Crystal structure of the rat androgen receptor ligand binding domain complex with an n-aryl-oxazolidin 2-imine inhibitor

Experimental Data Snapshot

  • Resolution: 1.95 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.201 

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Ligand Structure Quality Assessment 

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N-aryl-oxazolidin-2-imine muscle selective androgen receptor modulators enhance potency through pharmacophore reorientation.

Nirschl, A.A.Zou, Y.Krystek, S.R.Sutton, J.C.Simpkins, L.M.Lupisella, J.A.Kuhns, J.E.Seethala, R.Golla, R.Sleph, P.G.Beehler, B.C.Grover, G.J.Egan, D.Fura, A.Vyas, V.P.Li, Y.X.Sack, J.S.Kish, K.F.An, Y.Bryson, J.A.Gougoutas, J.Z.DiMarco, J.Zahler, R.Ostrowski, J.Hamann, L.G.

(2009) J Med Chem 52: 2794-2798

  • DOI: https://doi.org/10.1021/jm801583j
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    A novel selective androgen receptor modulator (SARM) scaffold was discovered as a byproduct obtained during synthesis of our earlier series of imidazolidin-2-ones. The resulting oxazolidin-2-imines are among the most potent SARMs known, with many analogues exhibiting sub-nM in vitro potency in binding and functional assays. Despite the potential for hydrolytic instability at gut pH, compounds of the present class showed good oral bioavailability and were highly active in a standard rodent pharmacological model.

  • Organizational Affiliation

    Discovery Chemistry, Analytical Research & Development, Bristol-Myers Squibb Research and Development, P.O. Box 5400, Princeton, New Jersey 08543-5400, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Androgen receptor260Rattus norvegicusMutation(s): 0 
Gene Names: ArNr3c4
Find proteins for P15207 (Rattus norvegicus)
Explore P15207 
Go to UniProtKB:  P15207
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15207
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on LGB

Download Ideal Coordinates CCD File 
B [auth A]2-chloro-4-{[(1R,3Z,7S,7aS)-7-hydroxy-1-(trifluoromethyl)tetrahydro-1H-pyrrolo[1,2-c][1,3]oxazol-3-ylidene]amino}-3-met hylbenzonitrile
C15 H13 Cl F3 N3 O2
Binding Affinity Annotations 
IDSourceBinding Affinity
LGB PDBBind:  3G0W Ki: 0.3 (nM) from 1 assay(s)
Binding MOAD:  3G0W Ki: 0.3 (nM) from 1 assay(s)
BindingDB:  3G0W Ki: 0.3 (nM) from 1 assay(s)
EC50: 0.2 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.95 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.201 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.862α = 90
b = 65.739β = 90
c = 69.75γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

  • Released Date: 2009-04-28 
  • Deposition Author(s): Sack, J.S.

Revision History  (Full details and data files)

  • Version 1.0: 2009-04-28
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Data collection, Database references, Derived calculations, Structure summary