Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 31.98 kDa 
• Atom Count: 2354 
• Modelled Residue Count: 251 
• Deposited Residue Count: 270 
• Unique protein chains: 1

1S0X

Crystal structure of the human RORalpha ligand binding domain in complex with cholesterol sulfate at 2.2A

• DOI: 10.2210/pdb1S0X/pdb

• Classification: hormone/growth factor receptor
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2004-01-05 Released: 2004-02-10 
• Deposition Author(s): Kallen, J., Schlaeppi, J.M., Bitsch, F., Delhon, I., Fournier, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.209 
• R-Value Work: 0.197 
• R-Value Observed: 0.197 

Literature

Crystal structure of the human RORalpha Ligand binding domain in complex with cholesterol sulfate at 2.2 A

Kallen, J., Schlaeppi, J.M., Bitsch, F., Delhon, I., Fournier, B.

(2004) J Biol Chem 279: 14033-14038

• PubMed: 14722075 
• DOI: 10.1074/jbc.M400302200
• Primary Citation of Related Structures:  
  1S0X


• PubMed Abstract: 
  

The retinoic acid-related orphan receptor alpha (RORalpha) is an orphan member of the subfamily 1 of nuclear hormone receptors. Our recent structural and functional studies have led to the hypothesis that cholesterol or a cholesterol derivative is the natural ligand of RORalpha. We have now solved the x-ray crystal structure of the ligand binding domain of RORalpha in complex with cholesterol-3-O-sulfate following a ligand exchange experiment. In contrast to the 3-hydroxyl of cholesterol, the 3-O-sulfate group makes additional direct hydrogen bonds with three residues of the RORalpha ligand binding domain, namely NH-Gln(289), NH-Tyr(290), and NH1-Arg(370). When compared with the complex with cholesterol, seven well ordered water molecules have been displaced, and the ligand is slightly shifted toward the hydrophilic part of the ligand binding pocket, which is ideally suited for interactions with a sulfate group. These additional ligand-protein interactions result in an increased affinity of cholesterol sulfate when compared with cholesterol, as shown by mass spectrometry analysis done under native conditions and differential scanning calorimetry. Moreover, mutational studies show that the higher binding affinity of cholesterol sulfate translates into an increased transcriptional activity of RORalpha. Our findings suggest that cholesterol sulfate could play a crucial role in the regulation of RORalpha in vivo.

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Related Citations: 

• X-ray structure of the hRORalpha LBD at 1.63A: Structural and functional data that cholesterol or a cholesterol derivative is the natural ligand of RORalpha
  Kallen, J., Schlaeppi, J.-M., Bitsch, F., Geisse, S., Geiser, M., Delhon, I., Fournier, B.
  (2002) Structure 10: 1697

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Organizational Affiliation: 

Discovery Technologies, Protein Structure Unit, Basel, Switzerland. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear receptor ROR-alpha	A	270	Homo sapiens	Mutation(s): 0  Gene Names: RORA, NR1F1, RZRA
Find proteins for P35398 (Homo sapiens) Explore P35398  Go to UniProtKB:  P35398
NIH Common Fund Data Resources
PHAROS:  P35398 GTEx:  ENSG00000069667

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C3S	A	CHOLEST-5-EN-3-YL HYDROGEN SULFATE C27 H46 O4 S BHYOQNUELFTYRT-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.209 
• R-Value Work: 0.197 
• R-Value Observed: 0.197 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.4	α = 90
b = 49.9	β = 97.8
c = 60.7	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-01-05 
• Released Date: 2004-02-10 
Deposition Author(s): Kallen, J., Schlaeppi, J.M., Bitsch, F., Delhon, I., Fournier, B.

Revision History  

• Version 1.0: 2004-02-10
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance