Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - ABCD 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 225181.86 
• Atom Count: 14979 
• Residue Count: 1984 
• Unique protein chains: 4

5DIS

Crystal structure of a CRM1-RanGTP-SPN1 export complex bound to a 113 amino acid FG-repeat containing fragment of Nup214

• DOI: 10.2210/pdb5DIS/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens, Escherichia coli (strain K12)
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 2015-09-01 Released: 2015-11-04 
• Deposition Author(s): Monecke, T., Port, S.A., Dickmanns, A., Kehlenbach, R.H., Ficner, R.
• Funding Organization(s): DFG 

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.85 Å
• R-Value Free: 0.249 
• R-Value Work: 0.206 

Literature

Structural and Functional Characterization of CRM1-Nup214 Interactions Reveals Multiple FG-Binding Sites Involved in Nuclear Export.

Port, S.A., Monecke, T., Dickmanns, A., Spillner, C., Hofele, R., Urlaub, H., Ficner, R., Kehlenbach, R.H.

(2015) Cell Rep 13: 690-702

• PubMed: 26489467 
• DOI: 10.1016/j.celrep.2015.09.042


• PubMed Abstract: 
  

CRM1 is the major nuclear export receptor. During translocation through the nuclear pore, transport complexes transiently interact with phenylalanine-glycine (FG) repeats of multiple nucleoporins. On the cytoplasmic side of the nuclear pore, CRM1 tightly interacts with the nucleoporin Nup214. Here, we present the crystal structure of a 117-amino-acid FG-repeat-containing fragment of Nup214, in complex with CRM1, Snurportin 1, and RanGTP at 2.85 Å resolution. The structure reveals eight binding sites for Nup214 FG motifs on CRM1, with intervening stretches that are loosely attached to the transport receptor. Nup214 binds to N- and C-terminal regions of CRM1, thereby clamping CRM1 in a closed conformation and stabilizing the export complex. The role of conserved hydrophobic pockets for the recognition of FG motifs was analyzed in biochemical and cell-based assays. Comparative studies with RanBP3 and Nup62 shed light on specificities of CRM1-nucleoporin binding, which serves as a paradigm for transport receptor-nucleoporin interactions.

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Related Citations: 

• Combining dehydration, construct optimization and improved data collection to solve the crystal structure of a CRM1-RanGTP-SPN1-Nup214 quaternary export complex
  Monecke, T.,Dickmanns, A.,Weiss, M.S.,Port, S.A.,Kehlenbach, R.H.,Ficner, R.
  () TO BE PUBLISHED --: --




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Organizational Affiliation: 

Department of Molecular Biology, Faculty of Medicine, GZMB, Georg-August-University Göttingen, Humboldtallee 23, 37073 Göttingen, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Exportin-1	A	1044	Homo sapiens	Mutation(s): 0  Gene Names: XPO1 (CRM1)
Find proteins for O14980 (Homo sapiens) Go to Gene View: XPO1 Go to UniProtKB:  O14980

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
GTP-binding nuclear protein Ran	B	172	Homo sapiens	Mutation(s): 1  Gene Names: RAN (ARA24)
Find proteins for P62826 (Homo sapiens) Go to Gene View: RAN Go to UniProtKB:  P62826

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Snurportin-1	C	289	Homo sapiens	Mutation(s): 0  Gene Names: SNUPN (RNUT1, SPN1)
Find proteins for O95149 (Homo sapiens) Go to Gene View: SNUPN Go to UniProtKB:  O95149

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
Maltose-binding periplasmic protein,Nuclear pore complex protein Nup214	D	479	Escherichia coli (strain K12), Homo sapiens This entity is chimeric	Mutation(s): 0  Gene Names: malE, NUP214 (CAIN, CAN, KIAA0023)
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Go to UniProtKB:  P0AEX9
Find proteins for P35658 (Homo sapiens) Go to Gene View: NUP214 Go to UniProtKB:  P35658

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MAL	A	MALTOSE C12 H22 O11 GUBGYTABKSRVRQ-ASMJPISFSA-N
GTP	B	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
MG	B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
PRO	A, C	PROLINE C5 H9 N O2 ONIBWKKTOPOVIA-BYPYZUCNSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.85 Å
• R-Value Free: 0.249 
• R-Value Work: 0.206 
• Space Group: C 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 112.330	α = 90.00
b = 248.970	β = 90.00
c = 210.570	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
PHASER	phasing
XDS	data reduction
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2015-09-01 
• Released Date: 2015-11-04 
• Deposition Author(s): Monecke, T., Port, S.A., Dickmanns, A., Kehlenbach, R.H., Ficner, R.

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Funding Organization	Location	Grant Number
DFG	Germany	SFB860

Revision History 

• Version 1.0: 2015-11-04
  Type: Initial release