Selective & Brain-Permeable Polo-like Kinase-2 (Plk-2) Inhibitors that Reduce -Synuclein Phosphorylation in Rat Brain

Experimental Data Snapshot

  • Resolution: 1.80 Å
  • R-Value Free: 0.392 
  • R-Value Work: 0.320 
  • R-Value Observed: 0.324 

wwPDB Validation   3D Report Full Report

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Selective and brain-permeable polo-like kinase-2 (Plk-2) inhibitors that reduce alpha-synuclein phosphorylation in rat brain.

Aubele, D.L.Hom, R.K.Adler, M.Galemmo, R.A.Bowers, S.Truong, A.P.Pan, H.Beroza, P.Neitz, R.J.Yao, N.Lin, M.Tonn, G.Zhang, H.Bova, M.P.Ren, Z.Tam, D.Ruslim, L.Baker, J.Diep, L.Fitzgerald, K.Hoffman, J.Motter, R.Fauss, D.Tanaka, P.Dappen, M.Jagodzinski, J.Chan, W.Konradi, A.W.Latimer, L.Zhu, Y.L.Sham, H.L.Anderson, J.P.Bergeron, M.Artis, D.R.

(2013) ChemMedChem 8: 1295-1313

  • DOI: https://doi.org/10.1002/cmdc.201300166
  • Primary Citation of Related Structures:  
    4I5M, 4I5P, 4I6B, 4I6F, 4I6H

  • PubMed Abstract: 

    Polo-like kinase-2 (Plk-2) has been implicated as the dominant kinase involved in the phosphorylation of α-synuclein in Lewy bodies, which are one of the hallmarks of Parkinson's disease neuropathology. Potent, selective, brain-penetrant inhibitors of Plk-2 were obtained from a structure-guided drug discovery approach driven by the first reported Plk-2-inhibitor complexes. The best of these compounds showed excellent isoform and kinome-wide selectivity, with physicochemical properties sufficient to interrogate the role of Plk-2 inhibition in vivo. One such compound significantly decreased phosphorylation of α-synuclein in rat brain upon oral administration and represents a useful probe for future studies of this therapeutic avenue toward the potential treatment of Parkinson's disease.

  • Organizational Affiliation

    Molecular Discovery, Elan Pharmaceuticals, 180 Oyster Point Boulevard, South San Francisco, CA 94080, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase PLK2308Homo sapiensMutation(s): 7 
Gene Names: PLK2SNK
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NYY3 (Homo sapiens)
Explore Q9NYY3 
Go to UniProtKB:  Q9NYY3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9NYY3
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on R78

Download Ideal Coordinates CCD File 
B [auth A]4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide
C28 H39 N7 O3
Binding Affinity Annotations 
IDSourceBinding Affinity
R78 BindingDB:  4I5M Ki: 1 (nM) from 1 assay(s)
Kd: 0.81 (nM) from 1 assay(s)
IC50: min: 14, max: 30 (nM) from 3 assay(s)
PDBBind:  4I5M IC50: 8.8 (nM) from 1 assay(s)
Binding MOAD:  4I5M IC50: 8.8 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.80 Å
  • R-Value Free: 0.392 
  • R-Value Work: 0.320 
  • R-Value Observed: 0.324 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 104.329α = 90
b = 60.217β = 107.4
c = 53.213γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History