4WLB

Crystal structure of RORc in complex with a partial inverse agonist compound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.182 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

A reversed sulfonamide series of selective RORc inverse agonists.

van Niel, M.B.Fauber, B.P.Cartwright, M.Gaines, S.Killen, J.C.Rene, O.Ward, S.I.de Leon Boenig, G.Deng, Y.Eidenschenk, C.Everett, C.Gancia, E.Ganguli, A.Gobbi, A.Hawkins, J.Johnson, A.R.Kiefer, J.R.La, H.Lockey, P.Norman, M.Ouyang, W.Qin, A.Wakes, N.Waszkowycz, B.Wong, H.

(2014) Bioorg Med Chem Lett 24: 5769-5776

  • DOI: 10.1016/j.bmcl.2014.10.037
  • Primary Citation of Related Structures:  
    4WLB

  • PubMed Abstract: 
  • The identification of a new series of RORc inverse agonists is described. Comprehensive structure-activity relationship studies of this reversed sulfonamide series identified potent RORc inverse agonists in biochemical and cellular assays which were also selective against a panel of nuclear receptors ...

    The identification of a new series of RORc inverse agonists is described. Comprehensive structure-activity relationship studies of this reversed sulfonamide series identified potent RORc inverse agonists in biochemical and cellular assays which were also selective against a panel of nuclear receptors. Our work has contributed a compound that may serve as a useful in vitro tool to delineate the complex biological pathways involved in signalling through RORc. An X-ray co-crystal structure of an analogue with RORc has also provided useful insights into the binding interactions of the new series.


    Organizational Affiliation

    Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Nuclear receptor ROR-gamma AB265Homo sapiensMutation(s): 0 
Gene Names: RORCNR1F3RORGRZRG
Find proteins for P51449 (Homo sapiens)
Explore P51449 
Go to UniProtKB:  P51449
NIH Common Fund Data Resources
PHAROS:  P51449
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
SRC-1 peptide DE8Homo sapiensMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
3QQ
Query on 3QQ

Download Ideal Coordinates CCD File 
A, B
N-(4-fluorobenzyl)-N-(2-methylpropyl)-6-{[1-(methylsulfonyl)piperidin-4-yl]amino}pyridine-3-sulfonamide
C22 H31 F N4 O4 S2
AUXZRHVPMQIECB-UHFFFAOYSA-N
 Ligand Interaction
TLA
Query on TLA

Download Ideal Coordinates CCD File 
A
L(+)-TARTARIC ACID
C4 H6 O6
FEWJPZIEWOKRBE-JCYAYHJZSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
3QQIC50:  180   nM  BindingDB
3QQEC50:  520   nM  BindingDB
3QQIC50:  180   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.182 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.787α = 90
b = 86.258β = 90
c = 91.854γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-11-12
    Type: Initial release
  • Version 1.1: 2014-12-17
    Changes: Database references
  • Version 1.2: 2017-11-22
    Changes: Database references, Derived calculations, Other, Refinement description, Source and taxonomy