Evidence map›Paper›PMID 37016190›Full record

ArticleJournal of biomolecular NMR2023

Sparse pseudocontact shift NMR data obtained from a non-canonical amino acid-linked lanthanide tag improves integral membrane protein structure prediction.

Kaitlyn V Ledwitch, Georg Künze, Jacob R McKinney, Elleansar Okwei, Katherine Larochelle, Lisa Pankewitz, Soumya Ganguly, Heather L Darling, Irene Coin, Jens Meiler

Abstract read
In one paragraph

Article in Journal of biomolecular NMR, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. Review
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

10 authors.

Kaitlyn V LedwitchCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA. k.ledwitch@vanderbilt.edu.
Georg KünzeInstitute of Drug Discovery, Faculty of Medicine, University of Leipzig, 04103, Leipzig, Germany.
Jacob R McKinneyCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Elleansar OkweiCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Katherine LarochelleCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Lisa PankewitzCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Soumya GangulyCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Heather L DarlingCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.
Irene CoinInstitute of Biochemistry, Faculty of Life Science, University of Leipzig, 04103, Leipzig, Germany.
Jens MeilerCenter for Structural Biology, Vanderbilt University, Nashville, TN, 37240, USA.

Funding

Decrypting Variants of Uncertain Significance in Long-QT SyndromeR01HL122010 · NHLBI · VANDERBILT UNIVERSITY · PI GEORGE, ALFRED L., SANDERS, CHARLES R · 2014 to 2025
$15.5M
Membrane Protein Structure Elucidation from sparse NMR data (KAMP)R01GM080403 · NIGMS · VANDERBILT UNIVERSITY · PI MEILER, JENS · 2007 to 2019
$3.0M
Topological Energetics and the Cellular Quality Control of Integral Membrane ProteinsR01GM129261 · NIGMS · TRUSTEES OF INDIANA UNIVERSITY · PI SCHLEBACH, JONATHAN PATRICK · 2018 to 2022
$1.5M
NHLBI NIH HHS R01 HL122010NIGMS NIH HHS R01 GM080403NIGMS NIH HHS R01 GM129261NIH HHS R01 GM080403
6 · The paper itself

Abstract

A single experimental method alone often fails to provide the resolution, accuracy, and coverage needed to model integral membrane proteins (IMPs). Integrating computation with experimental data is a powerful approach to supplement missing structural information with atomic detail. We combine RosettaNMR with experimentally-derived paramagnetic NMR restraints to guide membrane protein structure prediction. We demonstrate this approach using the disulfide bond formation protein B (DsbB), an α-helical IMP. Here, we attached a cyclen-based paramagnetic lanthanide tag to an engineered non-canonical amino acid (ncAA) using a copper-catalyzed azide-alkyne cycloaddition (CuAAC) click chemistry reaction. Using this tagging strategy, we collected 203 backbone H

Indexed as

Lanthanoid Series ElementsMembrane ProteinsAmino AcidsMagnetic Resonance SpectroscopyNuclear Magnetic Resonance, BiomolecularProtein ConformationAmino AcidsLanthanoid Series ElementsMembrane ProteinsClick chemistryIntegral membrane proteins (IMPs)Non-canonical amino acids (ncAAs)Pseudocontact shifts (PCSs)RosettaStructure prediction

Identifiers

PMID37016190
PMCPMC10443207

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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.