4M70

Crystal structure of potato Rx-CC domain in complex with RanGAP2-WPP domain

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.254 

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


Literature

Structural Basis for the Interaction between the Potato Virus X Resistance Protein (Rx) and Its Cofactor Ran GTPase-activating Protein 2 (RanGAP2)

Hao, W., Collier, S.M., Moffett, P., Chai, J.

(2013) J Biol Chem 288: 35868-35876

  • DOI: 10.1074/jbc.M113.517417
  • Primary Citation of Related Structures:  
    4M70

  • PubMed Abstract: 

    • The potato (Solanum tuberosum) disease resistance protein Rx has a modular arrangement that contains coiled-coil (CC), nucleotide-binding (NB), and leucine-rich repeat (LRR) domains and mediates resistance to potato virus X. The Rx N-terminal CC domain undergoes an intramolecular interaction with the Rx NB-LRR region and an intermolecular interaction with the Rx cofactor RanGAP2 (Ran GTPase-activating protein 2) ...

    The potato (Solanum tuberosum) disease resistance protein Rx has a modular arrangement that contains coiled-coil (CC), nucleotide-binding (NB), and leucine-rich repeat (LRR) domains and mediates resistance to potato virus X. The Rx N-terminal CC domain undergoes an intramolecular interaction with the Rx NB-LRR region and an intermolecular interaction with the Rx cofactor RanGAP2 (Ran GTPase-activating protein 2). Here, we report the crystal structure of the Rx CC domain in complex with the Trp-Pro-Pro (WPP) domain of RanGAP2. The structure reveals that the Rx CC domain forms a heterodimer with RanGAP2, in striking contrast to the homodimeric structure of the CC domain of the barley disease resistance protein MLA10. Structure-based mutagenesis identified residues from both the Rx CC domain and the RanGAP2 WPP domain that are crucial for their interaction and function in vitro and in vivo. Our results reveal the molecular mechanism underlying the interaction of Rx with RanGAP2 and identify the distinct surfaces of the Rx CC domain that are involved in intramolecular and intermolecular interactions.

    Organizational Affiliation: 

    From the College of Biological Sciences, China Agricultural University, Beijing 100193, China.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Rx proteinA,
G [auth H],
E [auth I],
C [auth L],
H [auth Q]		126Solanum tuberosumMutation(s): 0 
Gene Names: rx
UniProt
Find proteins for Q9XGF5 (Solanum tuberosum)
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Go to UniProtKB:  Q9XGF5
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UniProt GroupQ9XGF5
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Ran GTPase activating protein 2F [auth B],
B [auth E],
D [auth J],
I [auth K]		99Solanum tuberosumMutation(s): 0 
Gene Names: RanGAP2
UniProt
Find proteins for I7JSB1 (Solanum tuberosum)
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Go to UniProtKB:  I7JSB1
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UniProt GroupI7JSB1
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Ran GTPase activating protein 2J [auth R]99synthetic construct, Solanum tuberosumMutation(s): 0 
Gene Names: RanGAP2, Rx
UniProt
Find proteins for I7JSB1 (Solanum tuberosum)
Explore I7JSB1 
Go to UniProtKB:  I7JSB1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupI7JSB1
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.254 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.085α = 90
b = 91.142β = 101.26
c = 87.762γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHASESphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2013-08-12 
  • Released Date: 2013-11-13 
    • Deposition Author(s): Chai, J., Hao, W.

Revision History  (Full details and data files)

  • Version 1.0: 2013-11-13
    Type: Initial release
  • Version 1.1: 2014-01-22
    Changes: Database references
  • Version 1.2: 2017-06-28
    Changes: Source and taxonomy