Evidence map›Paper›PMID 41100670›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2025

Integrative mapping reveals molecular features underlying the mechanism of nucleocytoplasmic transport.

Barak Raveh, Roi Eliasian, Shaked Rashkovits, Daniel Russel, Ryo Hayama, Samuel Sparks, Digvijay Singh, Roderick Y H Lim, Elizabeth Villa, Michael P Rout and 2 more

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Integrative mapping reveals molecular features underlying the mechanism of nucleocytoplasmic transport.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  5. Article
  6. Review
  7. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors.

Barak RavehSchool of Computer Science and Engineering, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.ORCID 0000-0002-2073-3936
Roi EliasianSchool of Computer Science and Engineering, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
Shaked RashkovitsSchool of Computer Science and Engineering, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
Daniel RusselQuantitative Biosciences Institute, University of California, San Francisco, CA 94158.
Ryo HayamaLaboratory of Cellular and Structural Biology, The Rockefeller University, New York NY 10065.
Samuel SparksDepartments of Biochemistry and Systems and Computational Biology, Albert Einstein College of Medicine, Bronx, NY 10461.
Digvijay SinghSchool of Biological Sciences, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-7411-4436
Roderick Y H LimBiozentrum and the Swiss Nanoscience Institute, University of Basel, Basel 4056, Switzerland.ORCID 0000-0001-5015-6087
Elizabeth VillaSchool of Biological Sciences, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0003-4677-9809
Michael P RoutLaboratory of Cellular and Structural Biology, The Rockefeller University, New York NY 10065.ORCID 0000-0003-2010-706X
David CowburnDepartments of Biochemistry and Systems and Computational Biology, Albert Einstein College of Medicine, Bronx, NY 10461.ORCID 0000-0001-6770-7172
Andrej SaliQuantitative Biosciences Institute, University of California, San Francisco, CA 94158.ORCID 0000-0003-0435-6197

Funding

X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Lin Yang · 2019 to 2026
$38.6M
CHEETAH Center for the Structural Biology of HIV Infection, Restriction, and Viral DynamicsU54AI170856 · NIAID · UTAH STATE HIGHER EDUCATION SYSTEM--UNIVERSITY OF UTAH · PI Pamela J Bjorkman · 2022 to 2026
$34.4M
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
TrainingP41GM103712 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI FAEDER, JAMES · 2012 to 2021
$16.3M
Structure-Function Mapping of the Nuclear Pore Complex-RenewalR01GM112108 · NIGMS · ROCKEFELLER UNIVERSITY · PI JOHN D. AITCHISON, MICHAEL P ROUT · 2015 to 2026
$9.1M
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
Spatiotemporal mapping and engineering in the dark proteomeR35GM156806 · NIGMS · ALBERT EINSTEIN COLLEGE OF MEDICINE · PI DAVID COWBURN · 2025 to 2026
$1.2M
A Simultaneous SAXS/WAXS Detector System for Solving Biological StructuresS10OD012331 · OD · STATE UNIVERSITY NEW YORK STONY BROOK · PI ALLAIRE, MARC · 2012 to 2012
$1.1M
In situ imaging of the aging-induced structural and stoichiometric degradation of the nuclear pore complex and nuclear peripheryK99AG080112 · NIA · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI SINGH, DIGVIJAY · 2023 to 2024
$213k
NIAID NIH HHS U54 AI170856NIA NIH HHS K99 AG080112NIGMS NIH HHS DP2 GM123494NIGMS NIH HHS P30 GM133893NIGMS NIH HHS P41 GM103712NIGMS NIH HHS P41 GM109824NIGMS NIH HHS R01 GM083960NIGMS NIH HHS R01 GM112108NIGMS NIH HHS R01 GM117212NIGMS NIH HHS R35 GM156806NIH HHS S10 OD012331
6 · The paper itself

Abstract

Nuclear pore complexes (NPCs) enable rapid, selective, and robust nucleocytoplasmic transport. To explain how transport emerges from the system components and their interactions, we used experimental data and theoretical information to construct an integrative Brownian dynamics model of transport through an NPC, coupled to a kinetic model of transport in the cell. The model recapitulates key aspects of transport for a wide range of molecular cargoes, including preribosomes and viral capsids. Our model quantifies how flexible phenylalanine-glycine (FG) repeat proteins create an entropic barrier to passive diffusion and how this barrier is selectively lowered in facilitated diffusion by the many transient interactions of nuclear transport receptors with the FG repeats. Selective transport is enhanced by "fuzzy" multivalent interactions, redundant FG repeat mass, coupling to the energy-dependent RanGTP concentration gradient, and exponential dependence of transport kinetics on the transport barrier. Our model will facilitate rational modulation of the NPC and its artificial mimics.

Indexed as

Active Transport, Cell NucleusModels, BiologicalNuclear PoreDiffusionKineticsNuclear Pore Complex Proteinsran GTP-Binding ProteinNuclear Pore Complex Proteinsran GTP-Binding ProteinBrownian dynamics simulationsintegrative modelingnuclear pore complexnucleocytoplasmic transportspatiotemporal modeling

Identifiers

PMID41100670
PMCPMC12557478

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.