5GWO

Crystal structure of RCAR3:PP2C S265F/I267M with (+)-ABA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.190 

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This is version 1.2 of the entry. See complete history


Literature

Modulation of ABA Signaling by Altering VxG Phi L Motif of PP2Cs in Oryza sativa.

Han, S.Min, M.K.Lee, S.Y.Lim, C.W.Bhatnagar, N.Lee, Y.Shin, D.Chung, K.Y.Lee, S.C.Kim, B.G.Lee, S.

(2017) Mol Plant 10: 1190-1205

  • DOI: https://doi.org/10.1016/j.molp.2017.08.003
  • Primary Citation of Related Structures:  
    5GWO, 5GWP

  • PubMed Abstract: 

    The abscisic acid (ABA) signaling pathway is regulated by clade A type 2C protein phosphatases (PP2CAs) in plants. In the presence of ABA, PP2Cs release stress/ABA-activated protein kinases by binding to ABA-bound receptors (PYL/RCARs) for activation. Although the wedging tryptophan in PP2Cs is critical in the interaction with PYL/RCARs in Arabidopsis and rice, it remains elusive as to how other interface regions are involved in the interaction. Here, we report the identification of a conserved region on PP2Cs, termed the VxGΦL motif, which modulates the interaction with PYL/RCARs through its second and fourth residues. The effects of the second and fourth residues on the interaction of OsPP2C50 with several OsPYL/RCAR proteins were investigated by systematic mutagenesis. One OsPP2C50 mutant, VFGML ("FM") mutant, lowered the affinity to OsPYL/RCAR3 by ∼15-fold in comparison with the wild-type. Comparison of the crystal structures of wild-type OsPP2C50:ABA:OsPYL/RCAR3 with those composed of FM mutant revealed local conformational changes near the VxGΦL motif, further supported by hydrogen-deuterium exchange mass spectrometry. In rice protoplasts, ABA signaling was altered by mutations in the VxGΦL motif. Transgenic Arabidopsis plants overexpressing OsPP2C50 and OsPP2C50FM showed altered ABA sensitivity. Taken together, the VxGΦL motif of PP2Cs appears to modulate the affinity of PP2Cs with PYL/RCARs and thus likely to alter the ABA signaling, leading to the differential sensitivity to ABA in planta.


  • Organizational Affiliation

    Department of Biological Sciences, Sungkyunkwan University, Suwon 16419, Republic of Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Probable protein phosphatase 2C 50
A, B
327Oryza sativa Japonica GroupMutation(s): 5 
Gene Names: Os05g0537400LOC_Os05g46040OJ1741_B01.18OSJNBa0052K01.2
EC: 3.1.3.16
UniProt
Find proteins for Q6L5H6 (Oryza sativa subsp. japonica)
Explore Q6L5H6 
Go to UniProtKB:  Q6L5H6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6L5H6
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ABA receptor RCAR3
C, D
175Oryza sativaMutation(s): 0 
UniProt
Find proteins for Q6EN42 (Oryza sativa subsp. japonica)
Explore Q6EN42 
Go to UniProtKB:  Q6EN42
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6EN42
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.190 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.472α = 81.63
b = 79.253β = 87.08
c = 80.288γ = 73.98
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-09-13
    Type: Initial release
  • Version 1.1: 2017-09-27
    Changes: Database references
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary