6VQF | pdb_00006vqf

CRYSTAL STRUCTURE OF RAR-RELATED ORPHAN RECEPTOR C (NHIS-RORGT(244- 487)-L6-SRC1(678-692)) IN COMPLEX WITH AN INVERSE AGONIST


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 
    0.241 (Depositor), 0.246 (DCC) 
  • R-Value Work: 
    0.203 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 
    0.205 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Discovery of BMS-986251: A Clinically Viable, Potent, and Selective ROR gamma t Inverse Agonist.

Cherney, R.J.Cornelius, L.A.M.Srivastava, A.Weigelt, C.A.Marcoux, D.Duan, J.J.Shi, Q.Batt, D.G.Liu, Q.Yip, S.Wu, D.R.Ruzanov, M.Sack, J.Khan, J.Wang, J.Yarde, M.Cvijic, M.E.Mathur, A.Li, S.Shuster, D.Khandelwal, P.Borowski, V.Xie, J.Obermeier, M.Fura, A.Stefanski, K.Cornelius, G.Tino, J.A.Macor, J.E.Salter-Cid, L.Denton, R.Zhao, Q.Carter, P.H.Dhar, T.G.M.

(2020) ACS Med Chem Lett 11: 1221-1227

  • DOI: https://doi.org/10.1021/acsmedchemlett.0c00063
  • Primary Citation Related Structures: 
    6VQF

  • PubMed Abstract: 

    Novel tricyclic analogues were designed, synthesized, and evaluated as RORγt inverse agonists. Several of these compounds were potent in an IL-17 human whole blood assay and exhibited excellent oral bioavailability in mouse pharmacokinetic studies. This led to the identification of compound 5 , which displayed dose-dependent inhibition of IL-17F production in a mouse IL-2/IL-23 stimulated pharmacodynamic model. In addition, compound 5 was studied in mouse acanthosis and imiquimod-induced models of skin inflammation, where it demonstrated robust efficacy comparable to a positive control. As a result of this excellent overall profile, compound 5 (BMS-986251) was selected as a clinically viable developmental candidate.


  • Organizational Affiliation
    • Bristol Myers Squibb Company, Research and Early Development, Princeton, New Jersey 08540-4000, United States.

Macromolecule Content 

  • Total Structure Weight: 33.65 kDa 
  • Atom Count: 2,096 
  • Modeled Residue Count: 252 
  • Deposited Residue Count: 285 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Nuclear receptor ROR-gamma285Homo 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 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
R7V
(Subject of Investigation/LOI)

Query on R7V



Download:Ideal Coordinates CCD File
B [auth A](1R,3S,4R)-4-[(3aR,9bR)-9b-[(4-fluorophenyl)sulfonyl]-7-(1,1,1,2,3,3,3-heptafluoropropan-2-yl)-1,2,3a,4,5,9b-hexahydro-3H-benzo[e]indole-3-carbonyl]-3-methylcyclohexane-1-carboxylic acid
C30 H29 F8 N O5 S
JQORWGARJVSRBA-QOTTZFGFSA-N
GOL

Query on GOL



Download:Ideal Coordinates CCD File
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
R7V BindingDB:  6VQF EC50: min: 11, max: 24 (nM) from 3 assay(s)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free:  0.241 (Depositor), 0.246 (DCC) 
  • R-Value Work:  0.203 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 0.205 (Depositor) 
Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.507α = 90
b = 61.507β = 90
c = 157.911γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
Aimlessdata scaling
BUSTERrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2020-04-08 
  • Deposition Author(s): Sack, J.S.

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-08
    Type: Initial release
  • Version 1.1: 2020-07-01
    Changes: Database references
  • Version 1.2: 2023-10-11
    Changes: Data collection, Database references, Refinement description