4M7E

Structural insight into BL-induced activation of the BRI1-BAK1 complex

• PDB DOI: https://doi.org/10.2210/pdb4M7E/pdb

• Classification: TRANSFERASE
• Organism(s): Arabidopsis thaliana
• Mutation(s): No 


• Deposited: 2013-08-12 Released: 2013-10-16 
• Deposition Author(s): Chai, J., Han, Z., Sun, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.60 Å
• R-Value Free: 0.275 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 

Starting Model: experimental

Literature

Structural insight into BL-induced activation of the BRI1-BAK1 complex

Sun, Y., Han, Z., Chai, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 212.86 kDa 
• Atom Count: 13,926 
• Modelled Residue Count: 1,817 
• Deposited Residue Count: 1,936 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein BRASSINOSTEROID INSENSITIVE 1	A, B	767	Arabidopsis thaliana	Mutation(s): 0  Gene Names: BRI1, At4g39400, F23K16.30 EC: 2.7.10.1 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
UniProt
Find proteins for O22476 (Arabidopsis thaliana) Explore O22476  Go to UniProtKB:  O22476
Glycosylation
Glycosylation Sites: 3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1	C [auth D], D [auth C]	201	Arabidopsis thaliana	Mutation(s): 0  Gene Names: BAK1, ELG, SERK3, At4g33430, F17M5.190 EC: 2.7.10.1 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
UniProt
Find proteins for Q94F62 (Arabidopsis thaliana) Explore Q94F62  Go to UniProtKB:  Q94F62

Oligosaccharides

Help

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

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BLD	L [auth A], O [auth B]	Brassinolide C28 H48 O6 IXVMHGVQKLDRKH-KNBKMWSGSA-N
NAG	I [auth A], J [auth A], M [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	K [auth A], N [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.60 Å
• R-Value Free: 0.275 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 
• Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.911	α = 90
b = 145.911	β = 90
c = 166.24	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASES	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-10-16 
Deposition Author(s): Chai, J., Han, Z., Sun, Y.

Revision History  

• Version 1.0: 2013-10-16
  Type: Initial release
  
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary
• Version 2.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 2.2: 2024-11-06
  Changes: Structure summary