5UFR

Structure of RORgt bound to


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Identification and structure activity relationships of quinoline tertiary alcohol modulators of ROR gamma t.

Kummer, D.A.Cummings, M.D.Abad, M.Barbay, J.Castro, G.Wolin, R.Kreutter, K.D.Maharoof, U.Milligan, C.Nishimura, R.Pierce, J.Schalk-Hihi, C.Spurlino, J.Urbanski, M.Venkatesan, H.Wang, A.Woods, C.Xue, X.Edwards, J.P.Fourie, A.M.Leonard, K.

(2017) Bioorg Med Chem Lett 27: 2047-2057

  • DOI: https://doi.org/10.1016/j.bmcl.2017.02.044
  • Primary Citation of Related Structures:  
    5UFO, 5UFR, 5UHI

  • PubMed Abstract: 

    A high-throughput screen of the ligand binding domain of the nuclear receptor retinoic acid-related orphan receptor gamma t (RORγt) employing a thermal shift assay yielded a quinoline tertiary alcohol hit. Optimization of the 2-, 3- and 4-positions of the quinoline core using structure-activity relationships and structure-based drug design methods led to the discovery of a series of modulators with improved RORγt inhibitory potency and inverse agonism properties.


  • Organizational Affiliation

    Discovery Immunology, Janssen Research and Development, 3210 Merryfield Row, San Diego, CA 92121, United States. Electronic address: dkummer1@its.jnj.com.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear receptor ROR-gamma
A, B
258Homo 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
88J
Query on 88J

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
(S)-[4-chloro-2-(dimethylamino)-3-phenylquinolin-6-yl](1-methyl-1H-imidazol-5-yl)(pyridin-4-yl)methanol
C27 H24 Cl N5 O
SEJAMGYPDDPTHR-HHHXNRCGSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
88J BindingDB:  5UFR Kd: 290 (nM) from 1 assay(s)
IC50: min: 7.5, max: 11 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 104.089α = 90
b = 107.053β = 90
c = 124.122γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
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: 2017-04-05
    Type: Initial release
  • Version 1.1: 2017-04-26
    Changes: Database references
  • Version 1.2: 2024-03-06
    Changes: Data collection, Database references