5IJN

Composite structure of the inner ring of the human nuclear pore complex (32 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 1.4 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: 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 ...

    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. Cell Biology and Biophysics Unit, EMBL, Heidelberg, Germany.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEAR PORE COMPLEX PROTEIN NUP155
A, B, E, K, Q, W
A, B, E, K, Q, W
1391Homo sapiensMutation(s): 0 
Gene Names: NUP155KIAA0791
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PHAROS:  O75694
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UniProt GroupO75694
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEAR PORE COMPLEX PROTEIN NUP93C, I, O, U819Homo sapiensMutation(s): 0 
Gene Names: NUP93KIAA0095
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PHAROS:  Q8N1F7
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEAR PORE COMPLEX PROTEIN NUP205D, J, P, V2012Homo sapiensMutation(s): 0 
Gene Names: NUP205C7orf14KIAA0225
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEAR PORE COMPLEX PROTEIN NUP54F, L, R, X507Homo sapiensMutation(s): 0 
Gene Names: NUP54
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEAR PORE COMPLEX PROTEIN NUP58G, M, S, Y599Homo sapiensMutation(s): 0 
Gene Names: NUP58KIAA0410NUPL1
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Nuclear pore glycoprotein p62H, N, T, Z522Homo sapiensMutation(s): 0 
Gene Names: NUP62
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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

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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: 2017-08-02
    Changes: Data collection
  • Version 1.2: 2017-09-20
    Changes: Database references
  • Version 1.3: 2018-10-03
    Changes: Advisory, Data collection, Derived calculations
  • Version 1.4: 2019-12-11
    Changes: Other