9S9C | pdb_00009s9c

Crystal structure of the apo BRL2 ectodomain from Arabidopsis thaliana.

• PDB DOI: https://doi.org/10.2210/pdb9S9C/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Arabidopsis thaliana
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2025-08-06 Released: 2025-09-03 
• Deposition Author(s): Caregnato, A., Hothorn, M.
• Funding Organization(s): Swiss National Science Foundation

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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

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.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration

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

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase BRI1-like 2	A	742	Arabidopsis thaliana	Mutation(s): 0  Gene Names: BRL2, VH1, At2g01950, F14H20.2 EC: 2.7.11.1
UniProt
Find proteins for Q9ZPS9 (Arabidopsis thaliana) Explore Q9ZPS9  Go to UniProtKB:  Q9ZPS9
Glycosylation
Glycosylation Sites: 6

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	C	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G21290RB GlyCosmos:  G21290RB GlyGen:  G21290RB

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	D [auth A], E [auth A], F [auth A], G [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

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 = 118.613	α = 90
b = 118.613	β = 90
c = 155.623	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-03 
Deposition Author(s): Caregnato, A., Hothorn, M.

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Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	310030_205201

Revision History  

• Version 1.0: 2025-09-03
  Type: Initial release