3ZRB

Structural basis for agonism and antagonism for a set of chemically related progesterone receptor modulators


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.184 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis for agonism and antagonism for a set of chemically related progesterone receptor modulators.

Lusher, S.J.Raaijmakers, H.C.Vu-Pham, D.Dechering, K.Lam, T.W.Brown, A.R.Hamilton, N.M.Nimz, O.Bosch, R.McGuire, R.Oubrie, A.de Vlieg, J.

(2011) J Biol Chem 286: 35079-35086

  • DOI: 10.1074/jbc.M111.273029
  • Primary Citation of Related Structures:  
    3ZRA, 3ZRB, 3ZR7

  • PubMed Abstract: 
  • The progesterone receptor is able to bind to a large number and variety of ligands that elicit a broad range of transcriptional responses ranging from full agonism to full antagonism and numerous mixed profiles inbetween. We describe here two new progesterone receptor ligand binding domain x-ray structures bound to compounds from a structurally related but functionally divergent series, which show different binding modes corresponding to their agonistic or antagonistic nature ...

    The progesterone receptor is able to bind to a large number and variety of ligands that elicit a broad range of transcriptional responses ranging from full agonism to full antagonism and numerous mixed profiles inbetween. We describe here two new progesterone receptor ligand binding domain x-ray structures bound to compounds from a structurally related but functionally divergent series, which show different binding modes corresponding to their agonistic or antagonistic nature. In addition, we present a third progesterone receptor ligand binding domain dimer bound to an agonist in monomer A and an antagonist in monomer B, which display binding modes in agreement with the earlier observation that agonists and antagonists from this series adopt different binding modes.


    Organizational Affiliation

    Department of Molecular Design and Informatics, DMPK, MSD, PO Box 20, 5340 BH Oss, The Netherlands. scott.lusher@merck.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROGESTERONE RECEPTORA, B260Homo sapiensMutation(s): 0 
Gene Names: PGRNR3C3
Find proteins for P06401 (Homo sapiens)
Explore P06401 
Go to UniProtKB:  P06401
NIH Common Fund Data Resources
PHAROS:  P06401
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OR8
Query on OR8

Download Ideal Coordinates CCD File 
C [auth A]2-CHLORO-N-[[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]METHYL]-1,4-DIMETHYL-1H-PYRAZOLE-4-SULFONAMIDE
C17 H19 Cl N4 O3 S
XNTNHEPWXKNVBH-UHFFFAOYSA-N
 Ligand Interaction
ORC
Query on ORC

Download Ideal Coordinates CCD File 
H [auth B](R)-N-[1-[4-(3,5-DIMETHYLISOXAZOL-4-YL)PHENYL]ETHYL]-3,5-DIMETHYLISOXAZOLE-4-SULFONAMIDE
C18 H21 N3 O4 S
QXPXDFCURRGQGI-SNVBAGLBSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
D [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth A], F [auth A], G [auth A], I [auth B]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.184 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.252α = 90
b = 64.057β = 96.62
c = 69.691γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-08-17
    Type: Initial release
  • Version 1.1: 2011-10-26
    Changes: Database references
  • Version 1.2: 2017-12-27
    Changes: Database references, Structure summary