Title of Invention

PYRIDOPYRIMIDINONE INHIBITORS OF PI3KALPHA

Abstract The invention is directed to Compounds of Formula (I) and pharmaceutically acceptable salts or solvates thereof, as well as methods of making and using the compounds.
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PCTYUS2006/039734

PYRTOOPYRIMIDINONE INHIBITORS OF PI3Ka
BACKGROUND OF THE INVENTION
Field of the Invention
[0001] This invention relates to the field of protein kinases and inhibitors thereof. In
particular, the. invention relates to inhibitors of phosphatidylinositol 3-kinase (PI3K)
signaling pathways, and methods of their use.
CROSS REFERENCE TO RELATED APPLICATIONS
[0002] The Applicants claim priority under 35 U.S.C. 119(e) to copending Provisional
Applications No. 60/724,571 filed on October 7, 2005 and No. 60/743,719 filed on March
23,2006, the disclosures of which are incorporated herein by reference in its entirety.
Summary of the Related Art
[0003] The connection between abnormal protein phosphorylation and the cause or
consequence of diseases has been known for over 20 years. Accordingly, protein kinases
have become a very important group of drug targets. See Cohen, Nature, 1:309-315 (2002).
Various protein kinase inhibitors have been used clinically in the treatment of a wide variety
of diseases, such as cancer and chronic inflammatory diseases, including diabetes and
stroke. See Cohen, Eur. J. Biochem., 268:5001-5010 (2001).
[0004] The protein kinases are a large and diverse family of enzymes that catalyze
protein phosphorylation and play a critical role in cellular signaling. Protein kinases may
exert positive or negative regulatory effects, depending upon their target protein. Protein
kinases are involved in specific signaling pathways which regulate cell functions such as,
but not limited to, metabolism, cell cycle progression, cell adhesion, vascular function,
apoptosis, and angiogenesis. Malfunctions of cellular signaling have been associated with
many diseases, the most characterized of which include cancer and diabetes. The regulation
of signal transduction by cytokines and the association of signal molecules with
protooncogenes and tumor suppressor genes have been well documented. Similarly, the
connection between diabetes and related conditions, and deregulated levels of protein
kinases, has been demonstrated. See e.g., Sridhar et al. Pharmaceutical Research,
17(11):1345-1353 (2000). Viral infections and the conditions related thereto have also been
associated with the regulation of protein kinases. Park et al. Cell 101 (7), 777-787 (2000).
[0005] Phosphatidylinositol 3-kinase (PBKct), a dual specificity protein kinase, is
composed of an 85 kDa regulatory subunit and a 110 kDa catalytic subunit. The protein
encoded by this gene represents the catalytic subunit, which uses ATP to phosphorylate
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Ptdlns, PtdIns4P and PtdIns(4,5)P2. PTEN, a tumor suppressor which inhibits cell growth
through multiple mechanisms, can dephosphorylate PIP3, the major product of PDGCA.
PIP3, in turn, is required for translocation of protein kinase B (AKT1, PKB) to the cell
membrane, where it is phosphorylated and activated by upstream kinases. The effect of
PTEN on cell death is mediated through the PIK3CA/AKT1 pathway.
[0006] PBKa has been implicated in the control of cytoskeletal reorganization,
apoptosis, vesicular trafficking, proliferation and differentiation processes. Increased copy
number and expression of PIK3CA is associated with a number of malignancies such as
ovarian cancer (Campbell et al., Cancer Res 2004, 64, 7678-7681; Levine et al., Clin
Cancer Res 2005, 11, 2875-2878; Wang et al., Hum Mutat 2005, 25, 322; Lee et al.,
Gynecol Oncol 2005, 97, 26-34), cervical cancer, breast cancer (Bachman, et al. Cancer
Biol Ther 2004, 3, 772-775; Levine, et al., supra; Li et al., Breast Cancer Res Treat 2006,
96, 91-95; Saal et al., Cancer Res 2005,65,2554-2559; Samuels and Velculescu, Cell Cycle
2004, 3, 1221-1224), colorectal cancer (Samuels, et al. Science 2004, 304, 554; Velho et al.
Eur J Cancer 2005, 41, 1649-1654), endometrial cancer (Oda et al. Cancer Res. 2005, 65,
10669-10673), gastric carcinomas (Byun et al., Int J Cancer 2003, 104, 318-327; Li et al.,
supra; Velho et al., supra; Lee et al., Oncogene 2005, 24, 1477-1480), hepatocellular
carcinoma (Lee et al., id), small and non-small cell lung cancer (Tang et al., Lung Cancer
2006, 51, 181-191; Massion et al., Am J Respir Crit Care Med 2004, 170, 1088-1094),
thyroid carcinoma (Wu et al., J Clin Endocrinol Metab 2005, 90, 4688-4693), acute
myelogenous leukemia (AML) (Sujobert et al., Blood 1997, 106, 1063-1066), chronic
myelogenous leukemia (CML) (Hickey and Cotter J Biol Chem 2006, 281, 2441-2450), and
glioblastomas (Hartmann et al. Acta Neuropathol (Bert) 2005,109, 639-642; Samuels et al.,
supra).
[0007] In view of the important role of PI3Kct in biological processes and disease states,
inhibitors of this protein kinase are desirable.
SUMMARY OF THE INVENTION
[0008] The following only summarizes certain aspects of the invention and is not
intended to be limiting in nature. These aspects and other aspects and embodiments are
described more fully below. All references cited in this specification are hereby
incorporated by reference in their entirety. In the event of a discrepancy between the
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express disclosure of this specification and the references incorporated by reference, the
express disclosure of this specification shall control.
[0009] The invention provides compounds that inhibit, regulate, and/or modulate PDK
that are useful in the treatment of hyperproliferative diseases, such as cancer, in humans.
This invention also provides methods of making the compound, methods of using such
compounds in the treatment of hyperproliferative diseases in humans and to pharmaceutical
compositions containing such compounds.
[0010] A first aspect of the invention provides a compound of Formula I:

