3ZJY

Crystal Structure of Importin 13 - RanGTP - eIF1A complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.256 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural Basis for the Nuclear Export Activity of Importin13.

Grunwald, M.Lazzaretti, D.Bono, F.

(2013) Embo J. 32: 899

  • DOI: 10.1038/emboj.2013.29
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Importin13 (Imp13) is a bidirectional karyopherin that can mediate both import and export of cargoes. Imp13 recognizes several import cargoes, which include the exon junction complex components Mago-Y14 and the E2 SUMO-conjugating enzyme Ubc9, and on ...

    Importin13 (Imp13) is a bidirectional karyopherin that can mediate both import and export of cargoes. Imp13 recognizes several import cargoes, which include the exon junction complex components Mago-Y14 and the E2 SUMO-conjugating enzyme Ubc9, and one known export cargo, the translation initiation factor 1A (eIF1A). To understand how Imp13 can perform double duty, we determined the 3.6-Å crystal structure of Imp13 in complex with RanGTP and with eIF1A. eIF1A binds at the inner surface of the Imp13 C-terminal arch adjacent and concomitantly to RanGTP illustrating how eIF1A can be exported by Imp13. Moreover, the 3.0-Å structure of Imp13 in its unbound state reveals the existence of an open conformation in the cytoplasm that explains export cargo release and completes the export branch of the Imp13 pathway. Finally, we demonstrate that Imp13 is able to bind and export eIF1A in vivo and that its function is essential.


    Organizational Affiliation

    Max Planck Institute for Developmental Biology, Tübingen, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GTP-BINDING NUCLEAR PROTEIN RAN
A, D, F
180Homo sapiensMutation(s): 1 
Gene Names: RAN (ARA24)
Find proteins for P62826 (Homo sapiens)
Go to Gene View: RAN
Go to UniProtKB:  P62826
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
IMPORTIN-13
B, E, G
963Homo sapiensMutation(s): 0 
Gene Names: IPO13 (KIAA0724, RANBP13)
Find proteins for O94829 (Homo sapiens)
Go to Gene View: IPO13
Go to UniProtKB:  O94829
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
EUKARYOTIC TRANSLATION INITIATION FACTOR 1A, X-CHROMOSOMAL
C
112Homo sapiensMutation(s): 0 
Gene Names: EIF1AX (EIF1A, EIF4C)
Find proteins for P47813 (Homo sapiens)
Go to Gene View: EIF1AX
Go to UniProtKB:  P47813
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download SDF File 
Download CCD File 
A, D, F
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, D, F
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.256 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 186.500α = 90.00
b = 100.400β = 90.91
c = 274.720γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-10
    Type: Initial release