Structure of the D23A mutant of the nuclear transport carrier NTF2

Experimental Data Snapshot

  • Resolution: 2.50 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 

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Computational and biochemical identification of a nuclear pore complex binding site on the nuclear transport carrier NTF2.

Cushman, I.Bowman, B.R.Sowa, M.E.Lichtarge, O.Quiocho, F.A.Moore, M.S.

(2004) J Mol Biol 344: 303-310

  • DOI: https://doi.org/10.1016/j.jmb.2004.09.043
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Nuclear transport carriers interact with proteins of the nuclear pore complex (NPC) to transport their cargo across the nuclear envelope. One such carrier is nuclear transport factor 2 (NTF2), whose import cargo is the small GTPase Ran. A domain highly homologous to the small NTF2 protein (14kDa) is also found in a number of additional proteins, which together make up the NTF2 domain containing superfamily of proteins. Using structural, computational and biochemical analysis we have identified a functional site that is present throughout this superfamily, and our results indicate that this site functions as an NPC binding site in NTF2. Previously we showed that a D23A mutant of NTF2 exhibits increased affinity for the NPC. The mechanism of this mutation, however, was unknown as this region of NTF2 had not been implicated in binding to NPC proteins. Here we show that the D23A mutation in NTF2 does not result in gross structural changes affecting other known NPC binding sites. Instead, the D23 residue is located in an evolutionarily important region in the NTF2 domain containing superfamily, that in NTF2, is involved in binding to the NPC.

  • Organizational Affiliation

    Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA. ian.cushman@duke.edu

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear transport factor 2
A, B
127Rattus norvegicusMutation(s): 1 
Gene Names: Nutf2Ntf2
Find proteins for P61972 (Rattus norvegicus)
Explore P61972 
Go to UniProtKB:  P61972
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP61972
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.50 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.847α = 90
b = 56.917β = 90
c = 85.949γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-12-07
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2014-09-10
    Changes: Database references
  • Version 1.4: 2021-10-20
    Changes: Database references
  • Version 1.5: 2024-02-14
    Changes: Data collection