Evidence map›Paper›PMID 22331846›Full record

ArticleThe Journal of cell biology2012

Structure-function mapping of a heptameric module in the nuclear pore complex.

Javier Fernandez-Martinez, Jeremy Phillips, Matthew D Sekedat, Ruben Diaz-Avalos, Javier Velazquez-Muriel, Josef D Franke, Rosemary Williams, David L Stokes, Brian T Chait, Andrej Sali and 1 more

Abstract read
In one paragraph

Article in The Journal of cell biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers.

0numbers the graph read from it
0cells of the map it votes in
79citing 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

79 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Identification of divergentbioRxiv : the preprint server for biology · 2025
    Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. The Molecular Architecture of the Nuclear Basket.bioRxiv : the preprint server for biology · 2024
    Article
  10. Article
  11. Article
  12. Review
  13. Article
  14. Article
  15. Review
  16. Article
  17. Article
  18. Review
  19. Article
  20. Article

19 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

11 authors.

Javier Fernandez-MartinezLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, NY 10065, USA.
Jeremy Phillips
Matthew D Sekedat
Ruben Diaz-Avalos
Javier Velazquez-Muriel
Josef D Franke
Rosemary Williams
David L Stokes
Brian T Chait
Andrej Sali
Michael P Rout

Funding

NEW TOOLS FOR EXPLORING THE DYNAMIC INTERACTOME(RMI)U54RR022220 · NCRR · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2005 to 2011
$19.3M
YNG1 PHD BINDING TO H3 3METHYL AT K4 PROMOTES TRANSCRIPTION AT TARGETED ORFSP41RR000862 · NCRR · ROCKEFELLER UNIVERSITY · PI DARNELL, JAMES E · 1985 to 2011
$16.1M
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
Virtual Gating Machines for Protein PurificationR01GM071329 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2004 to 2013
$4.6M
Nucleocytoplasmic transport: a target for cellular controlU01GM098256 · NIGMS · ROCKEFELLER UNIVERSITY · PI AITCHISON, JOHN D., ROUT, MICHAEL P · 2011 to 2014
$3.0M
DISSECTING THE MOLECULAR MACHINERY OF NUCLEAR TRANSPORTR01GM062427 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2001 to 2010
$2.7M
Protein Modeling by Satisfaction of Spatial RestraintsR01GM054762 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2001 to 2008
$2.1M
NCRR NIH HHS P41 RR000862NCRR NIH HHS RR00862NCRR NIH HHS U54 RR022220NIGMS NIH HHS R01 GM054762NIGMS NIH HHS R01 GM062427NIGMS NIH HHS R01 GM071329NIGMS NIH HHS R01 GM083960NIGMS NIH HHS R01 GM54762NIGMS NIH HHS R01 GM62427NIGMS NIH HHS U01 GM098256NIGMS NIH HHS U54 GM103511
6 · The paper itself

Abstract

The nuclear pore complex (NPC) is a multiprotein assembly that serves as the sole mediator of nucleocytoplasmic exchange in eukaryotic cells. In this paper, we use an integrative approach to determine the structure of an essential component of the yeast NPC, the ~600-kD heptameric Nup84 complex, to a precision of ~1.5 nm. The configuration of the subunit structures was determined by satisfaction of spatial restraints derived from a diverse set of negative-stain electron microscopy and protein domain-mapping data. Phenotypic data were mapped onto the complex, allowing us to identify regions that stabilize the NPC's interaction with the nuclear envelope membrane and connect the complex to the rest of the NPC. Our data allow us to suggest how the Nup84 complex is assembled into the NPC and propose a scenario for the evolution of the Nup84 complex through a series of gene duplication and loss events. This work demonstrates that integrative approaches based on low-resolution data of sufficient quality can generate functionally informative structures at intermediate resolution.

Indexed as

Models, MolecularNuclear PoreNuclear Pore Complex ProteinsProtein ConformationProtein Structure, TertiarySaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsSequence DeletionStructure-Activity RelationshipNuclear Pore Complex ProteinsNUP84 protein, S cerevisiaeSaccharomyces cerevisiae Proteins

Identifiers

PMID22331846
PMCPMC3283990

What OpenQuestion holds

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LicenceCC BY-NC-SA
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.