2YHD

Human androgen receptor in complex with AF2 small molecule inhibitor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Inhibitors of Androgen Receptor Activation Function-2 (Af2) Site Identified Through Virtual Screening.

Axerio-Cilies, P., Lack, N.A., Nayana, M.R., Chan, K.H., Yeung, A., Leblanc, E., Guns, E.S., Rennie, P.S., Cherkasov, A.

(2011) J Med Chem 54: 6197

  • DOI: 10.1021/jm200532b
  • Primary Citation of Related Structures:  
    2YHD

  • PubMed Abstract: 

    • The androgen receptor (AR) is one of the most studied drug targets for the treatment of prostate cancer. However, all current anti-androgens directly interact with the AR at the androgen binding site, which is prone to resistant mutations, calling for new strategies of the AR inhibition ...

    The androgen receptor (AR) is one of the most studied drug targets for the treatment of prostate cancer. However, all current anti-androgens directly interact with the AR at the androgen binding site, which is prone to resistant mutations, calling for new strategies of the AR inhibition. The current study represents the first attempt to use virtual screening to identify inhibitors of activation function-2 (AF2) of the human AR. By combining large-scale docking with experimental approaches, we were able to identify several small molecules that interact with the AF2 and effectively prevent the transcriptional activation of the AR. The crystallographic structure of one of these inhibitors in complex with the AR provides critical insight into the corresponding protein-ligand interactions and suitable for future hit optimization. Taken together, our results provide a promising ground for development of novel anti-androgens that can help to address the problem of drug resistance in prostate cancer.

    Organizational Affiliation: 

    Vancouver Prostate Centre, University of British Columbia, 2660 Oak Street, Vancouver, British Columbia V6H 3Z6, Canada.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ANDROGEN RECEPTORA249Homo sapiensMutation(s): 0 
Gene Names: AR, DHTR, NR3C4
Find proteins for P10275 (Homo sapiens)
Explore P10275 
Go to UniProtKB:  P10275
NIH Common Fund Data Resources
PHAROS:  P10275
GTEx:  ENSG00000169083
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TES
Query on TES
Download Ideal Coordinates CCD File 
 C [auth A]TESTOSTERONE
C19 H28 O2
MUMGGOZAMZWBJJ-DYKIIFRCSA-N		 Ligand Interaction
AV6
Query on AV6
Download Ideal Coordinates CCD File 
 D [auth A]4-(2,3-dihydro-1H-perimidin-2-yl)benzene-1,2-diol
C17 H14 N2 O2
RBGFUFBYYJRGBW-UHFFFAOYSA-N		 Ligand Interaction
SO4
Query on SO4
Download Ideal Coordinates CCD File 
 B [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L		 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
TESIC50:  3.9000000953674316   nM  BindingDB
TESIC50:  6.5   nM  BindingDB
TESEC50:  3.1600000858306885   nM  BindingDB
AV6Ki :  23000   nM  PDBBind
AV6IC50:  30580   nM  BindingDB
TESKi:  4.300000190734863   nM  BindingDB
TESIC50:  30   nM  BindingDB
TESIC50:  4.570000171661377   nM  BindingDB
TESKi:  4.900000095367432   nM  BindingDB
TESEC50:  2   nM  BindingDB
TESIC50:  3.200000047683716   nM  BindingDB
TESIC50:  4.300000190734863   nM  BindingDB
TESIC50:  11   nM  BindingDB
TESIC50:  2.700000047683716   nM  BindingDB
TESIC50:  3090.300048828125   nM  BindingDB
TESIC50:  4.699999809265137   nM  BindingDB
TESKi:  3.200000047683716   nM  BindingDB
TESIC50:  4.199999809265137   nM  BindingDB
AV6IC50:  18640   nM  BindingDB
TESKi:  29   nM  BindingDB
AV6Ki:  23000   nM  Binding MOAD
TESKi:  1.399999976158142   nM  BindingDB
TESEC50:  1.100000023841858   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.53α = 90
b = 66.75β = 90
c = 73.68γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
MOSFLMdata scaling
PHASERphasing

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-09-21
    Type: Initial release
  • Version 1.1: 2011-10-19
    Changes: Database references