5I89

Crystal structure of the bromodomain of human CREBBP bound to the benzodiazepinone G02857790


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.07 Å
  • R-Value Free: 0.137 
  • R-Value Work: 0.117 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Fragment-Based Discovery of a Selective and Cell-Active Benzodiazepinone CBP/EP300 Bromodomain Inhibitor (CPI-637).

Taylor, A.M.Cote, A.Hewitt, M.C.Pastor, R.Leblanc, Y.Nasveschuk, C.G.Romero, F.A.Crawford, T.D.Cantone, N.Jayaram, H.Setser, J.Murray, J.Beresini, M.H.de Leon Boenig, G.Chen, Z.Conery, A.R.Cummings, R.T.Dakin, L.A.Flynn, E.M.Huang, O.W.Kaufman, S.Keller, P.J.Kiefer, J.R.Lai, T.Li, Y.Liao, J.Liu, W.Lu, H.Pardo, E.Tsui, V.Wang, J.Wang, Y.Xu, Z.Yan, F.Yu, D.Zawadzke, L.Zhu, X.Zhu, X.Sims, R.J.Cochran, A.G.Bellon, S.Audia, J.E.Magnuson, S.Albrecht, B.K.

(2016) Acs Med.Chem.Lett. 7: 531-536

  • DOI: 10.1021/acsmedchemlett.6b00075
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • CBP and EP300 are highly homologous, bromodomain-containing transcription coactivators involved in numerous cellular pathways relevant to oncology. As part of our effort to explore the potential therapeutic implications of selectively targeting bromo ...

    CBP and EP300 are highly homologous, bromodomain-containing transcription coactivators involved in numerous cellular pathways relevant to oncology. As part of our effort to explore the potential therapeutic implications of selectively targeting bromodomains, we set out to identify a CBP/EP300 bromodomain inhibitor that was potent both in vitro and in cellular target engagement assays and was selective over the other members of the bromodomain family. Reported here is a series of cell-potent and selective probes of the CBP/EP300 bromodomains, derived from the fragment screening hit 4-methyl-1,3,4,5-tetrahydro-2H-benzo[b][1,4]diazepin-2-one.


    Organizational Affiliation

    Constellation Pharmaceuticals , 215 First Street, Suite 200, Cambridge, Massachusetts 02142, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CREB-binding protein
A
118Homo sapiensMutation(s): 0 
Gene Names: CREBBP (CBP)
EC: 2.3.1.48
Find proteins for Q92793 (Homo sapiens)
Go to Gene View: CREBBP
Go to UniProtKB:  Q92793
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
69B
Query on 69B

Download SDF File 
Download CCD File 
A
(4R)-6-(3-cyclopropyl-1-methyl-1H-indazol-5-yl)-4-methyl-1,3,4,5-tetrahydro-2H-1,5-benzodiazepin-2-one
C21 H22 N4 O
RUOHSEWJRWMCPQ-GFCCVEGCSA-N
 Ligand Interaction
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
69BIC50: 33 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.07 Å
  • R-Value Free: 0.137 
  • R-Value Work: 0.117 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 94.283α = 90.00
b = 34.321β = 106.82
c = 40.005γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling
PDB_EXTRACTdata extraction
REFMACrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-04-20
    Type: Initial release
  • Version 1.1: 2016-06-01
    Type: Database references