Evidence map›Paper›PMID 34982960›Full record

ArticleCell2022

Comprehensive structure and functional adaptations of the yeast nuclear pore complex.

Christopher W Akey, Digvijay Singh, Christna Ouch, Ignacia Echeverria, Ilona Nudelman, Joseph M Varberg, Zulin Yu, Fei Fang, Yi Shi, Junjie Wang and 13 more

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 110 papers.

0numbers the graph read from it
0cells of the map it votes in
110citing papers in PubMed
15.3field-weighted citation impact, top 1% 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

110 citing papers in PubMed, 185 citations in OpenAlex.

  1. Article
  2. Building peroxisomes: perspectives on plant peroxins.Biochemical Society transactions · 2026
    Review
  3. Review
  4. Article
  5. Article
  6. Article
  7. Review
  8. Article
  9. Article
  10. Review
  11. Article
  12. Structure, function and assembly of nuclear pore complexes.Nature reviews. Molecular cell biology · 2026
    Review
  13. Article
  14. Article
  15. Article
  16. Viral interference of nucleocytoplasmic transport.The Journal of biological chemistry · 2025
    Review
  17. Article
  18. Review
  19. Article
  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

23 authors at 10 institutions in 1 country.

Christopher W AkeyDepartment of Physiology and Biophysics, Boston University School of Medicine, 700 Albany Street, Boston, MA 02118, USA. Electronic address: cakey@bu.edu.
Digvijay SinghSection of Molecular Biology, Division of Biological Sciences, University of California San Diego, La Jolla, CA 92093, USA.
Christna OuchDepartment of Physiology and Biophysics, Boston University School of Medicine, 700 Albany Street, Boston, MA 02118, USA; Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street, Worcester, MA 01605, USA.
Ignacia EcheverriaDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA; Department of Cellular and Molecular Pharmacology, San Francisco, San Francisco, CA 94158, USA.
Ilona NudelmanLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, NY 10065, USA.
Joseph M VarbergStowers Institute for Medical Research, Kansas City, MO, USA.
Zulin YuStowers Institute for Medical Research, Kansas City, MO, USA.
Fei FangDepartment of Cell Biology, University of Pittsburgh, Pittsburgh, PA, USA.
Yi ShiDepartment of Cell Biology, University of Pittsburgh, Pittsburgh, PA, USA.
Junjie WangLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, USA.
Daniel SalzbergDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Kangkang SongDepartment of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street, Worcester, MA 01605, USA.
Chen XuDepartment of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street, Worcester, MA 01605, USA.
James C GumbartSchool of Physics, Georgia Institute of Technology, Atlanta, GA 30332, USA.
Sergey SuslovSection of Molecular Biology, Division of Biological Sciences, University of California San Diego, La Jolla, CA 92093, USA.
Jay UnruhStowers Institute for Medical Research, Kansas City, MO, USA.
Sue L JaspersenStowers Institute for Medical Research, Kansas City, MO, USA; Department of Molecular and Integrative Physiology, University of Kansas Medical Center, Kansas City, KS, USA.
Brian T ChaitLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, USA.
Andrej SaliDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA; Quantitative Biosciences Institute, University of California San Francisco, San Francisco, CA 94158, USA; Department of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, CA 94158, USA.
Javier Fernandez-MartinezLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, NY 10065, USA. Electronic address: jfernandez@rockefeller.edu.
Steven J LudtkeVerna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, 1 Baylor Plaza, Houston, Texas 77030, USA. Electronic address: sludtke@bcm.edu.
Elizabeth VillaSection of Molecular Biology, Division of Biological Sciences, University of California San Diego, La Jolla, CA 92093, USA; Howard Hughes Medical Institute, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: evilla@ucsd.edu.
Michael P RoutLaboratory of Cellular and Structural Biology, The Rockefeller University, New York, NY 10065, USA. Electronic address: rout@rockefeller.edu.
Rockefeller University · USStowers Institute for Medical Research · USUniversity of California, San Francisco · USBoston University · USUniversity of California San Diego · USUniversity of Massachusetts Chan Medical School · USUniversity of Pittsburgh · USBaylor College of Medicine · USGeorgia Institute of Technology · USHoward Hughes Medical Institute · US

