9S9C | pdb_00009s9c

Crystal structure of the apo BRL2 ectodomain from Arabidopsis thaliana.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 
    0.292 (Depositor), 0.292 (DCC) 
  • R-Value Work: 
    0.267 (Depositor), 0.267 (DCC) 
  • R-Value Observed: 
    0.269 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

A mechanistic framework for the recognition of chemically diverse brassinosteroids by BRI1-family receptor kinases.

Caregnato, A.Chen, H.Kvasnica, M.Hohmann, U.Oklestkova, J.Ferrer, K.Broger, L.Hothorn, L.A.Strnad, M.Hothorn, M.

(2026) Nat Plants 

  • DOI: https://doi.org/10.1038/s41477-026-02346-0
  • Primary Citation Related Structures: 
    9S80, 9S87, 9S8S, 9S8V, 9S8Z, 9S90, 9S96, 9S9A, 9S9C, 9U0G

  • PubMed Abstract: 

    Brassinosteroids (BRs) are chemically diverse plant steroid hormones produced via a branched biosynthetic pathway. The potent BR brassinolide is sensed by the membrane receptor kinase BRI1 and a SERK co-receptor, but the physiological functions of other abundant BRs remain to be characterized. Here we present quantitative binding kinetics for 4 Arabidopsis thaliana BR receptors and 15 BRs, which define the key chemical features required for high-affinity receptor binding, ligand positioning and co-receptor recognition. BRI1, BRL1 and BRL3 share overlapping ligand preferences, whereas BRL2 binds C 28 BRs with moderate affinity. Structural analyses of BR-bound BRI1 and BRL3 ectodomains combined with extensive in vitro and in vivo mutagenesis studies reveal a high structural plasticity of the hormone-binding pocket. Functional assays using structure-based BR agonists and antagonists uncover that BR receptor-co-receptor signalling complexes can recognize chemically diverse BRs, introducing an additional, intriguing layer of BR signalling regulation.


  • Organizational Affiliation
    • Structural Plant Biology Laboratory, Department of Plant Sciences, University of Geneva, Geneva, Switzerland.

Macromolecule Content 

  • Total Structure Weight: 83.04 kDa 
  • Atom Count: 5,100 
  • Modeled Residue Count: 650 
  • Deposited Residue Count: 742 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase BRI1-like 2742Arabidopsis thalianaMutation(s): 0 
Gene Names: BRL2VH1At2g01950F14H20.2
EC: 2.7.11.1
UniProt
Find proteins for Q9ZPS9 (Arabidopsis thaliana)
Explore Q9ZPS9 
Go to UniProtKB:  Q9ZPS9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9ZPS9
Glycosylation
Glycosylation Sites: 6
Sequence Annotations
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Reference Sequence

Oligosaccharides

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Entity ID: 2
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
B
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT
GlyCosmos: G42666HT
GlyGen: G42666HT
Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
C
3N-Glycosylation
Glycosylation Resources
GlyTouCan: G21290RB
GlyCosmos: G21290RB
GlyGen: G21290RB

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free:  0.292 (Depositor), 0.292 (DCC) 
  • R-Value Work:  0.267 (Depositor), 0.267 (DCC) 
  • R-Value Observed: 0.269 (Depositor) 
Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 118.613α = 90
b = 118.613β = 90
c = 155.623γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland310030_205201

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-03
    Type: Initial release
  • Version 1.1: 2026-08-12
    Changes: Database references
  • Version 1.2: 2026-08-19
    Changes: Database references