Evidence map›Paper›PMID 23526169›Full record

ArticleJournal of biomolecular NMR2013

PARAssign--paramagnetic NMR assignments of protein nuclei on the basis of pseudocontact shifts.

Simon P Skinner, Mois Moshev, Mathias A S Hass, Peter H J Keizers, Marcellus Ubbink

Erratum issuedAbstract read
PubMed Publisher
In one paragraph

Article in Journal of biomolecular NMR, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing 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

13 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Delicate conformational balance of the redox enzyme cytochrome P450cam.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  11. Article
  12. Sparse labeling of proteins: structural characterization from long range constraints.Journal of magnetic resonance (San Diego, Calif. : 1997) · 2014
    Review
  13. Article
4 · The record

Corrections and comments

  • Erratum issued
    Keizers, Peter H J [added]
5 · Who and what money

Authors and funding

5 authors.

Simon P SkinnerGorlaeus Laboratories, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands. skinnersp@chem.leidenuniv.nl
Mois Moshev
Mathias A S Hass
Peter H J Keizers
Marcellus Ubbink

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The use of paramagnetic NMR data for the refinement of structures of proteins and protein complexes is widespread. However, the power of paramagnetism for protein assignment has not yet been fully exploited. PARAssign is software that uses pseudocontact shift data derived from several paramagnetic centers attached to the protein to obtain amide and methyl assignments. The ability of PARAssign to perform assignment when the positions of the paramagnetic centers are known and unknown is demonstrated. PARAssign has been tested using synthetic data for methyl assignment of a 47 kDa protein, and using both synthetic and experimental data for amide assignment of a 14 kDa protein. The complex fitting space involved in such an assignment procedure necessitates that good starting conditions are found, both regarding placement and strength of paramagnetic centers. These starting conditions are obtained through automated tensor placement and user-defined tensor parameters. The results presented herein demonstrate that PARAssign is able to successfully perform resonance assignment in large systems with a high degree of reliability. This software provides a method for obtaining the assignments of large systems, which may previously have been unassignable, by using 2D NMR spectral data and a known protein structure.

Indexed as

AzurinCytochrome P-450 Enzyme SystemMagnetic Resonance SpectroscopySoftwareAzurinCytochrome P-450 Enzyme Systempseudoazurin

Identifiers

PMID23526169

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

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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.