Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 98.27 kDa 
• Atom Count: 5644 
• Modelled Residue Count: 722 
• Deposited Residue Count: 879 
• Unique protein chains: 2

3TX7

Crystal structure of LRH-1/beta-catenin complex

• DOI: 10.2210/pdb3TX7/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-09-22 Released: 2011-12-14 
• Deposition Author(s): Yumoto, F., Fletterick, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.76 Å
• R-Value Free: 0.243 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 

Literature

Structural basis of coactivation of liver receptor homolog-1 by beta-catenin.

Yumoto, F., Nguyen, P., Sablin, E.P., Baxter, J.D., Webb, P., Fletterick, R.J.

(2012) Proc Natl Acad Sci U S A 109: 143-148

• PubMed: 22187462 
• DOI: 10.1073/pnas.1117036108
• Primary Citation of Related Structures:  
  3TX7


• PubMed Abstract: 
  

We report the three-dimensional structure of a β-catenin armadillo repeat in complex with the liver receptor homolog-1 (LRH-1) ligand binding domain at 2.8 Å resolution as the first structure of β-catenin in complex with any nuclear receptor. The surface of β-catenin that binds LRH-1 partly overlaps defined contact sites for peptide segments of β-catenin partners, including T-cell factor-4. The surface of LRH-1 that engages β-catenin is comprised of helices 1, 9, and 10 and is distinct from known interaction surfaces of LRH-1, including corepressor and coactivator binding sites. Targeted mutagenesis of amino acids forming both sides of the LRH-1/β-catenin interface reveals that they are essential for stable interactions between these proteins in solution. The LRH-1 binding site in β-catenin is also required for association with androgen receptor, providing evidence that the observed LRH-1/β-catenin interaction may be prototypic.

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Organizational Affiliation: 

Department of Biochemistry and Biophysics, University of California San Francisco, 600 16th Street, San Francisco, CA 94158, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catenin beta-1	A	527	Homo sapiens	Mutation(s): 0  Gene Names: CTNNB1, CTNNB, OK/SW-cl.35, PRO2286
UniProt & NIH Common Fund Data Resources
Find proteins for P35222 (Homo sapiens) Explore P35222  Go to UniProtKB:  P35222
PHAROS:  P35222 GTEx:  ENSG00000168036

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear receptor subfamily 5 group A member 2	B	352	Homo sapiens	Mutation(s): 0  Gene Names: NR5A2, B1F, CPF, FTF
UniProt & NIH Common Fund Data Resources
Find proteins for O00482 (Homo sapiens) Explore O00482  Go to UniProtKB:  O00482
PHAROS:  O00482 GTEx:  ENSG00000116833

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
P6L	C [auth B]	(2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL (8E)-OCTADEC-8-ENOATE C40 H75 O10 P WLVNRDXLPAAELE-GDRYEXQRSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.76 Å
• R-Value Free: 0.243 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.824	α = 90
b = 151.602	β = 96.96
c = 76.131	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-09-22 
• Released Date: 2011-12-14 
Deposition Author(s): Yumoto, F., Fletterick, R.

Revision History  

• Version 1.0: 2011-12-14
  Type: Initial release
  
• Version 1.1: 2011-12-28
  Changes: Database references
• Version 1.2: 2013-06-19
  Changes: Database references