7MCE

CRYSTAL STRUCTURE OF THE FIRST BROMODOMAIN OF HUMAN BRD4 IN COMPLEX WITH 2-{(7P)-7-(1,4-dimethyl-1H-1,2,3-triazol-5-yl)-8-fluoro-5-[(S)-(oxan-4-yl)(phenyl)methyl]-5H-pyrido[3,2-b]indol-3-yl}propan-2-ol

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.243 
  • R-Value Observed: 0.246 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history. 


Literature

Development of BET inhibitors as potential treatments for cancer: A new carboline chemotype.

Hill, M.D., Quesnelle, C., Tokarski, J., Fang, H., Fanslau, C., Haarhoff, Z., Kramer, M., Madari, S., Wiebesiek, A., Morrison, J., Simmermacher-Mayer, J., Sinz, M., Westhouse, R., Xie, C., Zhao, J., Huang, L., Sheriff, S., Yan, C., Marsilio, F., Everlof, G., Zvyaga, T., Lee, F., Gavai, A.V., Degnan, A.P.

(2021) Bioorg Med Chem Lett 51: 128376-128376

  • DOI: https://doi.org/10.1016/j.bmcl.2021.128376
  • Primary Citation of Related Structures:  
    7MCE

  • PubMed Abstract: 

    We describe our efforts to introduce structural diversity to a previously described triazole-containing N1-carboline series of bromodomain and extra-terminal (BET) inhibitors. N9 carbolines were designed to retain favorable binding interactions that the N1-carbolines possess. A convergent synthetic route enabled modifications to reduce clearance, enhance physicochemical properties, and improve the overall in vitro profile. This work led to the identification of a potent BET inhibitor, (S)-2-{8-fluoro-5-[(3-fluoropyridin-2-yl)(oxan-4-yl)methyl]-7-[4-( 2 H 3 )methyl-1-methyl-1H-1,2,3-triazol-5-yl]-5H-pyrido[3,2-b]indol-3-yl}propan-2-ol (10), a compound with enhanced oral exposure in mice. Subsequent evaluation in a mouse triple-negative breast cancer tumor model revealed efficacy at 4 mg/kg of N9-carboline 10.

    • Organizational Affiliation: 

    Bristol Myers Squibb Research and Development, 100 Binney St, Cambridge, MA 02142-1096, USA. Electronic address: matthew.hill@bms.com.


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Bromodomain-containing protein 4128Homo sapiensMutation(s): 0 
Gene Names: BRD4, HUNK1
UniProt & NIH Common Fund Data Resources
Find proteins for O60885 (Homo sapiens)
Explore O60885 
Go to UniProtKB:  O60885
PHAROS:  O60885
GTEx:  ENSG00000141867 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO60885
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
YWY (Subject of Investigation/LOI)
Query on YWY
Download Ideal Coordinates CCD File 
B [auth A]2-{(7P)-7-(1,4-dimethyl-1H-1,2,3-triazol-5-yl)-8-fluoro-5-[(S)-(oxan-4-yl)(phenyl)methyl]-5H-pyrido[3,2-b]indol-3-yl}propan-2-ol
C30 H32 F N5 O2
AIWLOFZSVQLGOB-GDLZYMKVSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.243 
  • R-Value Observed: 0.246 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.5α = 90
b = 42.5β = 90
c = 124.9γ = 120
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing
BUSTERrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

  • Released Date: 2021-09-29 
    • Deposition Author(s): Sheriff, S.
Funding OrganizationLocationGrant Number
Other privateUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-29
    Type: Initial release
  • Version 1.1: 2021-10-06
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description