Funding

TR&D Project 4. The Imaging Stage: Multiscale Spatiotemporal Modeling of Macromolecular Systems in Cellular NeighborhoodsP41GM109824 · NIGMS · ROCKEFELLER UNIVERSITY · PI CHAIT, BRIAN T · 2014 to 2023
$18.8M
Structure-Function Mapping of the Nuclear Pore Complex-RenewalR01GM112108 · NIGMS · ROCKEFELLER UNIVERSITY · PI JOHN D. AITCHISON, MICHAEL P ROUT · 2015 to 2026
$9.1M
The Structural Basis of Protein BiogenesisR01GM045377 · NIGMS · BOSTON UNIVERSITY MEDICAL CAMPUS · PI AKEY, CHRISTOPHER W · 1991 to 2023
$6.4M
SUPPORT AND DEVELOPMENT OF EMAN FOR ELECTRON MICROSCOPY IMAGE PROCESSINGR01GM080139 · NIGMS · BAYLOR COLLEGE OF MEDICINE · PI LUDTKE, STEVEN J · 2006 to 2022
$5.4M
IMP: Software for Hybrid Determination of Macromolecular Assembly StructuresR01GM083960 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2008 to 2024
$5.2M
The dynamic mechanism of nuclear transport visualized at the atomic scaleR01GM117212 · NIGMS · ALBERT EINSTEIN COLLEGE OF MEDICINE, INC · PI COWBURN, DAVID · 2016 to 2023
$3.7M
Opening Windows into the Cell: Revealing the Molecular Architecture of the Nuclear PeripheryDP2GM123494 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI VILLA, ELIZABETH · 2016 to 2019
$2.5M
Tools for Quantitative Analysis of Complex Systems in CryoETP01GM121203 · NIGMS · SANFORD BURNHAM PREBYS MEDICAL DISCOVERY INSTITUTE · PI VOLKMANN, NIELS · 2018 to 2019
$1.9M
Defining the mechanisms of nuclear pore complex assembly in fission yeastF32GM133096 · NIGMS · STOWERS INSTITUTE FOR MEDICAL RESEARCH · PI VARBERG, JOSEPH M · 2020 to 2021
$85k
NIGMS NIH HHS DP2 GM123494NIGMS NIH HHS F32 GM133096NIGMS NIH HHS P01 GM121203NIGMS NIH HHS P41 GM109824NIGMS NIH HHS R01 GM045377NIGMS NIH HHS R01 GM080139NIGMS NIH HHS R01 GM083960NIGMS NIH HHS R01 GM112108NIGMS NIH HHS R01 GM117212
6 · The paper itself

Abstract

Nuclear pore complexes (NPCs) mediate the nucleocytoplasmic transport of macromolecules. Here we provide a structure of the isolated yeast NPC in which the inner ring is resolved by cryo-EM at sub-nanometer resolution to show how flexible connectors tie together different structural and functional layers. These connectors may be targets for phosphorylation and regulated disassembly in cells with an open mitosis. Moreover, some nucleoporin pairs and transport factors have similar interaction motifs, which suggests an evolutionary and mechanistic link between assembly and transport. We provide evidence for three major NPC variants that may foreshadow functional specializations at the nuclear periphery. Cryo-electron tomography extended these studies, providing a model of the in situ NPC with a radially expanded inner ring. Our comprehensive model reveals features of the nuclear basket and central transporter, suggests a role for the lumenal Pom152 ring in restricting dilation, and highlights structural plasticity that may be required for transport.

Indexed as

Adaptation, PhysiologicalAmino Acid MotifsAmino Acid SequenceFluorescenceMolecular Docking SimulationNuclear EnvelopeNuclear PoreNuclear Pore Complex ProteinsProtein DomainsReproducibility of ResultsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsNuclear Pore Complex ProteinsSaccharomyces cerevisiae Proteinscryo-electron microscopycryo-electron tomographyinner ring dilationNPC evolutionnuclear basketNuclear pore complexnucleocytoplasmic transportnucleoporinsstructural isoforms

Identifiers

PMID34982960
PMCPMC8928745
OpenAlexW4220942300

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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.