2YLY | pdb_00002yly

Sulfonamides as selective Estrogen Receptor beta Agonists.

• PDB DOI: https://doi.org/10.2210/pdb2YLY/pdb

• Classification: RECEPTOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-06-06 Released: 2012-06-13 
• Deposition Author(s): Roberts, L.R., Armour, D., Barker, C., Bazin, R., Bess, K., Brown, A., Favor, D., Ellis, D., MacKenny, M., Pullen, N., Stennett, A., Strand, L., Styles, M., Phillips, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.275 (Depositor), 0.297 (DCC) 
• R-Value Work: 
  0.235 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.237 (Depositor) 

Literature

Sulfonamides as Selective Oestrogen Receptor Beta Agonists.

Roberts, L.R., Armor, D., Barker, C., Bent, A., Bess, K., Brown, A., Favor, D.A., Ellis, D., Irving, S.L., Mackenny, M., Phillips, C., Pullen, N., Stennett, A., Strand, L., Styles, M.

(2011) Bioorg Med Chem Lett 21: 5680

• PubMed: 21885279 
• DOI: https://doi.org/10.1016/j.bmcl.2011.08.041
• Primary Citation Related Structures: 
  2YLY


• PubMed Abstract: 
  

  A series of p-hydroxybenzenesulphonamides ERβ receptor agonists were discovered and several compounds identified had excellent selectivity over the related ERα receptor. One of these, compound 11, had an interesting binding conformation determined by X-ray and represents an excellent starting point in the quest for further selective ERβ agonists.

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Organizational Affiliation: 
• Worldwide Medicinal Chemistry, Pfizer, Ramsgate Road, Sandwich, Kent CT13 9NJ, UK. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 55.19 kDa 
• Atom Count: 3,538 
• Modeled Residue Count: 440 
• Deposited Residue Count: 480 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ESTROGEN RECEPTOR BETA	A, B	240	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q92731 (Homo sapiens) Explore Q92731  Go to UniProtKB:  Q92731
PHAROS:  Q92731 GTEx:  ENSG00000140009

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SU4	C [auth A], E [auth B]	N-cyclopropyl-4-oxidanyl-N-[(2R)-2-oxidanyl-2-phenyl-propyl]benzenesulfonamide C18 H21 N O4 S GYHSDCAQMDKVKI-SFHVURJKSA-N
SO4	D [auth A], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Binding Affinity Annotations
ID	Source	Binding Affinity
SU4	BindingDB:  2YLY	EC50: 79 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.275 (Depositor), 0.297 (DCC) 
• R-Value Work:  0.235 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.237 (Depositor) 

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.72	α = 90
b = 116.72	β = 90
c = 186.66	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-13 
Deposition Author(s): Roberts, L.R., Armour, D., Barker, C., Bazin, R., Bess, K., Brown, A., Favor, D., Ellis, D., MacKenny, M., Pullen, N., Stennett, A., Strand, L., Styles, M., Phillips, C.

Revision History  

• Version 1.0: 2012-06-13
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other