5CWW

Crystal structure of the Chaetomium thermophilum heterotrimeric Nup82 NTD-Nup159 TAIL-Nup145N APD complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.186 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Architecture of the fungal nuclear pore inner ring complex.

Stuwe, T.Bley, C.J.Thierbach, K.Petrovic, S.Schilbach, S.Mayo, D.J.Perriches, T.Rundlet, E.J.Jeon, Y.E.Collins, L.N.Huber, F.M.Lin, D.H.Paduch, M.Koide, A.Lu, V.Fischer, J.Hurt, E.Koide, S.Kossiakoff, A.A.Hoelz, A.

(2015) Science 350: 56-64

  • DOI: https://doi.org/10.1126/science.aac9176
  • Primary Citation of Related Structures:  
    4JNU, 4JNV, 4JO7, 4JO9, 4JQ5, 5CWS, 5CWT, 5CWU, 5CWV, 5CWW

  • PubMed Abstract: 

    The nuclear pore complex (NPC) constitutes the sole gateway for bidirectional nucleocytoplasmic transport. We present the reconstitution and interdisciplinary analyses of the ~425-kilodalton inner ring complex (IRC), which forms the central transport channel and diffusion barrier of the NPC, revealing its interaction network and equimolar stoichiometry. The Nsp1•Nup49•Nup57 channel nucleoporin heterotrimer (CNT) attaches to the IRC solely through the adaptor nucleoporin Nic96. The CNT•Nic96 structure reveals that Nic96 functions as an assembly sensor that recognizes the three-dimensional architecture of the CNT, thereby mediating the incorporation of a defined CNT state into the NPC. We propose that the IRC adopts a relatively rigid scaffold that recruits the CNT to primarily form the diffusion barrier of the NPC, rather than enabling channel dilation.


  • Organizational Affiliation

    California Institute of Technology, Division of Chemistry and Chemical Engineering, 1200 East California Boulevard, Pasadena, CA 91125, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin NUP145N140Thermochaetoides thermophila DSM 1495Mutation(s): 0 
Gene Names: NUP145CTHT_0042590
EC: 3.4.21
UniProt
Find proteins for G0SAK3 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Explore G0SAK3 
Go to UniProtKB:  G0SAK3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG0SAK3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin NUP82595Thermochaetoides thermophila DSM 1495Mutation(s): 0 
Gene Names: NUP82CTHT_0022610
UniProt
Find proteins for G0S4F3 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Explore G0S4F3 
Go to UniProtKB:  G0S4F3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG0S4F3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin NUP15932Thermochaetoides thermophila DSM 1495Mutation(s): 0 
Gene Names: NUP159CTHT_0054650
UniProt
Find proteins for G0SBS8 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Explore G0SBS8 
Go to UniProtKB:  G0SBS8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG0SBS8
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.186 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 122.3α = 90
b = 107.96β = 108.65
c = 69.59γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01-GM111461
V Foundation for Cancer ResearchUnited StatesAlbert Wyrick V Scholar Award
Edward Mallinckrodt Jr. FoundationUnited States54th Mallinckrodt Scholar Award
Sidney Kimmel Foundation for Cancer ResearchUnited StatesKimmel Scholar Award
The Camille & Henry Dreyfus FoundationUnited StatesCamille-Dreyfus Teacher Scholar

Revision History  (Full details and data files)

  • Version 1.0: 2015-09-16
    Type: Initial release
  • Version 1.1: 2015-10-14
    Changes: Database references
  • Version 1.2: 2016-07-20
    Changes: Data collection
  • Version 1.3: 2017-09-27
    Changes: Author supporting evidence, Derived calculations
  • Version 1.4: 2019-12-25
    Changes: Author supporting evidence
  • Version 1.5: 2024-03-06
    Changes: Data collection, Database references