5IJO

Alternative composite structure of the inner ring of the human nuclear pore complex (16 copies of Nup188, 16 copies of Nup205)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 21.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Molecular architecture of the inner ring scaffold of the human nuclear pore complex.

Kosinski, J.Mosalaganti, S.von Appen, A.Teimer, R.DiGuilio, A.L.Wan, W.Bui, K.H.Hagen, W.J.Briggs, J.A.Glavy, J.S.Hurt, E.Beck, M.

(2016) Science 352: 363-365

  • DOI: https://doi.org/10.1126/science.aaf0643
  • Primary Citation of Related Structures:  
    5IJN, 5IJO

  • PubMed Abstract: 

    Nuclear pore complexes (NPCs) are 110-megadalton assemblies that mediate nucleocytoplasmic transport. NPCs are built from multiple copies of ~30 different nucleoporins, and understanding how these nucleoporins assemble into the NPC scaffold imposes a formidable challenge. Recently, it has been shown how the Y complex, a prominent NPC module, forms the outer rings of the nuclear pore. However, the organization of the inner ring has remained unknown until now. We used molecular modeling combined with cross-linking mass spectrometry and cryo-electron tomography to obtain a composite structure of the inner ring. This architectural map explains the vast majority of the electron density of the scaffold. We conclude that despite obvious differences in morphology and composition, the higher-order structure of the inner and outer rings is unexpectedly similar.


  • Organizational Affiliation

    Structural and Computational Biology Unit, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear pore complex protein Nup155
A, B, E, K, Q
A, B, E, K, Q, W
1,391Homo sapiensMutation(s): 0 
Gene Names: NUP155KIAA0791
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PHAROS:  O75694
GTEx:  ENSG00000113569 
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UniProt GroupO75694
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear pore complex protein Nup93
C, I, O, U
819Homo sapiensMutation(s): 0 
Gene Names: NUP93KIAA0095
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PHAROS:  Q8N1F7
GTEx:  ENSG00000102900 
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UniProt GroupQ8N1F7
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear pore complex protein Nup205
D, P
2,012Homo sapiensMutation(s): 0 
Gene Names: NUP205C7orf14KIAA0225
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GTEx:  ENSG00000155561 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin p54
F, L, R, X
507Homo sapiensMutation(s): 0 
Gene Names: NUP54
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GTEx:  ENSG00000138750 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin p58/p45
G, M, S, Y
599Homo sapiensMutation(s): 0 
Gene Names: NUP58KIAA0410NUPL1
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GTEx:  ENSG00000139496 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear pore glycoprotein p62
H, N, T, Z
522Homo sapiensMutation(s): 0 
Gene Names: NUP62
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GTEx:  ENSG00000213024 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin NUP188 homolog
J, V
1,749Homo sapiensMutation(s): 0 
Gene Names: NUP188KIAA0169
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PHAROS:  Q5SRE5
GTEx:  ENSG00000095319 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 21.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research CouncilGermany30921

Revision History  (Full details and data files)

  • Version 1.0: 2016-04-27
    Type: Initial release
  • Version 1.1: 2017-09-20
    Changes: Data collection, Database references
  • Version 1.2: 2018-10-03
    Changes: Advisory, Data collection, Derived calculations
  • Version 1.3: 2019-12-11
    Changes: Other