or a pharmaceutically acceptable salt or solvate thereof, wherein
R1 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted cycloalkylalkyl, optionally substituted aryl, optionally substituted
arylalkyl, optionally substituted heterocycloalkyl, optionally substituted
heterocycloalkylalkyl, optionally substituted heteroaryl or optionally substituted
heteroarylalkyl;
R2 is hydrogen or alkyl where the alkyl is optionally substituted with 1,2, 3,4, or 5 R8
groups;
Xis-NR3-;
R3 hydrogen;
R4 is optionally substituted alkyl;
R5 is hydrogen; and
R6 is phenyl, acyl, or heteroaryl wherein the phenyl and heteroaryl are optionally substituted
with 1,2, 3,4, or 5 R9 groups;
each R8, when present, is independently hydroxy, halo, alkoxy, haloalkoxy, amino,
alkylamino, dialkylaminoalkyl, or alkoxyalkylamino; and
each R9, when present, is independently halo, alkyl, haloalkyl, alkoxy, haloalkoxy, cyano,
amino, alkylamino, dialkylamino, alkoxyalkyl, carboxyalkyl, alkoxycarbonyl,
aminoalkyl, cycloalkyl, aryl, arylalkyl, aryloxy, heterocycloalkyl, or heteroaryl and
where the cycloalkyl, aryl, heterocycloalkyl, and heteroaryl, each either alone or as
part of another group within R9, are independently optionally substituted with 1,2,3,
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or 4 groups selected from halo, alkyl, haloalkyl, hydroxy, alkoxy, haloalkxy, amino,
alkylamino, and dialkylamino.
[0011] A second aspect of the invention provides a compound of Formula II:

or a pharmaceutically acceptable salt or solvate thereof, wherein
R1 is hydrogen, optionally substituted alkyl, optionally substituted C3-C7 cycloalkyl,
optionally substituted aryl, optionally substituted arylalkyl, optionally substituted
heterocycloalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted
heteroaryl or optionally substituted heteroarylalkyl;
X is S, S02, or -MR3-;
R2 is hydrogen, haloalkyl, optionally substituted alkyl, optionally substituted C3-C7
cycloalkyl, optionally substituted aryl, optionally substituted arylalkyl, optionally
substituted heterocycloalkyl, optionally substituted heterocycloalkylalkyl, optionally
substituted heterocycloalkyl-aryl- or optionally substituted heteroaryl; R2 is
optionally further substituted with one or more R groups;
R3,R3a,andR3b are independently hydrogen, optionally substituted alkyl, optionally
substituted C3-C7 cycloalkyl, optionally substituted aryl, optionally substituted
heterocycloalkyl or optionally substituted heteroaryl;
R4 is hydrogen, halo, haloalkyl, haloalkoxy, -NR3a-, optionally substituted alkyl, optionally
substituted C1-C6 alkoxy, optionally substituted C1-C6 alkoxyalkyl, optionally
substituted aminoalkyl, optionally substituted C3-C7 cycloalkyl, optionally —
substituted aryl, or optionally substituted heteroaryl;
R5 is hydrogen, halo, haloalkyl, haloalkoxy, optionally substituted C1-C6 alkyl, optionally
substituted C1-C6 alkoxy, optionally substituted C1-C6 alkoxyalkyl, optionally
substituted aminoalkyl, optionally substituted C3-C7 cycloalkyl, optionally
substituted aryl, optionally substituted aryl C1-C6 alkyl or optionally substituted
heteroaryl; and
R6 is hydrogen, halo, haloalkyl, haloalkoxy, -NR3b-, optionally substituted Ci-C6 alkyl,
optionally substituted C1-C6 alkoxy, optionally substituted C1-C6 alkoxyalkyl,
optionally substituted acyl, optionally substituted aminoalkyl, optionally substituted
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C3-C7 cycloalkyl, optionally substituted aryl, optionally substituted arylalkyl,
optionally substituted heterocycloalkyl, or optionally substituted heteroaryl;
substitutable R6 groups are optionally further substituted with 1,2,3,4, or 5 R9
groups;
each R8, when present, is independently hydroxy, halo, haloalkyl, haloalkoxy, optionally
substituted alkyl, optionally substituted C1-C6 alkoxy, optionally substituted C1-C6
alkoxyalkyl, optionally substituted C1-C6 alkoxyalkylaminoalkyl, C1-C6
alkylcarboxyheterocycloalkyl, oxy Ci-C6alkylheterocycloalkyl, optionally substituted
aminoalkyl, optionally substituted C3-C7 cycloalkyl, optionally substituted aryl,
optionally substituted aryl C1-C6 alkyl, optionally substituted heterocycloalkyl,
optionally substituted heterocycloalkylalkyl, optionally substituted heteroaryl or
optionally substituted heteroarylalkyl;
each R9, when present, is independently halo, haloalkyl, haloalkoxy, optionally substituted
C1-C6 alkyl, optionally substituted C1-C6 alkoxy, optionally substituted C1-C6
alkoxyalkyl, optionally substituted C1-C6 carboxyalkyl, optionally substituted
alkoxycarbonyl, optionally substituted aminoalkyl, optionally substituted C3-C7
cycloalkyl, optionally substituted aryl, optionally substituted aryl Ci-Ce alkyl,
optionally substituted aryloxy, optionally substituted heterocycloalkyl, or optionally
substituted heteroaryl.
[0012] In a third aspect aspect, the invention is directed to a pharmaceutical
composition which comprises a compound of Formula I or a pharmaceutically acceptable
salt thereof and a pharmaceutically acceptable carrier, excipient, or diluent.
[0013] In a fourth aspect, the invention comprises a method of inhibiting PI3K,
comprising contacting a cell with a compound of Formula I or II or a pharmaceutically
acceptable salt or solvate thereof, or with a pharmaceutical composition comprising a
therapeutically effective amount of a compound of Formula I or II and a pharmaceutically
acceptable carrier, excipient, or diluent.
[0014] In a fifth aspect of the invention is a method of inhibiting the in vivo activity of
PI3Ka, the method comprising administering to a patient an effective PI3Ka-inhibiting-
inbibiting amount of a compound of Formula I or II, or a pharmaceutically acceptable salt,
solvate, or a pharmaceutical composition thereof.
[0015] In a sixth aspect, the Invention provides a method for treating a disease, disorder,
or syndrome which method comprises administering to a patient a therapeutically effective
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amount of a compound of Formula I or II or a pharmaceutically acceptable salt or solvate
thereof, or a pharmaceutical composition comprising a therapeutically effective amount of
a compound of Formula I or II and a pharmaceutically acceptable carrier, excipient, or
diluent.
[0016] j A seventh aspect of the invention is directed to a process of preparing a
compound of Formula I, comprising:
(a) reacting an intermediate of formula 7(a):

where R6 is phenyl or heteroaryl each optionally substituted with 1,2,3,4, or 5 R9
groups (as defined in the Summary of the Invention) and R and R4 are as defined in the
Summary of the Invention; with an intermediate of formula R2NH2 (where R2 is as
defined in the Summary of the Invention) to yield a Compound of Formula 1(a):



