2Y8G

Structure of the Ran-binding domain from human RanBP3 (E352A-R353V double mutant)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.61 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.149 

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This is version 1.2 of the entry. See complete history. 


Literature

Insights Into the Function of the Crm1 Cofactor Ranbp3 from the Structure of its Ran-Binding Domain

Langer, K., Dian, C., Rybin, V., Muller, C.W., Petosa, C.

(2011) PLoS One 6: 17011

  • DOI: 10.1371/journal.pone.0017011
  • Primary Citation of Related Structures:  
    2Y8F, 2Y8G

  • PubMed Abstract: 

    • Proteins bearing a leucine-rich nuclear export signal (NES) are exported from the nucleus by the transport factor CRM1, which forms a cooperative ternary complex with the NES-bearing cargo and with the small GTPase Ran. CRM1-mediated export is regulated by RanBP3, a Ran-interacting nuclear protein ...

    Proteins bearing a leucine-rich nuclear export signal (NES) are exported from the nucleus by the transport factor CRM1, which forms a cooperative ternary complex with the NES-bearing cargo and with the small GTPase Ran. CRM1-mediated export is regulated by RanBP3, a Ran-interacting nuclear protein. Unlike the related proteins RanBP1 and RanBP2, which promote disassembly of the export complex in the cytosol, RanBP3 acts as a CRM1 cofactor, enhancing NES export by stabilizing the export complex in the nucleus. RanBP3 also alters the cargo selectivity of CRM1, promoting recognition of the NES of HIV-1 Rev and of other cargos while deterring recognition of the import adaptor protein Snurportin1. Here we report the crystal structure of the Ran-binding domain (RBD) from RanBP3 and compare it to RBD structures from RanBP1 and RanBP2 in complex with Ran and CRM1. Differences among these structures suggest why RanBP3 binds Ran with unusually low affinity, how RanBP3 modulates the cargo selectivity of CRM1, and why RanBP3 promotes assembly rather than disassembly of the export complex. The comparison of RBD structures thus provides an insight into the functional diversity of Ran-binding proteins.

    Organizational Affiliation: 

    Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RAN-BINDING PROTEIN 3 A, B138Homo sapiensMutation(s): 2 
Gene Names: RANBP3
Find proteins for Q9H6Z4 (Homo sapiens)
Explore Q9H6Z4 
Go to UniProtKB:  Q9H6Z4
NIH Common Fund Data Resources
PHAROS:  Q9H6Z4
GTEx:  ENSG00000031823
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
Download Ideal Coordinates CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.61 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.149 
  • Space Group: P 31 2 1
  • Diffraction Data DOI: 10.15785/SBGRID/74 SBGrid
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.32α = 90
b = 61.32β = 90
c = 137.2γ = 120
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
SHELXDphasing
SHELXEphasing
PHENIXrefinement

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-02-16
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance