Evidence map›Paper›PMID 42223917›Full record

ArticleActa crystallographica. Section D, Structural biology2026

It started off as a Cys, how did it end up like this? Identifying the extent of unmodelled oxidatively modified cysteines within the Protein Data Bank.

Samuel P Foster, Anna J Warren, C Alistair Siebert, Jaswir Basran, Peter C E Moody

Abstract read
In one paragraph

Article in Acta crystallographica. Section D, Structural biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Samuel P FosterDiamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom.ORCID 0000-0002-0166-5536
Anna J WarrenDiamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom.ORCID 0000-0003-4704-1857
C Alistair SiebertDiamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom.ORCID 0000-0002-8126-1979
Jaswir BasranDepartment of Molecular and Cell Biology, Leicester Institute of Structural and Chemical Biology, University of Leicester, Leicester LE1 9HN, United Kingdom.
Peter C E MoodyDepartment of Molecular and Cell Biology, Leicester Institute of Structural and Chemical Biology, University of Leicester, Leicester LE1 9HN, United Kingdom.

Funding

Royal Society RSWFR3
6 · The paper itself

Abstract

Radiation damage to macromolecular structures remains a significant challenge for accurate structure solution by X-ray crystallography, leading to incorrect structural and chemical interpretation of the data. Site-specific radiation damage is insidious, typically unidentifiable solely from summary statistics, and is primarily discussed with reference to the predominant forms: disulfide-bond cleavage, metal-centre reduction and decarboxylation of acidic residues. A method is presented for identifying potentially oxidatively damaged cysteines by interrogating the accuracy of the built model within the electron density and the geometry of the difference density peaks surrounding a cysteine. We also highlight that cysteines located within protein active sites or that are in hydrolases are predisposed to this damage.

Indexed as

CysteineDatabases, ProteinProteinsCatalytic DomainCrystallography, X-RayModels, MolecularOxidation-ReductionProtein ConformationCysteineProteinscysteinemacromolecular crystallographyProtein Data Bankradiation damageX-ray crystallography

Identifiers

PMID42223917
PMCPMC13317685

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.