(b) reacting an intermediate of formula 18:
where R1 and R4 are as defined in the Summary of the Invention; with tributyl-1-
ethylvinyltin or with an intermediate of formula R6B(OH)2 where Rfi is phenyl or
heteroaryl each optionally substituted with 1,2,3,4, or 5 R9 groups (as defined in the
Summary of the Invention) to yield, respectively, a Compound of Formula 1(a) or 1(b):
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Ac acetyl
br broad
°C degrees Celsius
c- cyclo
CBZ CarboBenZoxy = benzyloxycarbonyl
d doublet
dd doublet of doublet
dt doublet of triplet
DCM dichloromethane
DME 1,2-dimethoxyethane
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Abbreviation Meaning

DMF JV-dimethylformamide
DMSO dimethyl sulfoxide
dppf l,r-bis(diphenylphosphano)ferrocene
EI Electron Impact ionization
g gram(s)
horhr iour(s)
HPLC ligh pressure liquid chromatography
L liter(s)
M molar or molarity
m Multiplet
mg milligram(s)
MHz megahertz (frequency)
Min minute(s)
mL tnilliliter(s)
|i.L tnicroliter(s)
uM Micromole(s) or micromolar
mM Millimolar
mmol millimole(s)
mol mole(s)
MS mass spectral analysis
N normal or normality
nM Nanomolar
NMR nuclear magnetic resonance spectroscopy
q Quartet
RT Room temperature
5 Singlet
tortr Triplet
TFA trifluoroacetic acid
1HF tetrahydrofuran
ILC thin layer chromatography
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[0018] The symbol "-" means a single bond, "=" means a double bond, "s" means a
triple bond, " " means a single or double bond. The symbol ">AWV" refers to a group
on a double-bond as occupying either position on the terminus of a double bond to which
the symbol is attached; that is, the geometry, E- or Z-, of the double bond is ambiguous.
When a group is depicted removed from its parent formula, the "'-" symbol will be used
at the end of the bond which was theoretically cleaved in order to separate the group from
its parent structural formula.
[0019] When chemical structures are depicted or described, unless explicitly stated
otherwise, all carbons are assumed to have hydrogen substitution to conform to a valence of
four. For example, in the structure on the left-hand side of the schematic below there are
nine hydrogens implied. The nine hydrogens are depicted in the right-hand structure.
Sometimes a particular atom in a structure is described in textual formula as having a
hydrogen or hydrogens as substitution (expressly defined hydrogen), for example, -
CH2CH2-. It is understood by one of ordinary skill in the art that the aforementioned
descriptive techniques are common in the chemical arts to provide brevity and simplicity to
description of otherwise complex structures.



[0020] If a group "R" is depicted as "floating" on a ring system, as for example in the •
formula:

then, unless otherwise defined, a substituent "R" may reside on any atom of the ring system,
assuming replacement of a depicted, implied, or expressly defined hydrogen from one of the
ring atoms, so long as a stable structure is formed.
[0021] If a group "R" is depicted as floating on a fused ring system, as for example in
the formulae:

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then, unless otherwise defined, a substituent "R" may reside on any atom of the fused ring
system, assuming replacement of a depicted hydrogen (for example the -NH- in the formula
above), implied hydrogen (for example as in the formula above, where the hydrogens are
not shown but understood to be present), or expressly defined hydrogen (for example where
in the formula above, "Z" equals =CH-) from one of the ring atoms, so long as a stable
structure is formed. In the example depicted, the "R" group may reside on either the 5-
membered or the 6-membered ring of the fused ring system. In the formula depicted above,
when y is 2 for example, then the two "R's" may reside on any two atoms of the ring
system, again assuming each replaces a depicted, implied, or expressly defined hydrogen on
the ring.
[0022] When a group "R" is depicted as existing on a ring system containing saturated
carbons, as for example in the formula:

where, in this example, "y" can be more than one, assuming each replaces a currently
depicted, implied, or expressly defined hydrogen on the ring; then, unless otherwise
defined, where the resulting structure is stable, two "R's" may reside on the same carbon. A
simple example is when R is a methyl group; there can exist a geminal dimethyl on a carbon
of the depicted ring (an "annular" carbon). In another example, two R's on the same carbon,
including that carbon, may form a ring, thus creating a spirocyclic ring (a "spirocyclyl"
group) structure with the depicted ring as for example in the formula:

