Evidence map›Paper›PMID 35059213›Full record

ArticleIUCrJ2022

Grzegorz Chojnowski, Adam J Simpkin, Diego A Leonardo, Wolfram Seifert-Davila, Dan E Vivas-Ruiz, Ronan M Keegan, Daniel J Rigden

Abstract read
In one paragraph

Article in IUCrJ, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.

0numbers the graph read from it
0cells of the map it votes in
44citing 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

44 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Crystal structure and functional characterization of an Asp49 phospholipase AActa crystallographica. Section F, Structural biology communications · 2026
    Article
  5. Review
  6. Article
  7. Article
  8. Article
  9. Cryo-EM single-particle analysis expanding towards increasingly native samples.Acta crystallographica. Section D, Structural biology · 2025
    Review
  10. Article
  11. Article
  12. Article
  13. Recognizing amino acid sidechains in a medium-resolution cryo-electron density map.Protein science : a publication of the Protein Society · 2025
    Article
  14. Review
  15. Article
  16. Article
  17. Review
  18. Article
  19. Article
  20. 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

7 authors.

Grzegorz ChojnowskiEuropean Molecular Biology Laboratory, Hamburg Unit, Notkestrasse 85, 22607 Hamburg, Germany.ORCID https://orcid.org/0000-0002-3796-8352
Adam J SimpkinInstitute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom.
Diego A LeonardoSão Carlos Institute of Physics, University of São Paulo, Avenida João Dagnone 1100, São Carlos, SP 13563-120, Brazil.
Wolfram Seifert-DavilaEuropean Molecular Biology Laboratory, Meyerhofstraße 1, 69117 Heidelberg, Germany.ORCID https://orcid.org/0000-0002-5366-624X
Dan E Vivas-RuizLaboratorio de Biología Molecular, Facultad de Ciencias Biológicas, Universidad Nacional Mayor de San Marcos, Avenida Venezuela Cdra 34 S/N, Ciudad Universitaria, Lima, Peru.
Ronan M KeeganRutherford Appleton Laboratory, Research Complex at Harwell, UKRI-STFC, Didcot OX11 0FA, United Kingdom.
Daniel J RigdenInstitute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom.ORCID https://orcid.org/0000-0002-7565-8937

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Although experimental protein-structure determination usually targets known proteins, chains of unknown sequence are often encountered. They can be purified from natural sources, appear as an unexpected fragment of a well characterized protein or appear as a contaminant. Regardless of the source of the problem, the unknown protein always requires characterization. Here, an automated pipeline is presented for the identification of protein sequences from cryo-EM reconstructions and crystallographic data. The method's application to characterize the crystal structure of an unknown protein purified from a snake venom is presented. It is also shown that the approach can be successfully applied to the identification of protein sequences and validation of sequence assignments in cryo-EM protein structures.

Indexed as

bioinformaticscryo-EMfindMySequenceneural networksprotein sequencesprotein structuresSIMBADstructure determination

Identifiers

PMID35059213
PMCPMC8733886

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.