9A25 | pdb_00009a25

Molecular assembly pathway of the human Nuclear Pore Complex after cell division

Integrative structure models are generated using different types of input information, including varied experimental data, physical principles, statistical preferences, and other prior information.


Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: Yes 
  • Ordered-State: Yes 
  • Deposited Models: 6 
  • Representative Model: 6 

This is version 1.0 of the entry. See complete history


Literature

A quantitative map of nuclear pore assembly reveals two distinct mechanisms

Otsuka, S.Tempkin, J. O. B.Zhang, W.Politi, A. Z.Rybina, A.Hossain, J. M.Kueblbeck, M.Callegari, A.Koch, B.Sali, A.Ellenberg, J.

(2023) Nature 613: 575-581

  • DOI: https://doi.org/10.1038/s41586-022-05528-w
  • Primary Citation of Related Structures:  
    9A25

  • PubMed Abstract: 

    Understanding how the nuclear pore complex (NPC) is assembled is of fundamental importance to grasp the mechanisms behind its essential function and understand its role during the evolution of eukaryotes 1-4 . There are at least two NPC assembly pathways-one during the exit from mitosis and one during nuclear growth in interphase-but we currently lack a quantitative map of these events. Here we use fluorescence correlation spectroscopy calibrated live imaging of endogenously fluorescently tagged nucleoporins to map the changes in the composition and stoichiometry of seven major modules of the human NPC during its assembly in single dividing cells. This systematic quantitative map reveals that the two assembly pathways have distinct molecular mechanisms, in which the order of addition of two large structural components, the central ring complex and nuclear filaments are inverted. The dynamic stoichiometry data was integrated to create a spatiotemporal model of the NPC assembly pathway and predict the structures of postmitotic NPC assembly intermediates.


  • Organizational Affiliation
    • Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany. shotaro.otsuka@univie.ac.at.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nup43
380Homo sapiensMutation(s): 0 
Gene Names: NUP43
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PHAROS:  Q8NFH3
GTEx:  ENSG00000120253 
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UniProt GroupQ8NFH3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nup160
1,436Homo sapiensMutation(s): 0 
Gene Names: NUP160
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GTEx:  ENSG00000030066 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Nup37
326Homo sapiensMutation(s): 0 
Gene Names: NUP37
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PHAROS:  Q8NFH4
GTEx:  ENSG00000075188 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Nup133
1,156Homo sapiensMutation(s): 0 
Gene Names: NUP133
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GTEx:  ENSG00000069248 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Nup107
925Homo sapiensMutation(s): 0 
Gene Names: NUP107
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GTEx:  ENSG00000111581 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Nup96
1,817Homo sapiensMutation(s): 0 
Gene Names: NUP98
EC: 3.4.21
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GTEx:  ENSG00000110713 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
SEC13
322Homo sapiensMutation(s): 0 
Gene Names: SEC13
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GTEx:  ENSG00000157020 
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Entity ID: 8
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SEH1
360Homo sapiensMutation(s): 0 
Gene Names: SEH1L
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GTEx:  ENSG00000085415 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Nup85
656Homo sapiensMutation(s): 0 
Gene Names: NUP85
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GTEx:  ENSG00000125450 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Nup155
1,391Homo sapiensMutation(s): 0 
Gene Names: NUP155
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GTEx:  ENSG00000113569 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Nup93
819Homo sapiensMutation(s): 0 
Gene Names: NUP93
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GTEx:  ENSG00000102900 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Nup205
2,012Homo sapiensMutation(s): 0 
Gene Names: NUP205
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GTEx:  ENSG00000155561 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Nup188
1,749Homo sapiensMutation(s): 0 
Gene Names: NUP188
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GTEx:  ENSG00000095319 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
p54
507Homo sapiensMutation(s): 0 
Gene Names: NUP54
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GTEx:  ENSG00000138750 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
p58
599Homo sapiensMutation(s): 0 
Gene Names: NUP58
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GTEx:  ENSG00000139496 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
p62
522Homo sapiensMutation(s): 0 
Gene Names: NUP62
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GTEx:  ENSG00000213024 
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Experimental Data & Validation

Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: Yes 
  • Ordered-State: Yes 
  • Deposited Models: 6 
  • Representative Model: 6 

Structure Validation

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View Summary Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-19
    Type: Initial release