[0023] "Acyl" means a -C(0)R radical where R is optionally substituted alkyl,
optionally substituted alkenyl, cycloalkyl, cycloalkylalkyl, aryl, aralkyl, heteroaryl,
heteroaralkyl, heterocycloalkyl, or heterocycloalkylalkyl, as defined herein, e.g., acetyl,
trifluoromethylcarbonyl, or 2-methoxyethylcarbonyl, and the like.
[0024] "Acylamino" means a -NRRi-iadical where R is hydrogen, hydroxy, alkyl, or
alkoxy and R' is acyl, as defined herein.
[0025] "Acyloxy" means an -OR radical where R is acyl, as defined herein, e.g.
cyanomethylcarbonyloxy, and the like.
[0026] "Administration" and variants thereof (e.g., "administering" a compound) in
reference to a compound of the invention means introducing the compound or a prodrug of
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the compound into the system of the animal in need of treatment. When a compound of the
invention or prodrug thereof is provided in combination with one or more other active
agents (e.g., surgery, radiation, and chemotherapy, etc.), "administration" and its variants
are each understood to include concurrent and sequential introduction of the compound or
prodrug thereof and other agents.
[0027] "Alkenyl" means a means a linear monovalent hydrocarbon radical of one to six
carbon atoms or a branched monovalent hydrocarbon radical of three to 6 carbon atoms
which radical contains at least one double bond, e.g., ethenyl, propenyl, l-but-3-enyl, and
l-pent-3-enyl, and the like.
[0028] "Alkoxy" means an -OR group where R is alkyl group as defined herein.
Examples include methoxy, ethoxy, propoxy, isopropoxy, and the like.
[0029] "Alkoxyalkyl" means an alkyl group, as defined herein, substituted with at least
one, preferably one, two, or three, alkoxy groups as defined herein. Representative
examples include methoxymethyl and the like.
[0030] "Alkoxyalkylamino" means an -NRR' group where R is hydrogen, alkyl, or
alkoxyalkyl and R' is alkoxyalkyl, as defined herein.
[0031] "Alkoxyalkylaminoalkyl" means an alkyl group substituted with at least one,
specif dally one or two, alkoxyalkylamino group(s), as defined herein.
[0032] "Alkoxycarbonyl" means a -C(0)R group where R is alkoxy, as defined herein.
[0033] "Alkyl" means a linear saturated monovalent hydrocarbon radical of one to six
carbon atoms or a branched saturated monovalent hydrocarbon radical of three to 6 carbon
atoms, e.g., methyl, ethyl, propyl, 2-propyl, butyl (including all isomeric forms), or pentyl
(including all isomeric forms), and the like.
[0034] "Alkylamino" means an -NHR group where R is alkyl, as defined herein.
[0035] "Alkylaminoalkyl" means an alkyl group substituted with one or two alkylamino
groups, as defined herein.
[0036] "Alkylaminoalkyloxy" means an -OR group where R is alkylaminoalkyl, as
defined herein.
[0037] "Alkylcarbonyl" means a -C(0)R group where R is alkyl, as defined herein.
[0038] " Alkynyl" means a linear monovalent hydrocarbon radical of one to six carbon
atoms or a branched monovalent hydrocarbon radical of three to 6 carbon atoms which
radical contains at least one triple bond, e.g., ethynyl, propynyl, butynyl, pentyJV-2-yl and
the like.
[0039] "Ammo" means -NH2.
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[0040] "Aminoalkyl" means an alkyl group substiuted with at least one, specifically
one, two or three, amino groups.
[0041] "Aminoalkyloxy" means an -OR group where R is aminoalkyl, as defined
herein.
[0042] "Aryl" means a monovalent six- to fourteeiV-membered, mono- or bi-carbocyclic
ring, wherein the monocyclic ring is aromatic and at least one of the rings in the bicyclic
ring is aromatic. Unless stated otherwise, the valency of the group may be located on any
atom of any ring within the radical, valency rules permitting. Representative examples
include phenyl, naphthyl, and indanyl, and the like.
[0043] "Arylalkyl" means an alkyl radical, as defined herein, substituted with one or
two aryl groups, as defined herein, e.g., benryl and phenethyl, and the like.
[0044] "Aryloxy" means an -OR gorup where R is aryl, as defined herein.
[0045] "Carboxyalkyl" means an alkyl group, as defined herein, substituted with at least
one, specifically one or two, -C(0)OH group(s).
[0046] "Cycloalkyl" means a monocyclic or fused bicyclic, saturated or partially
unsaturated (but not aromatic), monovalent hydrocarbon radical of three to ten carbon ring
atoms. Fused bicyclic hydrocarbon radical includes bridged ring systems. Unless stated
otherwise, the valency of the group may be located on any atom of any ring within the
radical, valency rules permitting. One or two ring carbon atoms may be replaced by a
-C(0)-, -C(S)-, or -C(=NH)- group. More specifically, the term cycloalkyl includes, but is
not limited to, cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cyclohexyl, or cyclohex-3-
enyl, and the like.
[0047] "Cycloalkylalkyl" means an alkyl group substituted with at least one,
specificallyone or two, cycloalkyl group(s) as defined herein.
[0048] "Dialkylamino" means a -NRR' radical where R and R' are alkyl as defined
herein, or an N-oxide derivative, or a protected derivative thereof, e.g., dimethylamino,
diethylamino, JV-memylpropylamino or T/-methylethylamino, and the like.
[0049] "Dialkylaminoalkyl" means an alkyl group substituted with one or two
dialkylamino groups, as defined herein.
[0050] "Dialkylaminoalkyloxy" means an -OR group where R is dialkylaminoalkyl, as
defined herein. Representative examples include 2-(iV,iV:diemylamino)-ethyloxy, and the
like.
[0051] "Fused-polycyclic" or "fused ring system" means a polycyclic ring system that
contains bridged or fused rings; that is, where two rings have more than one shared atom in
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their ring structures. In this application; fused-polycyclics and fused ring systems are not
necessarily all aromatic ring systems. Typically, but not necessarily, fused-polycyclics share
a vicinal set of atoms, for example naphthalene or 1,2,3,4-tetrahydro-naphthalene. A spiro
