4BBF

Aminoalkylpyrimidine Inhibitor Complexes with JAK2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.232 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Sar and in Vivo Evaluation of 4-Aryl-2-Aminoalkylpyrimidines as Potent and Selective Janus Kinase 2 (Jak2) Inhibitors

Forsyth, T.Kearney, P.C.Kim, B.G.Johnson, H.W.B.Aay, N.Arcalas, A.Brown, D.S.Chan, V.Chen, J.Du, H.Epshteyn, S.Galan, A.A.Huynh, T.P.Ibrahim, M.A.Kane, B.Koltun, E.Mann, G.Meyr, L.E.Lee, M.S.Lewis, G.L.Noguchi, R.T.Pack, M.Ridgway, B.H.Shi, X.Takeuchi, C.S.Zu, P.Leahy, J.W.Nuss, J.M.Aoyama, R.Engst, S.Gendreau, S.B.Kassees, R.Li, J.Lin, S.-H.Martini, J.-F.Stout, T.Tong, P.Woolfrey, J.Zhang, W.Yu, P.

(2012) Bioorg Med Chem Lett 22: 7653

  • DOI: 10.1016/j.bmcl.2012.10.007
  • Primary Citation of Related Structures:  
    4BBE, 4BBF

  • PubMed Abstract: 
  • We report the discovery of a series of 4-aryl-2-aminoalkylpyrimidine derivatives as potent and selective JAK2 inhibitors. High throughput screening of our in-house compound library led to the identification of hit 1, from which optimization resulted in the discovery of highly potent and selective JAK2 inhibitors ...

    We report the discovery of a series of 4-aryl-2-aminoalkylpyrimidine derivatives as potent and selective JAK2 inhibitors. High throughput screening of our in-house compound library led to the identification of hit 1, from which optimization resulted in the discovery of highly potent and selective JAK2 inhibitors. Advanced lead 10d demonstrated a significant dose-dependent pharmacodynamic and antitumor effect in a mouse xenograft model. Based upon the desirable profile of 10d (XL019) it was advanced into clinical trials.


    Organizational Affiliation

    Exelixis, Department of Drug Discovery, 169 Harbor Way, South San Francisco, CA 94083, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TYROSINE-PROTEIN KINASE JAK2A, B, C, D298Homo sapiensMutation(s): 1 
Gene Names: JAK2
EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for O60674 (Homo sapiens)
Explore O60674 
Go to UniProtKB:  O60674
PHAROS:  O60674
GTEx:  ENSG00000096968 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO60674
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
O19
Query on O19

Download Ideal Coordinates CCD File 
E [auth A],
F [auth B],
G [auth C],
H [auth D]
(2R)-N-[4-[2-[(4-morpholin-4-ylphenyl)amino]pyrimidin-4-yl]phenyl]pyrrolidine-2-carboxamide
C25 H28 N6 O2
ISOCDPQFIXDIMS-HSZRJFAPSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
O19 BindingDB:  4BBF IC50: min: 2.2, max: 695 (nM) from 3 assay(s)
PDBBind:  4BBF IC50: 2.2 (nM) from 1 assay(s)
Binding MOAD:  4BBF IC50: 2.2 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.232 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 68.946α = 75.53
b = 76.008β = 67
c = 88.179γ = 63.04
Software Package:
Software NamePurpose
REFMACrefinement
d*TREKdata reduction
DTSCALEAVERAGEdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 



Entry History 

Deposition Data

  • Deposited Date: 2012-09-21 
  • Released Date: 2012-11-21 
  • Deposition Author(s): Li, J.

Revision History  (Full details and data files)

  • Version 1.0: 2012-11-21
    Type: Initial release
  • Version 1.1: 2012-12-19
    Changes: Database references
  • Version 1.2: 2017-06-28
    Changes: Data collection