Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

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

Macromolecule Content

• Total Structure Weight: 34063.79 
• Atom Count: 2098 
• Residue Count: 293 
• Unique protein chains: 2

5CJ6

Crystal Structure of a Selective Androgen Receptor Modulator Bound to the Ligand Binding Domain of the Human Androgen Receptor

• DOI: 10.2210/pdb5CJ6/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2015-07-14 Released: 2016-01-06 
• Deposition Author(s): Luz, J.G., Saeed, A., Wang, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.222 
• R-Value Work: 0.187 

Literature

2-Chloro-4-[[(1R,2R)-2-hydroxy-2-methyl-cyclopentyl]amino]-3-methyl-benzonitrile: A Transdermal Selective Androgen Receptor Modulator (SARM) for Muscle Atrophy.

Saeed, A., Vaught, G.M., Gavardinas, K., Matthews, D., Green, J.E., Losada, P.G., Bullock, H.A., Calvert, N.A., Patel, N.J., Sweetana, S.A., Krishnan, V., Henck, J.W., Luz, J.G., Wang, Y., Jadhav, P.

(2016) J.Med.Chem. 59: 750-755

• PubMed: 26683992 
• DOI: 10.1021/acs.jmedchem.5b01168


• PubMed Abstract: 
  

A transdermal SARM has a potential to have therapeutic benefit through anabolic activity in muscle while sparing undesired effects of benign prostate hyperplasia (BPH) and liver-mediated decrease in HDL-C. 2-Chloro-4-[(2-hydroxy-2-methyl-cyclopentyl)amino]-3-methyl-benzonitrile 6 showed the desired muscle and prostate effects in a preclinical ORX rat model. Compound 6 had minimal effect on HDL-C levels in cynomolgus monkeys and showed human cadaver skin permeability, thus making it an effective tool for proof-of-concept studies in a clinical setting.

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Organizational Affiliation: 

Lilly Research Laboratories, Eli Lilly and Company , Lilly Corporate Center, Indianapolis, Indiana 46285, United States.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Androgen receptor	A	283	Homo sapiens	Mutation(s): 0  Gene Names: AR (DHTR, NR3C4)
Find proteins for P10275 (Homo sapiens) Go to Gene View: AR Go to UniProtKB:  P10275

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
small peptide	B	10	Homo sapiens	Mutation(s): 0  Gene Names: AR (DHTR, NR3C4)
Find proteins for P10275 (Homo sapiens) Go to Gene View: AR Go to UniProtKB:  P10275

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
51Y	A	2-chloro-4-{[(1R,2R)-2-hydroxy-2-methylcyclopentyl]amino}-3-methylbenzonitrile C14 H17 Cl N2 O CXFSVKGROITHRY-TZMCWYRMSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
51Y	EC50: 0.5 nM (100) BINDINGDB
51Y	Ki: 2 nM (100) BINDINGDB
51Y	Ki: 2.03 nM BINDINGMOAD

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.222 
• R-Value Work: 0.187 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 55.803	α = 90.00
b = 65.997	β = 90.00
c = 73.410	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-07-14 
• Released Date: 2016-01-06 
• Deposition Author(s): Luz, J.G., Saeed, A., Wang, Y.

Revision History 

• Version 1.0: 2016-01-06
  Type: Initial release
• Version 1.1: 2016-01-20
  Type: Database references
• Version 1.2: 2016-02-10
  Type: Database references