7UZN

CRYSTAL STRUCTURE OF THE FIRST BROMODOMAIN OF HUMAN BRD4 IN COMPLEX WITH BMT-206059 AKA 2-{(3M)-3-(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-7-YL}PROPAN-2-OL, TRIPLY DEUTERATED ON THE 4-METHYL GROUP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Development of BET Inhibitors as Potential Treatments for Cancer: Optimization of Pharmacokinetic Properties.

Hill, M.D.Fang, H.Norris, D.Delucca, G.V.Huang, H.DeBenedetto, M.Quesnelle, C.Schmitz, W.D.Tokarski, J.S.Sheriff, S.Yan, C.Fanslau, C.Haarhoff, Z.Huang, C.Kramer, M.Madari, S.Menard, K.Monereau, L.Morrison, J.Raghavan, N.Shields, E.E.Simmermacher-Mayer, J.Sinz, M.Tye, C.K.Westhouse, R.Xie, C.Zhang, H.Zhang, L.Zvyaga, T.Lee, F.Gavai, A.V.Degnan, A.P.

(2022) ACS Med Chem Lett 13: 1165-1171

  • DOI: https://doi.org/10.1021/acsmedchemlett.2c00219
  • Primary Citation of Related Structures:  
    7UZN

  • PubMed Abstract: 

    We describe the synthesis of triazole-containing carboline derivatives and their utility as bromodomain and extra-terminal (BET) inhibitors. A convergent synthetic route permitted the detailed investigation of deuteration and fluorination strategies to reduce clearance while maintaining a favorable in vitro profile. This work led to the identification of a potent BET inhibitor, 2-{8-fluoro-3-[4-( 2 H 3 )methyl-1-methyl-1 H -1,2,3-triazol-5-yl]-5-[( S )-(oxan-4-yl)(phenyl)methyl]-5 H -pyrido[3,2- b ]indol-7-yl}propan-2-ol ( 15 ), which demonstrated reduced clearance and an improved pharmacokinetic (PK) profile across preclinical species. Importantly, no major metabolite was observed when 15 was incubated with human hepatocytes (hHEP) for 2 h. This study culminated with the evaluation of 15 in a mouse triple-negative breast cancer (TNBC) tumor model where it demonstrated robust efficacy at low doses.


  • Organizational Affiliation

    Research & Development, Bristol Myers Squibb Company, 100 Binney Street, Cambridge, Massachusetts 02142, United States.


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: BRD4HUNK1
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 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PQF (Subject of Investigation/LOI)
Query on PQF

Download Ideal Coordinates CCD File 
B [auth A]2-{(3M)-3-(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-7-yl}propan-2-ol
C30 H32 F N5 O2
UJARZGSRRXPOTK-GDLZYMKVSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
D [auth A],
E [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
NA
Query on NA

Download Ideal Coordinates CCD File 
C [auth A]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 41.549α = 90
b = 46.168β = 90
c = 58.745γ = 90
Software Package:
Software NamePurpose
autoPROCdata processing
autoPROCdata processing
Aimlessdata scaling
STARANISOdata scaling
BUSTERrefinement
XDSdata reduction
AMoREphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data

  • Released Date: 2022-08-17 
  • Deposition Author(s): Sheriff, S.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-17
    Type: Initial release
  • Version 1.1: 2023-10-18
    Changes: Data collection, Refinement description