3GJX

Crystal Structure of the Nuclear Export Complex CRM1-Snurportin1-RanGTP

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.244 
  • R-Value Observed: 0.246 

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Literature

Crystal Structure of the Nuclear Export Receptor CRM1 in Complex with Snurportin1 and RanGTP.

Monecke, T., Guttler, T., Neumann, P., Dickmanns, A., Gorlich, D., Ficner, R.

(2009) Science 

  • DOI: 10.1126/science.1173388
  • Primary Citation of Related Structures:  
    3GJX

  • PubMed Abstract: 

    • CRM1 mediates nuclear export of numerous unrelated cargoes, which may carry a short leucine-rich nuclear export signal or export signatures that include folded domains. How CRM1 recognizes such a variety of cargoes has been unknown up to this point. Here we present the crystal structure of the SPN1 ...

    CRM1 mediates nuclear export of numerous unrelated cargoes, which may carry a short leucine-rich nuclear export signal or export signatures that include folded domains. How CRM1 recognizes such a variety of cargoes has been unknown up to this point. Here we present the crystal structure of the SPN1.CRM1.RanGTP export complex at 2.5 angstrom resolution (where SPN1 is snurportin1 and RanGTP is guanosine 5' triphosphate-bound Ran). SPN1 is a nuclear import adapter for cytoplasmically assembled, m(3)G-capped spliceosomal U snRNPs (small nuclear ribonucleoproteins). The structure shows how CRM1 can specifically return the cargo-free form of SPN1 to the cytoplasm. The extensive contact area includes five hydrophobic residues at the SPN1 amino terminus that dock into a hydrophobic cleft of CRM1, as well as numerous hydrophilic contacts of CRM1 to m(3)G cap-binding domain and carboxyl-terminal residues of SPN1. The structure suggests that RanGTP promotes cargo-binding to CRM1 solely through long-range conformational changes in the exportin.

    Organizational Affiliation: 

    Abteilung für Molekulare Strukturbiologie, Institut für Mikrobiologie und Genetik, GZMB, Georg-August-Universität Göttingen, Justus-von-Liebig-Weg 11, 37077 Göttingen, Germany.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Snurportin-1A [auth B],
D [auth E]		365Homo sapiensMutation(s): 0 
Gene Names: SNUPN, RNUT1, SPN1
UniProt & NIH Common Fund Data Resources
Find proteins for O95149 (Homo sapiens)
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Go to UniProtKB:  O95149
PHAROS:  O95149
GTEx:  ENSG00000169371 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO95149
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
GTP-binding nuclear protein RanB [auth C],
E [auth F]		216Homo sapiensMutation(s): 1 
Gene Names: RAN, ARA24, OK/SW-cl.81
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Find proteins for P62826 (Homo sapiens)
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Go to UniProtKB:  P62826
PHAROS:  P62826
GTEx:  ENSG00000132341 
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UniProt GroupP62826
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Exportin-1C [auth A],
F [auth D]		1073Mus musculusMutation(s): 0 
Gene Names: Xpo1, Crm1
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Find proteins for Q6P5F9 (Mus musculus)
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IMPC:  MGI:2144013
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UniProt GroupQ6P5F9
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP
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H [auth C],
L [auth F]		GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N		 Ligand Interaction
CL
Query on CL
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K [auth E]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M		 Ligand Interaction
MG
Query on MG
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I [auth C],
M [auth F]		MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
NA
Query on NA
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G [auth B],
J [auth E]		SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.244 
  • R-Value Observed: 0.246 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.173α = 90
b = 225.738β = 100.56
c = 163.451γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection
XDSdata reduction
PHENIXrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-05-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2021-11-10
    Changes: Database references, Derived calculations