ring system is not a fused-polycyclic by this definition, but fused polycyclic ring systems of
the invention may themselves have spiro rings attached thereto via a single ring atom of the
fused-polycyclic. In some examples, as appreciated by one of ordinary skill in the art, two
adjacent groups on an aromatic system may be fused together to form a ring structure. The
fused ring structure may contain heteroatoms and may be optionally substituted with one or
more groups. It should additionally be noted that saturated carbons of such fused groups
(i.e. saturated ring structures) can contain two substitution groups.
[0052] "Halogen" or "halo" refers to fluorine, chlorine, bromine or iodine.
[0053] "Haloalkoxy" means an -OR' group where R' is haloalkyl as defined herein,
e.g., trifluoromethoxy or 2,2,2-trifluoroethoxy, and the like.
[0054] "Haloalkyl" mean an alkyl group substituted with one or more halogens,
specifically one to five halo atoms, e.g., trifluoromethyl, 2-chloroethyl, and 2,2-
difluoroethyl, and the like.
[0055] "Heteroaryl" means a monocyclic, fused bicyclic, or fused tricyclic, monovalent
radical of 5 to 14 ring atoms containing one or more, specifically one, two, three, or four
ring heteroatoms independently selected from -0-, -S(0)#. (n is 0,1, or 2), -N-, -N(RX)-, and
the remaining ring atoms being carbon, wherein the ring comprising a monocyclic radical is
aromatic and wherein at least one of the fused rings comprising a bicyclic or tricyclic
radical is aromatic. One or two ring carbon atoms of any nonaromatic rings comprising a
bicyclic or tricyclic radical may be replaced by a -C(0)-, -C(S)-, or -C(=NH)- group. Rx is
hydrogen, alkyl, hydroxy, alkoxy, acyl, or alkylsulfonyl. Fused bicyclic radical includes
bridged ring systems. Unless stated otherwise, the valency may be located on any atom of
any ring of the heteroaryl group, valency rules permitting. When the point of valency is
located on the nitrogen, Rx is absent. More specifically, the term heteroaryl includes, but is
not limited to, 1,2,4-triazolyl, 1,3,5-triazolyl, phthalimidyl, pyridinyl, pyrrolyl, imidazolyl,
thienyl, furanyl, indolyl, 2,3-dihydro-l#-indolyl (including, for example, 2,3-dihydro-l#-
indol-2-yl or 2,3-dihydro-lH-indol-5-yl, and the like), isoindolyl, indolinyl, isoindolinyl,
benzimidazolyl, benzodioxol-4-yl, benzofuranyl, cinnolinyl, indolizinyl, naphthyridi/V-3-yl,
phthalaziJV-3-yl, phthalazW-4-yl, pteridinyl, purinyl, quinazolinyl, quinoxalinyl, tetrazoyl,
pyrazolyl, pyrazinyl, pyrimidinyl, pyridazinyl, oxazolyl, isooxazolyl, oxadiazolyl,
benzoxazolyl, quinolinyl, isoquinolinyl, tetrahydroisoquinolinyl (including, for example,
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tetrahydroisoquinoliJV-4-yl or tetrahydroisoquinolW-6-yl, and the like), pyrrolo[3,2-
c]pyridinyl (including, for example, pyrrolo[3,2-c]pyridW-2-yl or pyrrolo[3,2-c]pyridW-7-
yl, and the like), benzopyranyl, thiazolyl, isothiazolyl, thiadiazolyl, benzothiazolyl,
benzothienyl, and the derivatives thereof, or N-oxide or a protected derivative thereof.
[0056] "Heteroarylalkyl" means an alkyl group, as defined herein, substituted with at
least one, specifically one or two heteroaryl group(s), as defined herein.
[0057] "Heteroatom" refers to O, S, N, or P.
[0058] "Heterocycloalkyl" means a saturated or partially unsaturated (but not aromatic)
monovalent monocyclic group of 3 to 8 ring atoms or a saturated or partially unsaturated
(but not aromatic) monovalent fused bicyclic group of 5 to 12 ring atoms in which one or
more, specifically one, two, three, or four ring heteroatoms independently selected from O,
S(0)n (n is 0, 1, or 2), N, N(Ry) (where Ry is hydrogen, alkyl, hydroxy, alkoxy, acyl, or
alkylsulfonyl), the remaining ring atoms being carbon. One or two ring carbon atoms may
be replaced by a -C(0)-, -C(S)-, or -C(=NH)- group. Fused bicyclic radical includes
bridged ring systems. Unless otherwise stated, the valency of the group may be located on
any atom of any ring within the radical, valency rules permitting. When the point of
valency is located on a nitrogen atom, Ry is absent. More specifically the term
heterocycloalkyl includes, but is not limited to, azetidinyl, pyrrolidinyl, 2-oxopyrrolidinyl,
2,5-dihydro-lif-pyrrolyl, piperidinyl, 4-piperidonyl, morpholinyl, piperazinyl, 2-
oxopiperazinyl, tetrahydropyranyl, 2-oxopiperidinyl, thiomorpholinyl, thiamorpholinyl,
perhydroazepinyl, pyrazolidinyl, imidazolinyl, imidazolidinyl, dihydropyridinyl,
tetrahydropyridinyl, oxazolinyl, oxazolidinyl, isoxazolidinyl, thiazolinyl, thiazolidinyl,
quinuclidinyl, isothiazolidinyl, octahydroindolyl, octahydroisoindolyl,
decahydroisoquinolyl, tetrahydrofuryl, and tetrahydropyranyl, and the derivatives thereof
and N-oxide or a protected derivative thereof.
[0059] "Heterocycloalkylalkyl" means an alkyl radical, as defined herein, substituted
with one or two heterocycloalkyl groups, as defined herein, e.g., morpholinylmethyl,
N-pyrrolidinylethyl, and 3-(JV-azetidinyl)propyl, and the like.
[0060] "Heterocycloalkylalkyloxy means an -OR group where R is
heterocycloalkylalkyl, as defined herein.
[0061] "Saturated bridged ring system" refers to a bicyclic or polycyclic ring system
that is not aromatic. Such a system may contain isolated or conjugated unsaturation, but not
aromatic or heteroaromatic rings in its core structure (but may have aromatic substitution
thereon). For example, hexahydro-furo[3,2-b]furan, 2,3,3a,4,7,7a-hexahydro-l.flr-indene,
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7-aza-bicyclo[2.2.1]heptane, and l,2,3,4,4a,5,8,8aK)ctahydro-naphthalene are all included in
the class "saturated bridged ring system.
[0062] "Spirocyclyl" or "spirocyclic ring" refers to a ring originating from a particular
annular carbon of another ring. For example, as depicted below, a ring atom of a saturated
bridged-ring system (rings B and B'), but not a bridgehead atom, can be a shared atom
between the saturated bridged ring system and a spirocyclyl (ring A) attached thereto. A
spirocyclyl can be carbocyclic or heteroalicyclic.

