3OGK

Structure of COI1-ASK1 in complex with coronatine and an incomplete JAZ1 degron


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Jasmonate perception by inositol-phosphate-potentiated COI1-JAZ co-receptor.

Sheard, L.B.Tan, X.Mao, H.Withers, J.Ben-Nissan, G.Hinds, T.R.Kobayashi, Y.Hsu, F.F.Sharon, M.Browse, J.He, S.Y.Rizo, J.Howe, G.A.Zheng, N.

(2010) Nature 468: 400-405

  • DOI: https://doi.org/10.1038/nature09430
  • Primary Citation of Related Structures:  
    3OGK, 3OGL, 3OGM

  • PubMed Abstract: 

    Jasmonates are a family of plant hormones that regulate plant growth, development and responses to stress. The F-box protein CORONATINE INSENSITIVE 1 (COI1) mediates jasmonate signalling by promoting hormone-dependent ubiquitylation and degradation of transcriptional repressor JAZ proteins. Despite its importance, the mechanism of jasmonate perception remains unclear. Here we present structural and pharmacological data to show that the true Arabidopsis jasmonate receptor is a complex of both COI1 and JAZ. COI1 contains an open pocket that recognizes the bioactive hormone (3R,7S)-jasmonoyl-l-isoleucine (JA-Ile) with high specificity. High-affinity hormone binding requires a bipartite JAZ degron sequence consisting of a conserved α-helix for COI1 docking and a loop region to trap the hormone in its binding pocket. In addition, we identify a third critical component of the jasmonate co-receptor complex, inositol pentakisphosphate, which interacts with both COI1 and JAZ adjacent to the ligand. Our results unravel the mechanism of jasmonate perception and highlight the ability of F-box proteins to evolve as multi-component signalling hubs.


  • Organizational Affiliation

    Department of Pharmacology, Box 357280, University of Washington, Seattle, Washington 98195, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
SKP1-like protein 1A160Arabidopsis thalianaMutation(s): 0 
Gene Names: SKP1AASK1SKP1UIP1At1g75950T4O12.17
UniProt
Find proteins for Q39255 (Arabidopsis thaliana)
Explore Q39255 
Go to UniProtKB:  Q39255
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ39255
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Coronatine-insensitive protein 1592Arabidopsis thalianaMutation(s): 0 
Gene Names: COI1FBL2At2g39940T28M21.10
UniProt
Find proteins for O04197 (Arabidopsis thaliana)
Explore O04197 
Go to UniProtKB:  O04197
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UniProt GroupO04197
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  • Reference Sequence

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
JAZ1 incomplete degron peptide22Arabidopsis thalianaMutation(s): 0 
UniProt
Find proteins for Q9LMA8 (Arabidopsis thaliana)
Explore Q9LMA8 
Go to UniProtKB:  Q9LMA8
Entity Groups  
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UniProt GroupQ9LMA8
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
OGK
Query on OGK

Download Ideal Coordinates CCD File 
BB [auth N]
CA [auth D]
GB [auth P]
HA [auth F]
MA [auth H]
BB [auth N],
CA [auth D],
GB [auth P],
HA [auth F],
MA [auth H],
RA [auth J],
WA [auth L],
X [auth B]
(1S,2S)-2-ethyl-1-({[(3aS,4S,6R,7aS)-6-ethyl-1-oxooctahydro-1H-inden-4-yl]carbonyl}amino)cyclopropanecarboxylic acid
C18 H27 N O4
YYTFHRRGIDEJIS-FNEQEMTHSA-N
PO4
Query on PO4

Download Ideal Coordinates CCD File 
AA [auth B]
AB [auth L]
BA [auth B]
CB [auth N]
DA [auth D]
AA [auth B],
AB [auth L],
BA [auth B],
CB [auth N],
DA [auth D],
DB [auth N],
EA [auth D],
EB [auth N],
FA [auth D],
FB [auth N],
GA [auth D],
HB [auth P],
IA [auth F],
IB [auth P],
JA [auth F],
JB [auth P],
KA [auth F],
KB [auth P],
LA [auth F],
NA [auth H],
OA [auth H],
PA [auth H],
QA [auth H],
SA [auth J],
TA [auth J],
UA [auth J],
VA [auth J],
XA [auth L],
Y [auth B],
YA [auth L],
Z [auth B],
ZA [auth L]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 121.847α = 90
b = 221.455β = 104.49
c = 148.474γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXmodel building
PHENIXrefinement
DENZOdata reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-10-13
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Data collection, Database references, Derived calculations