Evidence map›Paper›PMID 30387773›Full record

ArticleActa crystallographica. Section F, Structural biology communications2018

Characterization and structure determination of a llama-derived nanobody targeting the J-base binding protein 1.

Bart van Beusekom, Tatjana Heidebrecht, Athanassios Adamopoulos, Alexander Fish, Els Pardon, Jan Steyaert, Robbie P Joosten, Anastassis Perrakis

Abstract read
In one paragraph

Article in Acta crystallographica. Section F, Structural biology communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. DSSP 4: FAIR annotation of protein secondary structure.Protein science : a publication of the Protein Society · 2025
    Article
  2. 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

8 authors.

Bart van BeusekomDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.ORCID 0000-0002-2183-2901
Tatjana HeidebrechtDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.
Athanassios AdamopoulosDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.ORCID 0000-0002-3544-4619
Alexander FishDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.
Els PardonVIB-VUB Center for Structural Biology, VIB, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-2466-0172
Jan SteyaertVIB-VUB Center for Structural Biology, VIB, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-3825-874X
Robbie P JoostenDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.ORCID 0000-0002-2323-2686
Anastassis PerrakisDepartment of Biochemistry, Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands.ORCID 0000-0002-1151-6227

Funding

Nederlandse Organisatie voor Wetenschappelijk Onderzoek TOP.13.B2.009Nederlandse Organisatie voor Wetenschappelijk Onderzoek VIDI 723.013.003
6 · The paper itself

Abstract

J-base binding protein 1 (JBP1) contributes to the biosynthesis and maintenance of base J (β-D-glucosylhydroxymethyluracil), a modification of thymidine confined to some protozoa. Camelid (llama) single-domain antibody fragments (nanobodies) targeting JBP1 were produced for use as crystallization chaperones. Surface plasmon resonance screening identified Nb6 as a strong binder, recognizing JBP1 with a 1:1 stoichiometry and high affinity (K

Indexed as

AnimalsCamelids, New WorldCrystallography, X-RayDNA-Binding ProteinsGlucosidesModels, MolecularProtein ConformationProtozoan ProteinsSingle-Domain AntibodiesSurface Plasmon ResonanceUracil5-((glucopyranosyloxy)methyl)uracilDNA-Binding ProteinsGlucosidesJ-specific DNA-binding protein, protozoaProtozoan ProteinsSingle-Domain AntibodiesUracilimmune systemJ-base binding protein 1llamasnanobodies

Identifiers

PMID30387773
PMCPMC6213982

What OpenQuestion holds

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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.