Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Protein Workshop | Ligand Explorer

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

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

Biological Assembly 2  

 3D View: Structure | Ligand Interaction

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Protein Workshop | Ligand Explorer

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

 3D View: Structure | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 63875.38 
• Atom Count: 4174 
• Residue Count: 550 
• Unique protein chains: 2

1P8D

X-Ray Crystal Structure of LXR Ligand Binding Domain with 24(S),25-epoxycholesterol

• DOI: 10.2210/pdb1P8D/pdb

• Classification: MEMBRANE PROTEIN/PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2003-05-06 Released: 2003-07-08 
• Deposition Author(s): Williams, S., Bledsoe, R.K., Collins, J.L., Boggs, S., Lambert, M.H., Miller, A.B., Moore, J., McKee, D.D., Moore, L., Nichols, J., Parks, D., Watson, M., Wisely, B., Willson, T.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.277 
• R-Value Work: 0.214 

Literature

X-ray crystal structure of the liver X receptor beta ligand binding domain: regulation by a histidine-tryptophan switch.

Williams, S., Bledsoe, R.K., Collins, J.L., Boggs, S., Lambert, M.H., Miller, A.B., Moore, J., McKee, D.D., Moore, L., Nichols, J., Parks, D., Watson, M., Wisely, B., Willson, T.M.

(2003) J.Biol.Chem. 278: 27138-27143

• PubMed: 12736258 
• DOI: 10.1074/jbc.M302260200


• PubMed Abstract: 
  

The x-ray crystal structures of the human liver X receptor beta ligand binding domain complexed to sterol and nonsterol agonists revealed a perpendicular histidinetryptophan switch that holds the receptor in its active conformation. Hydrogen bonding interactions with the ligand act to position the His-435 imidazole ring against the Trp-457 indole ring, allowing an electrostatic interaction that holds the AF2 helix in the active position. The neutral oxysterol 24(S),25-epoxycholesterol accepts a hydrogen bond from His-435 that positions the imidazole ring of the histidine above the pyrrole ring of the tryptophan. In contrast, the acidic T0901317 hydroxyl group makes a shorter hydrogen bond with His-435 that pulls the imidazole over the electron-rich benzene ring of the tryptophan, possibly strengthening the electrostatic interaction. Point mutagenesis of Trp-457 supports the observation that the ligand-histidine-tryptophan coupling is different between the two ligands. The lipophilic liver X receptor ligand-binding pocket is larger than the corresponding steroid hormone receptors, which allows T0901317 to adopt two distinct conformations. These results provide a molecular basis for liver X receptor activation by a wide range of endogenous neutral and acidic ligands.

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Organizational Affiliation: 

GlaxoSmithKline, Discovery Research, Research Triangle Park, NC 27709, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Oxysterols receptor LXR-beta	A, B	250	Homo sapiens	Mutation(s): 0  Gene Names: NR1H2 (LXRB, NER, UNR)
Find proteins for P55055 (Homo sapiens) Go to Gene View: NR1H2 Go to UniProtKB:  P55055

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
nuclear receptor coactivator 1 isoform 3	C, D	25	Homo sapiens	Mutation(s): 0  Gene Names: NCOA1 (BHLHE74, SRC1) EC: 2.3.1.48
Find proteins for Q15788 (Homo sapiens) Go to Gene View: NCOA1 Go to UniProtKB:  Q15788

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CO1	A, B	17-[3-(3,3-DIMETHYL-OXIRANYL)-1-METHYL-PROPYL]-10,13-DIMETHYL-2,3,4,7,8,9,10,11,12,13,14,15,16,17-TETRADECAHYDRO-1H-CYCLOPENTA[A]PHENANTHREN-3-OL 24,25(S)-EPOXYCHOLESTEROL C27 H44 O2 OSENKJZWYQXHBN-XVYZBDJZSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
CO1	EC50: 168 - >20000 nM (99) BINDINGDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.277 
• R-Value Work: 0.214 
• Space Group: C 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 71.166	α = 90.00
b = 120.012	β = 90.00
c = 147.560	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
SCALEPACK	data scaling
MAR345	data collection
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-05-06 
• Released Date: 2003-07-08 
• Deposition Author(s): Williams, S., Bledsoe, R.K., Collins, J.L., Boggs, S., Lambert, M.H., Miller, A.B., Moore, J., McKee, D.D., Moore, L., Nichols, J., Parks, D., Watson, M., Wisely, B., Willson, T.M.

Revision History 

• Version 1.0: 2003-07-08
  Type: Initial release
• Version 1.1: 2008-04-29
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2011-11-16
  Type: Atomic model
• Version 1.4: 2017-10-11
  Type: Refinement description