNIV OF N.J. · PI NILGUN E TUMER · 2024 to 2026
$2.1M
Upgrade of 800 MHz SpectrometerS10OD016432 · OD · NEW YORK STRUCTURAL BIOLOGY CENTER · PI PALMER, ARTHUR G · 2014 to 2014
$600k
Acquisition of an 800 MHz TXO CryoProbeS10OD028577 · OD · NEW YORK STRUCTURAL BIOLOGY CENTER · PI PALMER, ARTHUR G · 2020 to 2020
$299k
NIAID NIH HHS R01 AI072425NIAID NIH HHS R01 AI178870NIGMS NIH HHS GM118302NIGMS NIH HHS P41 GM116799NIGMS NIH HHS P41 GM118302NIGMS NIH HHS RM1 GM145397NIH HHS S10 OD016432NIH HHS S10 OD028577
6 · The paper itself

Abstract

Ricin is a potent plant toxin that targets the eukaryotic ribosome by depurinating an adenine from the sarcin-ricin loop (SRL), a highly conserved stem-loop of the rRNA. As a category-B agent for bioterrorism it is a prime target for therapeutic intervention with antibodies and enzyme blocking inhibitors since no effective therapy exists for ricin. Ricin toxin A subunit (RTA) depurinates the SRL by binding to the P-stalk proteins at a remote site. Stimulation of the N-glycosidase activity of RTA by the P-stalk proteins has been studied extensively by biochemical methods and by X-ray crystallography. The current understanding of RTA's depurination mechanism relies exclusively on X-ray structures of the enzyme in the free state and complexed with transition state analogues. To date we have sparse evidence of conformational dynamics and allosteric regulation of RTA activity that can be exploited in the rational design of inhibitors. Thus, our primary goal here is to apply solution NMR techniques to probe the residue specific structural and dynamic coupling active in RTA as a prerequisite to understand the functional implications of an allosteric network. In this report we present de novo sequence specific amide and sidechain methyl chemical shift assignments of the 267 residue RTA in the free state and in complex with an 11-residue peptide (P11) representing the identical C-terminal sequence of the ribosomal P-stalk proteins. These assignments will facilitate future studies detailing the propagation of binding induced conformational changes in RTA complexed with inhibitors, antibodies, and biologically relevant targets.

Indexed as

Nitrogen IsotopesNuclear Magnetic Resonance, BiomolecularRicinAmino Acid SequenceProtein SubunitsNitrogen-15Nitrogen IsotopesProtein SubunitsRicinAllosteryChemical shift mappingNuclear magnetic resonance spectroscopyP-stalk proteinRibosomeRibosome inactivating proteinRicin A subunit

Identifiers

PMID38642265
PMCPMC11081922
OpenAlexW4394979845

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.