Crystal structure of TGFbRI complexed with a pyrazolone inhibitor

Experimental Data Snapshot

  • Resolution: 2.80 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.237 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


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: https://doi.org/10.1016/j.bmcl.2009.10.108
  • Primary Citation of Related Structures:  

  • 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 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

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TGF-beta receptor type-1
A, B, C, D, E
342Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P36897 (Homo sapiens)
Explore P36897 
Go to UniProtKB:  P36897
GTEx:  ENSG00000106799 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36897
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on JZO

Download Ideal Coordinates CCD File 
F [auth A],
J [auth B],
N [auth C],
P [auth D],
T [auth E]
C21 H20 N4 O2
Query on PO4

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
I [auth A]
K [auth B]
L [auth B]
G [auth A],
H [auth A],
I [auth A],
K [auth B],
L [auth B],
M [auth B],
O [auth C],
Q [auth D],
R [auth D],
S [auth D],
U [auth E],
V [auth E],
W [auth E]
O4 P
Binding Affinity Annotations 
IDSourceBinding Affinity
JZO BindingDB:  3KCF Ki: 35 (nM) from 1 assay(s)
IC50: 3690 (nM) from 1 assay(s)
PDBBind:  3KCF Ki: 35 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.80 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.237 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 174.025α = 90
b = 249.076β = 90
c = 138.011γ = 90
Software Package:
Software NamePurpose
CBASSdata collection
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-12-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Data collection, Database references, Derived calculations
  • Version 1.3: 2024-04-03
    Changes: Refinement description