3634
G. F. Filzen et al. / Bioorg. Med. Chem. Lett. 17 (2007) 3630–3635
Table 2. Activity of indole based compounds
O
R
OH
N
Y
X
16a-g
a,c
IC50 (nM)
b,c
EC50 PPARd
(nM)
Compound
X
R
Y = lipophilic tail
Fold selectivity: hPPARd
vs. hPPARa
hPPARd
hPPARc
hPPARa
a
b
c
d
e
f
O
O
O
O
O
O
S
H
A
6.8
31
550
835
>10,000
>10,000
NT
81
27
3
223
H
5-MeO
C
1390
225
A
41
121
H
H
H
H
o-D
m-D
p-D
A
734
13
>10,000
179
562
>10,000
>10,000
>10,000
>10,000
>14
14
6
3080
254
91
2.8
2810
4.0
g
172
61
NT, not tested.
a Concentration that inhibits 50% of the interaction between the PPAR LBD and the radiolabeled ligand.
b Concentration of test compound which produced 50% of the maximal reporter activity.
c The results are based on at least two experiments, each dose done in triplicate (SD = 10%).
8. Newman, M. S.; Karnes, H. A. J. Org. Chem. 1966, 81,
3980.
believed that the compounds were being sequestered
within the cell membrane so that the observed functional
activity was not always truly reflective of the com-
pound’s inherent potential. Nonetheless, the functional
assay confirmed that all the compounds were agonist.
9. PPAR receptor binding assay: The human PPARd and
PPARa scintillation proximity assay (SPA) was used to
measure the affinity of ligands for the respective human
PPAR receptor. The hPPARd LBD encoding amino acids
145–441 (GenBank Accession No. NM_006238) and
hPPARa LBD encoding amino acids 196–468 (GenBank
Accession No. L02932) were used. Volumes of 99 lL of
buffer (50 mM Tris, 10 mM Na-molybdate, 1 mM EDTA,
and 10% glycerol, pH 7.6) containing 50 nM of radiola-
beled ligand (3H-2-(4-(3-(4-acetyl-3-hydroxy-2 propyl-
phenoxy)propoxy)phenoxy)acetic acid (34 Ci/mmol) for
PPARd and 3H-2-(4-(2-(3-(2,4-difluorophenyl)-1-hepty-
lureido)ethyl)phenoxy)-2-methylbutanoic acid (86 Ci/
mmol) for PPARa), 0.2 mg anti-rabbit beads (Amersham,
RPN140), 0.24 lg rabbit anti-GST (Molecular Probes
Inc., A5800), and 0.2 lg purified GST/PPARhLBD were
placed into the wells of Corning 96-well tissue culture
plates. One microliter of dimethylsulfoxide (DMSO) or
1 lL of DMSO containing a test compound at a concen-
tration sufficient to give a final assay concentration of
between 1 nM and 100 lM added into each well. After
incubation with shaking at room temperature for 30 min,
radioactivity bound to the PPAR LBD-GST fusion
protein/anti-GST/SPA antibody-binding bead complex
was assessed using a Wallac MicroBeta plate reader. The
potency of interaction of a compound with the respective
PPAR LBD was determined as the concentration that
inhibits 50% of the interaction between the respective
PPAR LBD and the radiolabeled ligand.
Starting with a prototypical PPAR ligand, applying a
priori knowledge of the factors affecting subtype speci-
ficity, and a search of our proprietary chemical library,
we discovered three new templates, that when modified
had varying degrees of affinity and potency for PPARd.
These compounds represent a new class of chemical
tools that will be used to elucidate the complete biolog-
ical function of PPARd.
References and notes
1. Willson, T. M.; Brown, P. J.; Sternbach, D. D.; Henke, B.
R. J. Med. Chem. 2000, 43, 527.
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Targets 2005, 9, 861; (b) Wolf, G. Nut. Rev. 2003, 61, 387;
(c) Wang, Y.-X.; Lee, C.-H.; Tiep, S.; Yu, R. T.; Ham, J.;
Kang, H.; Evans, R. M. Cell 2003, 113, 159; (d)
Takahashi, S.; Tanaka, T.; Kodama, T.; Sakai, J. Pharm.
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Plunket, K. D.; Bodkin, N. L.; Lewis, M. C.; Winegar, D.
A.; Sznaidman, M. L.; Lambert, M. H.; Xu, H. E.;
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Guo, Z. J. Biol. Chem. 1999, 274, 6718.
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D.; Moore, L. B.; Collins, J. L.; Oplinger, J. A.; Kliewer,
S. A.; Gampe, R. T., Jr.; McKee, D. D.; Moore, J. T.;
Willson, T. M. Proc. Natl. Acad. Sci. U.S.A. 2001, 98,
13919.
6. Dulenko, V. I.; Golyak, V. M.; Gubar, V. I.; Alekseev, N.
N. Chem. Heterocycl. Comp. 1979, 15, 815.
7. Auerbach, B. J; Bratton, L. D.; Filzen, G. F.; Geyer, A. G.;
Trivedi, B. K.;Unangst, P. C. USPatent 6,875,780 B2, 2005.
The human PPARc scintillation proximity assay (SPA) was
used to measure the affinity of ligands for the human PPARc
receptor. The hPPARc LBD encoding amino acids 206–477
(GenBankAccessionNo. NM_138712.1)wasused. Volumes
of 168 lL of buffer (1· PBS, 12 mM b-mercapto ethanol,
0.002% Tween 20, and 9% glycerol, pH 7.6) containing with
40 nM
3H-5-(4-(3-(5-methyl-2-phenyloxazol-4-yl)propa-
noyl)benzyl)thiazolidine-2,4-dione (9.57 Ci/mmol), 0.3 mg
polylysine-coated yttrium silicate beads (Amersham,
RPNQ0010), and 10 nM purified His-tagged human
PPARc LBD were placed into the wells of a 96-well white
assay plate (Corning 3604). Two microliters of dimethyl-
sulfoxide (DMSO) or 2 lL of DMSO containing a test