[0063] "Optional" or "optionally" means that the subsequently described event or
circumstance may or may not occur, and that the description includes instances where said
event or circumstance occurs and instances in which it does not. One of ordinary skill in the
art would understand that with respect to any molecule described as containing one or more
optional substituents, only sterically practical and/or synthetically feasible compounds are
meant to be included. "Optionally substituted" refers to all subsequent modifiers in a term.
So, for example, in the term "optionally substituted arylCi-g alkyl," optional substitution
may occur on both the "Ci.j alkyl" portion and the "aryl" portion of the molecule may or
may not be substituted. A list of exemplary optional substitutions is presented below in the
definition of "substituted."
[0064] "Optionally substituted alkoxy" means an -OR group where R is optionally
substituted alkyl, as defined herein.
[0065] "Optionally substituted alkyl" means an alkyl radical, as defined herein,
optionally substituted with one or more group(s), specifically one, two, three, four, or five
groups, independently selected from alkylcarbonyl, alkenylcarbonyl, cycloalkylcarbonyl,
alkylcarbonyloxy, alkenylcarbonyloxy, amino, alkylamino, dialkylamino, aminocarbonyl,
alkylaminocarbonyl, dialkylaminocarbonyl, cyano, cyanoalkylaminocarbonyl, alkoxy,
alkenyloxy, hydroxy, hydroxyalkoxy, halo, carboxy, alkylcarbonylamino, alkylcarbonyloxy,
alkyl-S(0)o-2-, alkenyl-S(0)o-2-, aminosulfonyl, alkylaminosulfonyl, dialkylaminosulfonyl,
alkylsulfonyl-NRG- (where R° is hydrogen, alkyl, optionally substituted alkenyl, hydroxy,
alkoxy, alkenyloxy, or cyanoalkyl), alkylaminocarbonyloxy, dialkylaminocarbonyloxy,
alkylaminoalkyloxy, dialkylaminoalkyloxy, alkoxycarbonyl, alkenyloxycarbonyl,
15

