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C. Peifer et al. / European Journal of Medicinal Chemistry 44 (2009) 1788e1793
5.3.6. 2-(6-Amino-9H-purine-9-yl)-1-(pyridine-3-yl)
ethanone (6)
Theassayfor all enzymes contained 60 mM HEPESeNaOH,
pH 7.5, 3 mM MgCl2, 3 mM MnCl2, 3 mM Na-orthovanadate,
1.2 mM DTT, 50 mg/ml PEG20000, 1 mM [g-33P]-ATP
(approx. 5 ꢁ 105 cpm/well), recombinant protein kinase
(50e400 ng). Depending on the kinase, the following sub-
strate proteins were used: AKT1 (GSK3/14-27), ARK5 (auto-
phosphorylation), Aurora-A, Aurora-B (Tetra(LRRWSLG)),
B-Raf-VE (MEK1 KM), CDK2/CycA (histone H1), CDK4/
CycD1 (Rb-CTF), CK2-A1 (casein), EGF-R, EPHB4,
ERBB2, FAK, IGF1-R, SRC, VEGF-R2, VEGF-R3 (poly
(Glu,Tyr) 4:1), FLT3, INS-R, MET, PDGFRbeta (poly
(Ala,Glu,Lys,Tyr) 6:2:5:1), PLK1 (Casein), SAK (autophos-
phorylation), TIE2 (poly(Glu,Tyr) 4:1), COT (autophosphory-
lation). The IC50 values were measured by testing 10
concentrations of compounds in singlicate. As a parameter
for assay quality, the Z0-factor for the low and high controls
of each assay plate (n ¼ 8) was used (see Supporting informa-
tion). The final DMSO concentration in the assay was 1%.
The reaction cocktails were incubated at 30 ꢂC for 80 min.
The reaction was stopped with 50 ml of 2% (v/v) H3PO4,
plates were aspirated and washed two times with 200 ml of
0.9% (w/v) NaCl. Incorporation of 33Pi was determined with
a microplate scintillation counter (Microbeta Trilux, Wallac).
All assays were performed with a BeckmanCoulter/Sagian ro-
botic system.
The compound was synthesized following general proce-
dures for N9 alkylation of 6-chloro-9H-purine and SN reaction
(yield 62.8%). 1H NMR DMSO-d6; 200 MHz, d [ppm] ¼ 5.92
(s, 2H), 7.25 (s, 2H), 7.8 (m, 1H), 7.9e8.1 (m, 4H); 8.8 (s,
1H). MS: m/z ¼ 254 (Mþ). HRMS C12H10N6O: 254.09232
calc. 254.09158.
5.3.7. 2-(6-Methoxy-9H-purine-9-yl)-1-phenylethanone (7)
The compound was synthesized following general proce-
dures for N9 alkylation of 6-chloro-9H-purine. The SN reaction
was performed with methanolic ammonia to yield 21% of 1 and
57.6% of 7. 1H NMR Aceton-d6; 200 MHz, d [ppm] ¼ 4.15 (s,
3H), 6.02 (s, 2H), 7.58e7.68 (m, 2H), 7.71e7.80 (m, 1H),
8.13e8.20 (m, 2H), 8.25 (s, 1H), 8.44 (s, 1H). 13C NMR Ace-
ton-d6; 50 MHz, d [ppm] ¼ 49.35, 53.36, 120.76, 127.99,
128.88, 133.98, 134.46, 143.96, 151.54, 152.84, 160.80,
191.80. MS: m/z ¼ 268 (Mþ). HRMS C14H12N4O2:
268.09713 calc. 268.0960. Melting point: 156.5 ꢂC.
5.3.8. 2-(6-Methoxy-7H-purine-7-yl)-1-phenylethanone
(8) [12]
The compound was synthesized following general proce-
dures for N7 alkylation of 6-chloro-9H-purine. The SN reaction
was performed with methanolic ammonia to yield 35% of 2 and
The specificity testing of compounds 1 and 2 was
performed by the Division of Signal Transduction Therapy,
University of Dundee, Scotland. Details of the kinase assay
panel are available in the Supporting information.
1
49.5% of 8. H NMR methanol-d4; 200 MHz, d [ppm] ¼ 3.35
(s, 2H), 4.00 (s, 3H), 7.56e7.65 (m, 2H), 7.69e7.78 (m, 1H),
8.08e8.14 (m, 2H), 8.37 (s, 1H), 8.56 (s, 1H). 13C NMR meth-
anol-d4; 50 MHz, d [ppm] ¼ 48.33, 53.32, 127.71, 128.67,
128.67, 133.92, 134.13, 147.20, 151.62, 157.51, 160.30,
192.41. MS: m/z ¼ 268 (Mþ). HRMS C14H12N4O2:
268.09647 calc. 268.0960. Melting point: 165.7 ꢂC.
5.5. Molecular modelling
All modellings were performed on a RedHat Linux system.
For visualization and building the structures SYBYL 7.2 was
used. The Connolly surface was calculated using the MOL-
CAD module in Sybyl and coloured according to the lipophi-
licity (from very hydrophobic to hydrophilic corresponds to
brown over green to blue). Compound 1 was docked into
the active site of VEGFR-2 and EGF-R using the FlexX dock-
ing program [23]. The FlexX scoring function was applied
during the placement and construction phase of the ligands
and DrugScore for the final ranking [24]. The 3D coordinates
of the VEGFR-2 catalytic core in complex with a 2-anilino-5-
aryl-oxazole inhibitor were taken from the Brookhaven Pro-
tein Databank PDB code 1Y6A [7] and of the EGF-R catalytic
domain from PDB 1XKK [18].
5.3.9. 2-[6-(Dimethylamine)-9H-purine-9-yl]-1-(1H-indole-
3-yl)ethanone (9)
The compound was obtained following general procedures
for N9 alkylation of 6-chloro-9H-purine in DMF to yield 10%
of 2-(6-Chloro-9H-purine-9-yl)-1-(1H-indole-3-yl)ethanone
and 42.3% of 3. 1H NMR DMSO-d6; 200 MHz, d [ppm] ¼ 3.37
(s, 6H), 5.68 (s, 2H), 7.14e7.28 (m, 2H), 7.49e7.56 (d, 1H),
8.05e8.12 (d, 1H), 8.13e8.18 (2H), 8.65 (s, 1H), 12.12 (s, 1H).
13C NMR DMSO-d6; 50 MHz. d [ppm] ¼ 30.87, 50.10, 112.70,
113.55, 118.89, 121.29, 122.78, 123.81, 125.29, 134.44,
136.58, 141.29, 150.60, 152.05, 154.49, 187.52. MS: m/z ¼ 321
(M þ Hþ). HRMS C17H16N6O: 320.13728 calc. 320.13853.
The HPLC retention times and purity data of all compounds
are available in the Supporting information.
5.4. Selectivity profiling of compounds by IC50 values
using 24 protein kinases
Acknowledgements
We are grateful to BERGHOF Products & Instruments
GmbH, Lab-Technik, Harretstr.1, D-72800 Eningen, Germany
for technical support by the high pressure reactor BR-25. The
specificity testing of compounds 1 and 2 over 78 PKs was
performed by the Division of Signal Transduction Therapy,
University of Dundee and is gratefully acknowledged.
A proprietary protein kinase assay (33PanQinaseÒ Activity
Assay) was used for measuring the kinase activity of the 24
protein kinases. All kinase assays were performed in 96-well
FlashPlatesTM from Perkin Elmer/NEN (Boston, MA, USA)
in a 50 ml reaction volume.