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whereas a significant increase was observed with the five-atom
O
n-pentyl group (entry 10). Interestingly, compound 10 containing
an n-butyl group was found to be significantly more active than
the corresponding ether analogue 2, however, there was no differ-
ence between the 5-atom analogues 3 and 11. The addition of
branching substituents seemed to be less well tolerated as illus-
trated by the four fold loss of potency observed between the
n-Bu analogue 10 and 12 (entries 9 and 11). This effect was also ob-
served in the ether series as demonstrated by 14 (entry 13) and 15
(entry 14) which incorporated a methyl group on the chain and
showed a 5 to 15-fold loss in activity. Interestingly, an eutomer ef-
fect was observed with these two analogues, the analogue with R
stereochemistry being more potent. Further exploration demon-
strated that larger substituents such as 3-phenylpropyl (entry
15) and substituents containing a polar group such as acid (entry
16) and ester (entry 17), were poorly tolerated. Aromatic substitu-
tions at the N-1 position resulted in very potent analogues;
however, these compounds generally displayed unsatisfactory lev-
els of cytotoxicity (entry 19). Taken together, these results demon-
strated a clear preference for straight chain lipophilic groups at the
N-1 position and that both the n-pentyl and 3-methoxypropyl
groups would serve as useful substituents to elucidate the SAR at
other positions.
Having demonstrated that the N-1 position allowed significant
improvements in potency while maintaining a single basic amine,
efforts were undertaken in order to improve the in vitro profile of
monobasic analogues. Previous SAR had shown that the presence
of a basic amine at the C8 position was associated with significant
hERG inhibition as well as an increase in the number of hits in an
off-target pharmacology panel. Since these issues were substan-
tially less pronounced for analogues containing a basic group at
C4, the initial strategy was to maintain the basic amine at this po-
sition in conjunction with the 3-methoxypropyl group at N-1 as
the key pharmacophores to drive the potency (Table 2). Prelimin-
ary SAR demonstrated that constricting the N-ethylglycineamide
into an alkylpiperazine (22–23) maintained potency and also affor-
ded a modest increase in permeability. Therefore, subsequent SAR
was aimed at decreasing the pKa of the amine to further improve
the Caco-2 permeability. More than sixty compounds covering a
range of pKa values were prepared, several of which demonstrated
significant improvements in Caco-2 permeability (e.g., entries 4, 5
and 7). In fact, consideration of a series of these compounds
showed a trend indicating a dependence of the Caco-2 permeabil-
ity on the calculated pKa (data not shown).13 Analogs with a calcu-
lated pKa of 8 or higher were associated with Caco-2 permeability
less than 5 Â 10À6 cm/s. Unfortunately, while it was clear that
attenuating the pKa of the compounds could afford significant
improvements in permeability, no compounds were discovered
that maintained both metabolic stability and acceptable
permeability in this series. Additionally, the less basic compounds
generally displayed reduced antiviral activity (entry 3 vs 7). Inter-
estingly, it was shown that the piperazinyl pyridine analogues (e.g.,
27) possessed similar activity and in vitro profiles relative to their
non-aza counterparts (entry 2). Consequently, this modification
was adopted in further SAR studies in order to mitigate the poten-
tial for genotoxicity associated with the presence of an aniline.14
Concurrent SAR focused at C-8 revealed that small heterocycles
were viable replacements for the basic amine of 1 or the halogen of
22. A number of heterocycles were introduced including various
regioisomers of substituted pyrazoles, thiazoles, oxazoles and pyr-
idines. The five-membered heterocycles were generally well toler-
ated and the 4-substituted regioisomers were usually preferred. In
particular 1-methylpyrazole-4-yl became a preferred substituent
at this position (e.g., 29, Table 3). Not only did this group result
in an analogue with excellent enzyme and cell based antiviral
O
Me
N
1
N
N
8
4
O
1
O
IC50 : 4 nM
EC50 : 30 nM
N
H
NHEt
CC50 : 4.1 µM
HLM CL (%QH) : 29%
RLM CL (%QH) : 11%
Caco-2 AB (10-6 cm/s) : <0.1
Figure 1. Benzofurano[3,2-d]pyrimidin-2-one lead scaffold.
a single basic amine to drive the potency and attenuate the basicity
of the inhibitors in order to improve the in vitro profile, in partic-
ular the permeability. This would also reduce the potential risk for
undesirable off-target activities associated with highly basic and
lipophilic compounds (e.g., phospholipidosis12).
Initially, the optimization of the series began with a detailed
investigation of the N-1 position for which previous investigations
had demonstrated the potential to improve potency. To facilitate
generation of SAR, a model analogue was selected containing a
benzylamine moiety at C8 as the only basic functional group (Table
1). The parent analogue 2 containing the 2-methoxyethyl substitu-
ent at N-1 (entry 1) showed weak activity on this unoptimized
scaffold. Remarkably, extending the ether chain by one methylene
unit resulted in a 60-fold increase in activity (entry 2). Further
extending the chain resulted in 4, which showed no additional
advantage. In the hydrocarbon series, a more detailed investigation
could be undertaken. Shorter analogues ranging from methyl to i-
Bu (entries 4–8) showed relatively poor but similar potency
Table 1
N-1 SAR
N
O
1
N
R
N
8
O
Entry
Compd
R
IC50 (nM)a
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
–(CH2)2OMe
–(CH2)3OMe
–(CH2)4OMe
Me
2330
39
86
645
890
>685 (45%)
800
655
42
27
190
55
635
195
>365 (25%)
>4700 (46%)
>1100 (14%)
245
Et
n-Pr
i-Pr
i-Bu
n-Bu
n-Pentyl
–(CH2)2CHMe2
–(CH2)3CHMe2
(S)-CH2CH(Me)CH2OMe
(R)-CH2CH(Me)CH2OMe
–(CH2)3Ph
–(CH2)3CO2H
–(CH2)3CO2Et
Ph
p-Nitrophenyl
4-Methyl-3-cyanophenyl
1.7
7.3
a
Values in parentheses are the percent inhibition at the highest concentration
achieved.
activity,
a significant improvement in cytotoxicity was also