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alkoxycarbonylamino, alkylaminocarbonylamino, dialkylaminocarbonylamino,
alkoxyalkyloxy, and -C(0)NRaRb (where Ra and Rb are independently hydrogen, alkyl,
optionally substituted alkenyl, hydroxy, alkoxy, alkenyloxy, or cyanoalkyl).
[0066] "Optionally substituted alkenyl" means an alkyl radical, as defined herein,
optionally substituted with one or more group(s), specifically one, two, three, four, or five
groups, independently selected from alkylcarbonyl, alkenylcarbonyl, cycloalkylcarbonyl,
alkylcarbonyloxy, alkenylcarbonyloxy, amino, alkylamino, dialkylamino, aminocarbonyl,
alkylaminocarbonyl, dialkylaminocarbonyl, cyano, cyanoalkylaminocarbonyl, alkoxy,
alkenyloxy, hydroxy, hydroxyalkoxy, halo, carboxy, alkylcarbonylamino, alkylcarbonyloxy,
alkyl-S(0)o-2-, alkenyl-S(0)o-2-, aminosulfonyl, alkylaminosulfonyl, dialkylaminosulfonyl,
alkylsulfonyl-NRc- (where Rc is hydrogen, alkyl, optionally substituted alkenyl, hydroxy,
alkoxy, alkenyloxy, or cyanoalkyl), alkylaminocarbonyloxy, dialkylaminocarbonyloxy,
alkylaminoalkyloxy, dialkylaminoalkyloxy, alkoxycarbonyl, alkenyloxycarbonyl,
alkoxycarbonylamino, alkylaminocarbonylamino, dialkylaminocarbonylamino,
alkoxyalkyloxy, and -C(0)NRaRb (where Ra and Rb are independently hydrogen, alkyl,
optionally substituted alkenyl, hydroxy, alkoxy, alkenyloxy, or cyanoalkyl).
[0067] "Optionally substituted amino" refers to the group -N(H)R or -N(R)R where
each R is independently selected from the group: optionally substituted alkyl, optionally
substituted alkoxy, optionally substituted aryl, optionally substituted heterocycloalkyl,
optionally substituted heteroaryl, acyl, carboxy, alkoxycarbonyl, -S(0)2-(optionally
substituted alkyl), -S(0)2-optionally substituted aryl), -S(0)2-(optionally substituted
heterocycloalkyl), -S(0)2-(optionally substitutted heteroaryl), and -S(0)2-(optionaHy
substituted heteroaryl). For example, "optionally substituted amino" includes diethylamino,
methylsulfonylamino, and furanyl-oxy-sulfonamino.
[0068] "Optionally substituted aminoalkyl" means an alkyl group, as defined herein,
substituted with at least one, specifically one or two, optionally substituted amino group(s),
as defined herein.
[0069] "Optionally substituted aryl" means an aryl group, as defined herein, optionally
substituted with one, two, or three substituents independently selected from acyl, acylamino,
acyloxy, optionally substituted alkyl, optionally substituted alkenyl, alkoxy, alkenyloxy,
halo, hydroxy, alkoxycarbonyl, alkenyloxycarbonyl, amino, alkylamino, dialkylamino,
nitro, aminocarbonyl, alkylaminocarbonyl, dialkylaminocarbonyl, carboxy, cyano,
alkylthio, alkylsulfinyl, alkylsulfonyl, aminosulfonyl, alkylaminosulfonyl,
dialkylaminosulfonyl, alkylsulfonylamino, aminoalkoxy, or aryl is pentafluorophenyl.
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Within the optional substituents on "aryl", the alkyl and alkenyl, either alone Of as part of
another group (including, for example, the alkyl in alkoxycarbonyl), are independently
optionally substituted with one, two, three, four, or five halo.
[0070] "Optionally substituted arylalkyl" means an alkyl group, as defined herein,
substituted with optionally substituted aryl, as defined herein.
[0071] "Optionally substituted cycloalkyl" means a cycloalkyl group, as defined herein,
substituted with one, two, or three groups independently selected from acyl, acyloxy,
acylamino, optionally substituted alkyl, optionally substituted alkenyl, alkoxy, alkenyloxy,
alkoxycarbonyl, alkenyloxycarbonyl, alkylthio, alkylsulfinyl, alkylsulfonyl, aminosulfonyl,
alkylaminosulfonyl, dialkylaminosulfonyl, alkylsulfonylamino, halo, hydroxy, amino,
alkylamino, dialkylamino, aminocarbonyl, alkylaminocarbonyl, dialkylaminocarbonyl,
nitro, alkoxyalkyloxy, aminoalkoxy, alkylaminoalkoxy, dalkylaminoalkoxy, carboxy, and
cyano. Within the above optional substitutents on "cycloalkyl", the alkyl and alkenyl,,
either alone or as part of another substituent on the cycloalkyl ring, are independently
optionally substituted with one, two, three, four, or five halo, e.g. haloalkyl, haloalkoxy,
haloalkenyloxy, or haloalkylsulfonyl.
[0072] "Optionally substituted cycloalkylalkyl" means an alkyl group substituted with
at least one, specifically one or two, optionally substituted cycloalkyl groups, as defined
herein.
[0073] "Optionally substituted heteroaryl" means a heteroaryl group optionally
substituted with one, two, or three substituents independently selected from acyl, acylamino,
acyloxy, optionally substituted alkyl, optionally substituted alkenyl, alkoxy, alkenyloxy,
halo, hydroxy, alkoxycarbonyl, alkenyloxycarbonyl, amino, alkylamino, dialkylamino,
nitro, aminocarbonyl, alkylaminocarbonyl, dialkylaminocarbonyl, carboxy, cyano,
alkylthio, alkylsulfinyl, alkylsulfonyl, aminosulfonyl, alkylaminosulfonyl,
dialkylaminosulfonyl, alkylsulfonylamino, aminoalkoxy, alkylaminoalkoxy, and
dialkylaminoalkoxy. Within the optional substituents on "heteroaryl", the alkyl and
alkenyl, either alone or as part of another group (including, for example, the alkyl in
alkoxycarbonyl), are independently optionally substituted with one, two, three, four, or five
halo.
[0074] "Optionally substituted heteroarylalkyl" means an alkyl group, as defined herein,
substituted with at least one, specifically one or two, optionally substituted heteroaryl
group(s), as defined herein.
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'[0075] "Optionally substituted heterocycloalkyl" means a heterocycloalkyl group, as
defined herein, optionally substituted with one, two, or three substituents independently
selected from acyl, acylamino, acyloxy, optionally substituted alkyl, optionally substituted
alkenyl, alkoxy, alkenyloxy, halo, hydroxy, alkoxycarbonyl, alkenyloxycarbonyl, amino,
alkylamino, • dialkylamino, nitro, aminocarbonyl, alkylaminocarbonyl,
dialkylaminocarbonyl, carboxy, cyano, alkylthio, alkylsulfinyl, alkylsulfonyl,
aminosulfonyl, alkylaminosulfonyl, dialkylaminosulfonyl, alkylsulfonylamino,
aminoalkoxy, or aryl is pentafluorophenyl. Within the optional substituents on
"heterocycloalkyl", the alkyl and alkenyl, either alone or as part of another group
(including, for example, the alkyl in alkoxycarbonyl), are independently optionally
substituted with one, two, three, four, or five halo.
[0076] "Optionally substituted heterocycloalkylalkyi" means an alkyl group, as defined
herein, substituted with at least one, specifically one or two, optionally substituted
heterocycloalkyl group(s) as defined herein.
[0077] "Yield" for each of the reactions described herein is expressed as a percentage of
the theoretical yield.
[0078] 'Tatient" for the purposes of the present invention includes humans and other
animals, particularly mammals, and other organisms. Thus the methods are applicable to
both human therapy and veterinary applications. In a preferred embodiment the patient is a
mammal, and in a most preferred embodiment the patient is human.
[0079] "Kinase-dependent diseases or conditions" refer to pathologic conditions that
depend on the activity of one or more protein kinases. Kinases either directly or indirectly
participate in the signal transduction pathways of a variety of cellular activities including
proliferation, adhesion, migration, differentiation and invasion. Diseases associated with
kinase activities include tumor growth, the pathologic neovascularization that supports solid
tumor growth, and associated with other diseases where excessive local vascularization is
involved such as ocular diseases (diabetic retinopathy, age-related macular degeneration,
and the like) and inflammation (psoriasis, rheumatoid arthritis, and the like).
[0080] While not wishing to be bound to theory, phosphatases can also play a role in
"kinase-dependent diseases or conditions" as cognates of kinases; that is, kinases
phosphorylate and phosphatases dephosphorylate, for example protein substrates. Therefore
compounds of the invention, while modulating kinase activity as described herein, may also
