5JY3

CRYSTAL STRUCTURE OF LXRbeta (NUCLEAR RECEPTOR SUBFAMILY 1, GROUP H, MEMBER 2) COMPLEXED WITH BMS-852927


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.229 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Discovery of Highly Potent Liver X Receptor beta Agonists.

Kick, E.K.Busch, B.B.Martin, R.Stevens, W.C.Bollu, V.Xie, Y.Boren, B.C.Nyman, M.C.Nanao, M.H.Nguyen, L.Plonowski, A.Schulman, I.G.Yan, G.Zhang, H.Hou, X.Valente, M.N.Narayanan, R.Behnia, K.Rodrigues, A.D.Brock, B.Smalley, J.Cantor, G.H.Lupisella, J.Sleph, P.Grimm, D.Ostrowski, J.Wexler, R.R.Kirchgessner, T.Mohan, R.

(2016) ACS Med Chem Lett 7: 1207-1212

  • DOI: 10.1021/acsmedchemlett.6b00234
  • Primary Citation of Related Structures:  
    5JY3

  • PubMed Abstract: 
  • Introducing a uniquely substituted phenyl sulfone into a series of biphenyl imidazole liver X receptor (LXR) agonists afforded a dramatic potency improvement for induction of ATP binding cassette transporters, ABCA1 and ABCG1, in human whole blood. The agonist series demonstrated robust LXRβ activity (>70%) with low partial LXRα agonist activity (<25%) in cell assays, providing a window between desired blood cell ABCG1 gene induction in cynomolgus monkeys and modest elevation of plasma triglycerides for agonist 15 ...

    Introducing a uniquely substituted phenyl sulfone into a series of biphenyl imidazole liver X receptor (LXR) agonists afforded a dramatic potency improvement for induction of ATP binding cassette transporters, ABCA1 and ABCG1, in human whole blood. The agonist series demonstrated robust LXRβ activity (>70%) with low partial LXRα agonist activity (<25%) in cell assays, providing a window between desired blood cell ABCG1 gene induction in cynomolgus monkeys and modest elevation of plasma triglycerides for agonist 15 . The addition of polarity to the phenyl sulfone also reduced binding to the plasma protein, human α-1-acid glycoprotein. Agonist 15 was selected for clinical development based on the favorable combination of in vitro properties, excellent pharmacokinetic parameters, and a favorable lipid profile.


    Organizational Affiliation

    Exelixis Inc. , 210 East Grand Avenue, South San Francisco, California 94080, United States.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Oxysterols receptor LXR-beta ABCD264Homo sapiensMutation(s): 0 
Gene Names: NR1H2LXRBNERUNR
Find proteins for P55055 (Homo sapiens)
Explore P55055 
Go to UniProtKB:  P55055
NIH Common Fund Data Resources
PHAROS:  P55055
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
6OX
Query on 6OX

Download Ideal Coordinates CCD File 
A, B, C, D
2-[2-[2-[2,6-bis(chloranyl)phenyl]propan-2-yl]-1-[2-fluoranyl-4-[3-fluoranyl-4-(hydroxymethyl)-5-methylsulfonyl-phenyl] phenyl]imidazol-4-yl]propan-2-ol
C29 H28 Cl2 F2 N2 O4 S
HNAJDMYOTDNOBK-UHFFFAOYSA-N
 Ligand Interaction
BU1
Query on BU1

Download Ideal Coordinates CCD File 
B, D
1,4-BUTANEDIOL
C4 H10 O2
WERYXYBDKMZEQL-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
6OXEC50:  0.6000000238418579   nM  BindingDB
6OXKi:  12   nM  BindingDB
6OXEC50:  9   nM  BindingDB
6OXEC50:  10   nM  BindingDB
6OXEC50:  11   nM  BindingDB
6OXEC50:  24   nM  BindingDB
6OXKi:  12   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.229 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 183.66α = 90
b = 120.35β = 107.49
c = 55.72γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2016-05-13 
  • Released Date: 2016-11-02 
  • Deposition Author(s): Muckelbauer, J.K.

Revision History  (Full details and data files)

  • Version 1.0: 2016-11-02
    Type: Initial release
  • Version 1.1: 2017-01-04
    Changes: Database references