6CVH | pdb_00006cvh

Identification and biological evaluation of thiazole-based inverse agonists of RORgt


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 
    0.310 (Depositor), 0.314 (DCC) 
  • R-Value Work: 
    0.260 (Depositor), 0.265 (DCC) 
  • R-Value Observed: 
    0.265 (Depositor) 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Identification and biological evaluation of thiazole-based inverse agonists of ROR gamma t.

Gege, C.Cummings, M.D.Albers, M.Kinzel, O.Kleymann, G.Schluter, T.Steeneck, C.Nelen, M.I.Milligan, C.Spurlino, J.Xue, X.Leonard, K.Edwards, J.P.Fourie, A.Goldberg, S.D.Hoffmann, T.

(2018) Bioorg Med Chem Lett 28: 1446-1455

  • DOI: https://doi.org/10.1016/j.bmcl.2018.03.093
  • Primary Citation Related Structures: 
    6CVH

  • PubMed Abstract: 

    The nuclear receptor retinoic acid receptor-related orphan receptor gamma t (RORγt) is a transcription factor that drives Th17 cell differentiation and IL-17 production in both innate and adaptive immune cells. The IL-23/IL-17 pathway is implicated in major autoimmune and inflammatory diseases. RORγt lies at the core of this pathway and represents an attractive opportunity for intervention with a small molecule. Despite diverse chemical series having been reported, combining high potency and nuclear receptor selectivity with good physicochemical properties remains a challenging endeavor in the field of RORγt drug discovery. We describe the discovery and evaluation of a new class of potent and selective RORγt inverse agonists based on a thiazole core. Acid analog 1j demonstrated oral bioavailability in rats and was potent in a human whole blood assay, suggesting potential utility in treating autoimmune and inflammatory diseases such as psoriasis. X-ray crystallographic data helped to elucidate the molecular mechanism for RORγt inhibition with this series.


  • Organizational Affiliation
    • Phenex Pharmaceuticals AG, Waldhofer Strasse 104, 69123 Heidelberg, Germany. Electronic address: christian.gege@web.de.

Macromolecule Content 

  • Total Structure Weight: 27.03 kDa 
  • Atom Count: 1,893 
  • Modeled Residue Count: 227 
  • Deposited Residue Count: 227 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Nuclear receptor ROR-gamma227Homo sapiensMutation(s): 0 
Gene Names: RORCNR1F3RORGRZRG
UniProt & NIH Common Fund Data Resources
Find proteins for P51449 (Homo sapiens)
Explore P51449 
Go to UniProtKB:  P51449
PHAROS:  P51449
GTEx:  ENSG00000143365 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP51449
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FJG
(Subject of Investigation/LOI)

Query on FJG



Download:Ideal Coordinates CCD File
B [auth A]trans-3-({4-(cyclohexylmethyl)-5-[3-(1-methylcyclopropyl)-5-{[(2R)-1,1,1-trifluoropropan-2-yl]carbamoyl}phenyl]-1,3-thiazole-2-carbonyl}amino)cyclobutane-1-carboxylic acid
C30 H36 F3 N3 O4 S
PSFPATVFAWGHAJ-BSLALVQMSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free:  0.310 (Depositor), 0.314 (DCC) 
  • R-Value Work:  0.260 (Depositor), 0.265 (DCC) 
  • R-Value Observed: 0.265 (Depositor) 
Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.378α = 90
b = 92.378β = 90
c = 141.898γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-04-25
    Type: Initial release
  • Version 1.1: 2018-05-02
    Changes: Data collection, Database references
  • Version 1.2: 2024-03-13
    Changes: Data collection, Database references