Evidence map›Paper›PMID 38057551›Full record

ArticleNature structural & molecular biology2024

Structural basis of branching during RNA splicing.

Daniel B Haack, Boris Rudolfs, Cheng Zhang, Dmitry Lyumkis, Navtej Toor

Open access · greenAbstract read
In one paragraph

Article in Nature structural & molecular biology, 2024. 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
2.3field-weighted citation impact, top 11% 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, 15 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Controlled dynamic remodeling of the spliceosome active site enables the first step of splicing.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  6. Article
  7. Article
  8. Article
  9. Has AlphaFold3 achieved success for RNA?Acta crystallographica. Section D, Structural biology · 2025
    Article
  10. Article
  11. Article
  12. Decoding branch points and unlocking splicing secrets.Nature structural & molecular biology · 2024
    Article
  13. 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

5 authors at 2 institutions in 1 country.

Daniel B HaackDepartment of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA, USA. dhaack@ucsd.edu.ORCID http://orcid.org/0000-0002-4926-7772
Boris RudolfsDepartment of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA, USA.
Cheng ZhangSalk Institute, La Jolla, CA, USA.ORCID http://orcid.org/0000-0001-6245-6618
Dmitry LyumkisSalk Institute, La Jolla, CA, USA. dlyumkis@salk.edu.ORCID http://orcid.org/0000-0002-8124-7472
Navtej ToorDepartment of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA, USA. ntoor@ucsd.edu.ORCID http://orcid.org/0000-0002-6134-163X
University of California San Diego · USSalk Institute for Biological Studies · US

Funding

Viral Vector Core (VVC)P30CA014195 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Reuben Shaw · 1985 to 2026
$82.8M
Structural Biology CoreU54AI170855 · NIAID · SEATTLE CHILDREN'S HOSPITAL · PI Bruce Edward Torbett · 2022 to 2026
$36.7M
Resource for Biocomputing Visualization and InformaticsP41GM103311 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2012 to 2017
$8.2M
Structural Biology of Retrotransposition and pre-mRNA SplicingR35GM141706 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Navtej Singh Toor · 2021 to 2026
$2.6M
NCI NIH HHS P30 CA014195NIAID NIH HHS U54 AI170855NIGMS NIH HHS P41 GM103311NIGMS NIH HHS R35 GM141706
6 · The paper itself

Abstract

Branching is a critical step in RNA splicing that is essential for 5' splice site selection. Recent spliceosome structures have led to competing models for the recognition of the invariant adenosine at the branch point. However, there are no structures of any splicing complex with the adenosine nucleophile docked in the active site and positioned to attack the 5' splice site. Thus we lack a mechanistic understanding of adenosine selection and splice site recognition during RNA splicing. Here we present a cryo-electron microscopy structure of a group II intron that reveals that active site dynamics are coupled to the formation of a base triple within the branch-site helix that positions the 2'-OH of the adenosine for nucleophilic attack on the 5' scissile phosphate. This structure, complemented with biochemistry and comparative analyses to splicing complexes, supports a base triple model of adenosine recognition for branching within group II introns and the evolutionarily related spliceosome.

Indexed as

RNA Splice SitesRNA SplicingAdenosineCryoelectron MicroscopyIntronsNucleic Acid ConformationRNA PrecursorsSpliceosomesAdenosineRNA PrecursorsRNA Splice Sites

Identifiers

PMID38057551
PMCPMC10968580
OpenAlexW4389388774

What OpenQuestion holds

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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.