Evidence map›Paper›PMID 40170967›Full record

ArticleJournal of applied crystallography2025

If you cannot see it, is it still there?

Lukas Leitner, Jesse Hudspeth, Sebastiaan Werten, Bernhard Rupp

Abstract read
In one paragraph

Article in Journal of applied crystallography, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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.

Lukas LeitnerInstitute of Genetic Epidemiology Medical University of Innsbruck Schöpfstrasse 41 6020Innsbruck Austria.
Jesse HudspethDepartment of Biochemistry and Molecular Genetics University of Colorado Anschutz Medical Campus 13001 East 17th Place Aurora CO80045 USA.ORCID https://orcid.org/0000-0001-7557-8964
Sebastiaan WertenDepartment of General, Inorganic and Theoretical Chemistry University of Innsbruck Innrain 80-82 6020Innsbruck Austria.ORCID https://orcid.org/0000-0003-2244-9688
Bernhard RuppDepartment of General, Inorganic and Theoretical Chemistry University of Innsbruck Innrain 80-82 6020Innsbruck Austria.ORCID https://orcid.org/0000-0002-3300-6965

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Protein crystallographers rely on electron density to build atomic models of molecular structures, yet flexible regions often remain unseen in electron density and are omitted. We suggest that ensemble refinement can be used to visualize and analyse the conformational landscape of such 'invisible' protein segments, which is particularly useful in cases where molecular flexibility plays a functional role. Using ensemble refinement on multiple crystal forms of the fungal methyl-transferase PsiM as an example, we illustrate the dynamic nature of a key substrate recognition loop, demonstrating its potential role in substrate binding and release. Ensemble refinement provides a persuasive visualization of biologically relevant flexible regions and can be a powerful tool for exploring molecular plasticity and aiding the modelling of dynamic protein components.

Indexed as

ensemble refinementflexibilityinvisible protein segmentsmissing electron densitymodellingprotein crystallography

Identifiers

PMID40170967
PMCPMC11957417

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.