Evidence map›Paper›PMID 26436480›Full record

ArticleNature methods2015

A strategy for dissecting the architectures of native macromolecular assemblies.

Yi Shi, Riccardo Pellarin, Peter C Fridy, Javier Fernandez-Martinez, Mary K Thompson, Yinyin Li, Qing Jun Wang, Andrej Sali, Michael P Rout, Brian T Chait

Abstract read
In one paragraph

Article in Nature methods, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers.

0numbers the graph read from it
0cells of the map it votes in
90citing 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

90 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. State-of-the-Art and Future Directions in Structural Proteomics.Molecular & cellular proteomics : MCP · 2025
    Review
  5. Review
  6. Article
  7. Article
  8. The Molecular Architecture of the Nuclear Basket.bioRxiv : the preprint server for biology · 2024
    Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Review
  16. Article
  17. Review
  18. Review
  19. Article
  20. New system for archiving integrative structures.Acta crystallographica. Section D, Structural biology · 2021
    Article

30 more citing papers are in PubMed but not listed here.

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

10 authors.

Yi ShiLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, New York, USA.
Riccardo PellarinDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, USA.
Peter C FridyLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York, USA.ORCID http://orcid.org/0000-0002-8208-9154
Javier Fernandez-MartinezLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York, USA.
Mary K ThompsonLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York, USA.
Yinyin LiLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, New York, USA.
Qing Jun Wang
Andrej SaliDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, USA.
Michael P RoutLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York, USA.
Brian T ChaitLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, New York, USA.

Funding

TR&D Project 4. The Imaging Stage: Multiscale Spatiotemporal Modeling of Macromolecular Systems in Cellular NeighborhoodsP41GM109824 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2014 to 2023
$18.8M
National Resource for Mass Spectrom of Biological MacromoleculesP41GM103314 · NIGMS · ROCKEFELLER UNIVERSITY · PI CHAIT, BRIAN T · 2012 to 2017
$9.9M
New Tools for Exploring the Dynamic Interactome (Renewal)U54GM103511 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2012 to 2013
$6.2M
IMP: Software for Hybrid Determination of Macromolecular Assembly StructuresR01GM083960 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2008 to 2024
$5.2M
NIGMS NIH HHS P41 GM103314NIGMS NIH HHS P41 GM109824NIGMS NIH HHS R01 GM083960NIGMS NIH HHS U54 GM103511
6 · The paper itself

Abstract

It remains particularly problematic to define the structures of native macromolecular assemblies, which are often of low abundance. Here we present a strategy for isolating complexes at endogenous levels from GFP-tagged transgenic cell lines. Using cross-linking mass spectrometry, we extracted distance restraints that allowed us to model the complexes' molecular architectures.

Indexed as

Models, MolecularProtein ConformationAnimalsCross-Linking ReagentsElectrophoresis, Polyacrylamide GelExosomesGreen Fluorescent ProteinsLiverMass SpectrometryMice, TransgenicMultiprotein ComplexesSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsSensitivity and SpecificityCross-Linking ReagentsGreen Fluorescent ProteinsMultiprotein ComplexesSaccharomyces cerevisiae Proteins

Identifiers

PMID26436480
PMCPMC4803312

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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.