3DBD

Crystal structure of an activated (Thr->Asp) Polo-like kinase 1 (Plk1) catalytic domain in complex with Compound 094


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.250 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Design and synthesis of 2-amino-pyrazolopyridines as Polo-like kinase 1 inhibitors.

Fucini, R.V.Hanan, E.J.Romanowski, M.J.Elling, R.A.Lew, W.Barr, K.J.Zhu, J.Yoburn, J.C.Liu, Y.Fahr, B.T.Fan, J.Lu, Y.Pham, P.Choong, I.C.VanderPorten, E.C.Bui, M.Purkey, H.E.Evanchik, M.J.Yang, W.

(2008) Bioorg.Med.Chem.Lett. 18: 5648-5652

  • DOI: 10.1016/j.bmcl.2008.08.095
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of 2-amino-pyrazolopyridines was designed and synthesized as Polo-like kinase (Plk) inhibitors based on a low micromolar hit. The SAR was developed to provide compounds exhibiting low nanomolar inhibitory activity of Plk1; the phenotype of t ...

    A series of 2-amino-pyrazolopyridines was designed and synthesized as Polo-like kinase (Plk) inhibitors based on a low micromolar hit. The SAR was developed to provide compounds exhibiting low nanomolar inhibitory activity of Plk1; the phenotype of treated cells is consistent with Plk1 inhibition. A co-crystal structure of one of these compounds with zPlk1 confirms an ATP-competitive binding mode.


    Organizational Affiliation

    Department of Biology, Sunesis Pharmaceuticals, Inc., 395 Oyster Point Boulevard Suite 400, South San Francisco, CA 94080, USA. rfucini@sunesis.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polo-like kinase 1
A
317Danio rerioMutation(s): 1 
Gene Names: plk1
EC: 2.7.11.21
Find proteins for Q4KMI8 (Danio rerio)
Go to UniProtKB:  Q4KMI8
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
3FR
Query on 3FR

Download SDF File 
Download CCD File 
A
3'-chloro-5'-(3-methyl-6-{[(1S)-1-phenylethyl]amino}-1H-pyrazolo[4,3-c]pyridin-1-yl)biphenyl-2-carboxamide
3'-chloro-5'-[3-methyl-6-(1-phenyl-ethylamino)-pyrazolo[4,3-c]pyridin-1-yl]-biphenyl-2-carboxylic acid amide
C28 H24 Cl N5 O
IFCBXJXWEYHVPY-KRWDZBQOSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
3FRIC50: 42 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.250 
  • Space Group: I 2 3
Unit Cell:
Length (Å)Angle (°)
a = 135.267α = 90.00
b = 135.267β = 90.00
c = 135.267γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
REFMACrefinement
MOLREPphasing
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-10-07
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance