Evidence map›Paper›PMID 39207896›Full record

ReviewActa crystallographica. Section D, Structural biology2024

Post-translational modifications in the Protein Data Bank.

Lucy C Schofield, Jordan S Dialpuri, Garib N Murshudov, Jon Agirre

Abstract readReview
In one paragraph

Review in Acta crystallographica. Section D, Structural biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing 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

16 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
  5. Article
  6. Review
  7. Protein engineering: status report.Protein engineering, design & selection : PEDS · 2026
    Review
  8. Article
  9. Review
  10. Article
  11. Article
  12. Reconstructing biological molecules with help from video gamers.Acta crystallographica. Section D, Structural biology · 2025
    Article
  13. Article
  14. Article
  15. Article
  16. 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.

Lucy C SchofieldYork Structural Biology Laboratory, Department of Chemistry, University of York, York, United Kingdom.ORCID 0009-0001-2069-878X
Jordan S DialpuriYork Structural Biology Laboratory, Department of Chemistry, University of York, York, United Kingdom.ORCID 0000-0002-6205-2661
Garib N MurshudovMRC Laboratory of Molecular Biology, University of Cambridge, Cambridge, United Kingdom.ORCID 0000-0001-6483-3587
Jon AgirreYork Structural Biology Laboratory, Department of Chemistry, University of York, York, United Kingdom.ORCID 0000-0002-1086-0253

Funding

Biotechnology and Biological Sciences Research Council BB/T0072221Medical Research Council MC_UP_A025_1012Royal Society UF160039Royal Society URF\R\221006Science and Technology Facilities Council 4462290
6 · The paper itself

Abstract

Proteins frequently undergo covalent modification at the post-translational level, which involves the covalent attachment of chemical groups onto amino acids. This can entail the singular or multiple addition of small groups, such as phosphorylation; long-chain modifications, such as glycosylation; small proteins, such as ubiquitination; as well as the interconversion of chemical groups, such as the formation of pyroglutamic acid. These post-translational modifications (PTMs) are essential for the normal functioning of cells, as they can alter the physicochemical properties of amino acids and therefore influence enzymatic activity, protein localization, protein-protein interactions and protein stability. Despite their inherent importance, accurately depicting PTMs in experimental studies of protein structures often poses a challenge. This review highlights the role of PTMs in protein structures, as well as the prevalence of PTMs in the Protein Data Bank, directing the reader to accurately built examples suitable for use as a modelling reference.

Indexed as

Databases, ProteinProtein Processing, Post-TranslationalProteinsAnimalsGlycosylationHumansModels, MolecularPhosphorylationProtein ConformationUbiquitinationProteinsacetylationglycosylationphosphorylationpost-translational modificationsProtein Data Bank

Identifiers

PMID39207896
PMCPMC11394121

What OpenQuestion holds

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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.