3KCF

Crystal structure of TGFbRI complexed with a pyrazolone inhibitor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.235 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 

Literature

Pyrazolone based TGFbetaR1 kinase inhibitors.

Guckian, K., Carter, M.B., Lin, E.Y., Choi, M., Sun, L., Boriack-Sjodin, P.A., Chuaqui, C., Lane, B., Cheung, K., Ling, L., Lee, W.C.

(2010) Bioorg.Med.Chem.Lett. 20: 326-329

  • DOI: 10.1016/j.bmcl.2009.10.108

  • PubMed Abstract: 

    • Interruption of TGFbeta signaling through inhibition of the TGFbetaR1 kinase domain may prove to have beneficial effect in both fibrotic and oncological diseases. Herein we describe the SAR of a novel series of TGFbetaR1 kinase inhibitors containing ...

    Interruption of TGFbeta signaling through inhibition of the TGFbetaR1 kinase domain may prove to have beneficial effect in both fibrotic and oncological diseases. Herein we describe the SAR of a novel series of TGFbetaR1 kinase inhibitors containing a pyrazolone core. Most TGFbetaR1 kinase inhibitors described to date contain a core five-membered ring bearing N as H-bond acceptor. Described herein is a novel strategy to replace the core structure with pyrazolone ring, in which the carbonyl group is designed as an H-bond acceptor to interact with catalytic Lys 232.

    Organizational Affiliation: 

    Biogen Idec Inc., 14 Cambridge Center, Cambridge, MA 02142, USA. kevin.guckian@biogenidec.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TGF-beta receptor type-1
A, B, C, D, E
342Homo sapiensMutation(s): 0 
Gene Names: TGFBR1 (ALK5, SKR4)
EC: 2.7.11.30
Find proteins for P36897 (Homo sapiens)
Go to Gene View: TGFBR1
Go to UniProtKB:  P36897
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4
Download SDF File 
Download CCD File 
A, B, C, D, E
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
JZO
Query on JZO
Download SDF File 
Download CCD File 
A, B, C, D, E
4-[3-(methoxymethyl)phenyl]-1,2-dimethyl-5-quinoxalin-6-yl-1,2-dihydro-3H-pyrazol-3-one
C21 H20 N4 O2
OWJLLMXRMBEWIM-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
JZOIC50: 3690 nM (100) BINDINGDB
JZOKi: 35 nM (100) BINDINGDB
JZOKi: 35 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.235 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 174.025α = 90.00
b = 249.076β = 90.00
c = 138.011γ = 90.00
Software Package:
Software NamePurpose
CNXrefinement
CNXphasing
SCALEPACKdata scaling
HKL-2000data reduction
CBASSdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2009-10-21 
  • Released Date: 2009-12-22 
  • Deposition Author(s): Boriack-Sjodin, P.A.

Revision History 

  • Version 1.0: 2009-12-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance