5TVZ

Solution NMR structure of Saccharomyces cerevisiae Pom152 Ig-like repeat, residues 718-820


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 2048 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex.

Upla, P.Kim, S.J.Sampathkumar, P.Dutta, K.Cahill, S.M.Chemmama, I.E.Williams, R.Bonanno, J.B.Rice, W.J.Stokes, D.L.Cowburn, D.Almo, S.C.Sali, A.Rout, M.P.Fernandez-Martinez, J.

(2017) Structure 25: 434-445

  • DOI: https://doi.org/10.1016/j.str.2017.01.006
  • Primary Citation of Related Structures:  
    5TVZ

  • PubMed Abstract: 

    The membrane ring that equatorially circumscribes the nuclear pore complex (NPC) in the perinuclear lumen of the nuclear envelope is composed largely of Pom152 in yeast and its ortholog Nup210 (or Gp210) in vertebrates. Here, we have used a combination of negative-stain electron microscopy, nuclear magnetic resonance, and small-angle X-ray scattering methods to determine an integrative structure of the ∼120 kDa luminal domain of Pom152. Our structural analysis reveals that the luminal domain is formed by a flexible string-of-pearls arrangement of nine repetitive cadherin-like Ig-like domains, indicating an evolutionary connection between NPCs and the cell adhesion machinery. The 16 copies of Pom152 known to be present in the yeast NPC are long enough to form the observed membrane ring, suggesting how interactions between Pom152 molecules help establish and maintain the NPC architecture.


  • Organizational Affiliation

    Skirball Institute and Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA; Laboratory of Cellular and Structural Biology, The Rockefeller University, Box 213, 1230 York Avenue, New York, NY 10065, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoporin POM152114Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: POM152
UniProt
Find proteins for P39685 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P39685 
Go to UniProtKB:  P39685
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39685
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 2048 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

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 GM112108
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41 GM109824
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU54 GM103511
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM 117212
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU54 GM074945
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU54 GM094662

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-22
    Type: Initial release
  • Version 1.1: 2017-03-29
    Changes: Database references
  • Version 1.2: 2017-09-27
    Changes: Author supporting evidence
  • Version 1.3: 2020-01-01
    Changes: Author supporting evidence
  • Version 1.4: 2023-06-14
    Changes: Database references, Other