Evidence map›Paper›PMID 30894413›Full record

ArticleThe Journal of biological chemistry2019

Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond?

Julie M Leth, Haydyn D T Mertens, Katrine Zinck Leth-Espensen, Thomas J D Jørgensen, Michael Ploug

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
0.8field-weighted citation impact, top 35% of its field
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, 16 citations in OpenAlex.

  1. Article
  2. Review
  3. Review
  4. Carboxyl-terminal sequences in APOA5 are important for suppressing ANGPTL3/8 activity.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. Review
  11. Review
  12. Unfolding of monomeric lipoprotein lipase by ANGPTL4: Insight into the regulation of plasma triglyceride metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  13. Evolution and Medical Significance of LU Domain-Containing Proteins.International journal of molecular sciences · 2019
    Review
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 at 3 institutions in 2 countries.

Julie M LethFrom the Finsen Laboratory, Rigshospitalet, DK-2200 Copenhagen N, Denmark.
Haydyn D T Mertensthe European Molecular Biology Laboratory Hamburg, Notkestrasse 85, D-22607 Hamburg, Germany, and.ORCID 0000-0002-5664-744X
Katrine Zinck Leth-EspensenFrom the Finsen Laboratory, Rigshospitalet, DK-2200 Copenhagen N, Denmark.
Thomas J D Jørgensenthe Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-5320 Odense M, Denmark.ORCID 0000-0002-7149-316X
Michael PlougFrom the Finsen Laboratory, Rigshospitalet, DK-2200 Copenhagen N, Denmark, m-ploug@finsenlab.dk.ORCID 0000-0003-2215-4265
University of Copenhagen · DKEuropean Molecular Biology Laboratory · DEUniversity of Southern Denmark · DK

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The urokinase receptor (uPAR) is a founding member of a small protein family with multiple Ly6/uPAR (LU) domains. The motif defining these LU domains contains five plesiotypic disulfide bonds stabilizing its prototypical three-fingered fold having three protruding loops. Notwithstanding the detailed knowledge on structure-function relationships in uPAR, one puzzling enigma remains unexplored. Why does the first LU domain in uPAR (DI) lack one of its consensus disulfide bonds, when the absence of this particular disulfide bond impairs the correct folding of other single LU domain-containing proteins? Here, using a variety of contemporary biophysical methods, we found that reintroducing the two missing half-cystines in uPAR DI caused the spontaneous formation of the corresponding consensus 7-8 LU domain disulfide bond. Importantly, constraints due to this cross-link impaired (i) the binding of uPAR to its primary ligand urokinase and (ii) the flexible interdomain assembly of the three LU domains in uPAR. We conclude that the evolutionary deletion of this particular disulfide bond in uPAR DI may have enabled the assembly of a high-affinity urokinase-binding cavity involving all three LU domains in uPAR. Of note, an analogous neofunctionalization occurred in snake venom α-neurotoxins upon loss of another pair of the plesiotypic LU domain half-cystines. In summary, elimination of the 7-8 consensus disulfide bond in the first LU domain of uPAR

Indexed as

Biological EvolutionSequence DeletionAmino Acid SequenceBinding SitesBiophysical PhenomenaChymotrypsinGlycosylationKineticsLigandsProtein FoldingProteolysisSequence Homology, Amino AcidStructure-Activity RelationshipSulfidesUrokinase-Type Plasminogen ActivatorChymotrypsinLigandsSulfidesUrokinase-Type Plasminogen Activatordisulfidefibrinolysishydrogen exchange mass spectrometryLU domainplasminogen regulationprotein evolutionreceptor structure-functionsmall-angle X-ray scattering (SAXS)surface plasmon resonance (SPR)urokinase receptor

Identifiers

PMID30894413
PMCPMC6509485
OpenAlexW2923560782

What OpenQuestion holds

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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.