modulate, either directly or indirectly, phosphatase activity. This additional modulation, if
present, may be synergistic (or not) to activity of compounds of the invention toward a
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related or otherwise interdependent kinase or kinase family. In any*case; as stated
previously, the compounds of the invention are useful for treating diseases characterized in
part by abnormal levels of cell proliferation (i.e. tumor growth), programmed cell death
(apoptosis), cell migration and invasion and angiogenesis associated with tumor growth.
[0081} "Therapeutically effective amount" is an amount of a compound of the
invention, that when administered to a patient, ameliorates a symptom of the disease. The
amount of a compound of the invention which constitutes a "therapeutically effective
amount" will vary depending on the compound, the disease state and its severity, the age of
the patient to be treated, and the like. The therapeutically effective amount can be
determined routinely by one of ordinary skill in the art having regard to their knowledge and
to this disclosure:
[0082] "Cancer" refers to cellular-proliferative disease states, including but not limited
to: Cardiac: sarcoma (angiosarcoma, fibrosarcoma, rhabdomyosarcoma, liposarcoma),
myxoma, rhabdomyoma, fibroma, lipoma and teratoma; Lung: bronchogenic carcinoma
(squamous cell, undifferentiated small cell, undifferentiated large cell, adenocarcinoma),
alveolar (bronchiolar) carcinoma, bronchial adenoma, sarcoma, lymphoma, chondromatous
hanlartoma, mesothelioma; Gastrointestinal: esophagus (squamous cell carcinoma,
adenocarcinoma, leiomyosarcoma, lymphoma), stomach (carcinoma, lymphoma,
leiomyosarcoma), pancreas (ductal adenocarcinoma, insulinoma, glucagonoma, gastrinoma,
carcinoid tumors, vipoma), small bowel (adenocarcinoma, lymphoma, carcinoid tumors,
Karposi's sarcoma, leiomyoma, hemangioma, lipoma, neurofibroma, fibroma), large bowel
(adenocarcinoma, tubular adenoma, villous adenoma, hamartoma, leiomyoma);
Genitourinary tract: kidney (adenocarcinoma, Wilms' tumor (nephroblastoma), lymphoma,
leukemia), bladder and urethra (squamous cell carcinoma, transitional cell carcinoma,
adenocarcinoma), prostate (adenocarcinoma, sarcoma), testis (seminoma, teratoma,
embryonal carcinoma, teratocarcinoma, choriocarcinoma, sarcoma, interstitial cell
carcinoma, fibroma, fibroadenoma, adenomatoid tumors, lipoma); Liver: hepatoma
(hepatocellular carcinoma), cholangiocarcinoma, hepatoblastoma, angiosarcoma,
hepatocellular adenoma, hemangioma; Bone: osteogenic sarcoma (osteosarcoma),
fibrosarcoma, malignant fibrous histiocytoma, chondrosarcoma, Ewing's sarcoma,
malignant lymphoma (reticulum cell sarcoma), multiple myeloma, malignant giant cell
tumor chordoma, osteochronfroma (osteocartilaginous exostoses), benign chondroma,
chondroblastoma, chondromyxofibroma, osteoid osteoma and giant cell tumors; Nervous
system: skull (osteoma, hemangioma, granuloma, xanthoma, osteitis deformans), meninges
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(meningioma, meningibsarcoma, gliomatosis), brain (astrocytoma, medulloblastoma,
glioma, ependymoma, germinoma [pinealoma], glioblastoma multiform,
oligodendroglioma, schwannoma, retinoblastoma, congenital tumors), spinal cord
neurofibroma, meningioma, glioma, sarcoma); Gynecological: uterus (endometrial
carcinoma), cervix (cervical carcinoma, pre-tumor cervical dysplasia), ovaries (ovarian
carcinoma [serous cystadenocarcinoma, mucinous cystadenocarcinoma, unclassified
carcinoma], granulosa-thecal cell tumors, SertoliLeydig cell tumors, dysgerminoma,
malignant teratoma), vulva (squamous cell carcinoma, intraepithelial carcinoma,
adenocarcinoma, fibrosarcoma, melanoma), vagina (clear cell carcinoma, squamous cell
carcinoma, botryoid sarcoma (embryonal rhabdomyosarcoma], fallopian tubes (carcinoma);
Hematologic: blood (myeloid leukemia [acute and chronic], acute lymphoblastic leukemia,
chronic lymphocytic leukemia, myeloproliferative diseases, multiple myeloma,
myelodysplasia syndrome), HodgkiAT's disease, non-Hodgkin's lymphoma [malignant
lymphoma]; Skin: malignant melanoma, basal cell carcinoma, squamous cell carcinoma,
Karposi's sarcoma, moles dysplastic nevi, lipoma, angioma, dermatofibroma, keloids,
psoriasis; and Adrenal glands: neuroblastoma. Thus, the term "cancerous cell" as provided
herein, includes a cell afflicted by any one of the above-identified conditions.
[0083] A "pharmaceutically acceptable salt" of a compound means a salt that is
pharmaceutically acceptable and that possesses the desired pharmacological activity of the
parent compound. It is understood that the pharmaceutically acceptable salts are non-toxic.
Additional information on suitable pharmaceutically acceptable salts can be found in
Remington's Pharmaceutical Sciences, 17th ed., Mack Publishing Company, Easton, PA,
1985, which is incorporated herein by reference or S. M. Berge, et al., "Pharmaceutical
Salts," J. Pharm. Sci., 1977;66:1-19 both of which are incorporated herein by reference.
[0084] Examples of pharmaceutically acceptable acid~ addition salts include those
formed with inorganic acids such as hydrochloric acid, hydrobromic acid, sulfuric acid,
nitric acid, phosphoric acid, and the like; as well as organic acids such as acetic acid,
trifluoroacetic acid, propionic acid, hexanoic acid, cyclopentanepropionic acid, glycolic
acid, pyruvic acid, lactic acid, oxalic acid, maleic acid, malonic acid, succinic acid, fumaric
acid, tartaric acid, citric acid, benzoic acid, cinnamic acid, 3-(4-hydroxybenzoyl)benzoic
acid, mandelic acid, methanesulfonic acid, ethanesulfonic acid, 1,2-ethanedisulfonic acid,
2-hydroxyethanesulfonic acid, benzenesulfonic acid, 4-chlorobenzenesulfonic acid,
2-naphthalenesulfonic acid, 4-toluenesulfonic acid, camphorsulfonic acid, glucoheptonic
acid, 4,4'-methylenebis-(3-hydroxy-2-ene-l-carboxylic acid), 3-phenylpropionic acid,
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trimethylacetic acid, tertiary butylacetic acid, lauryl sulfuric acid, gluconic acid, glutamic
acid, hydroxynaphthoic acid, salicylic acid, stearic acid, muconic acid, p-toluenesulfonic
acid, and salicylic acid and the like.
[0085] Examples of a pharmaceutically acceptable base addition salts include those
formed when an acidic proton present in the parent compound is replaced by metal ion,
such as sodium, potassium, lithium, ammonium, calcium, magnesium, iron, zinc, copper,
manganese, aluminum salts and the like. Preferable salts are the ammonium, potassium,
sodium, calcium, and magnesium salts. Salts derived from pharmaceutically acceptable
organic non-toxic bases include, but are not limited to, salts of primary, secondary, and
tertiary amines, substituted amines including naturally occurring substituted amines, cyclic
amines and basic ion exchange resins. Examples of organic bases include isopropylamine,
trimethylamine, diethylamine, triethylamine, tripropylamine, ethanolamine,
2-dimethylaminoethanol, 2-diethylaminoethanol, dicyclohexylamine, lysine, arginine,
histidine, caffeine, procaine, hydrabamine, choline, betaine, ethylenediamine, glucosamine,
methylglucamine, meobromine, purines, piperazine, piperidine, iV-ethylpiperidine,
tromethamine, JV-methylglucamine, polyamine resins, and the like. Exemplary organic bases
are isopropylamine, diethylamine, ethanolamine, trimethylamine, dicyclohexylamine,
choline, and caffeine.
[0086] "Prodrug" refers to compounds that are transformed (typically rapidly) in vivo to
yield the parent compound of the above formulae, for example, by hydrolysis in blood.
Common examples include, but are not limited to, ester and amide forms of a compound
having an active form bearing a carboxylic acid moiety. Examples of pharmaceutically
acceptable esters of the compounds of this invention include, but are not limited to, alkyl
esters (for example with between about one and about six carbons) the alkyl group is a
straight or branched chain. Acceptable esters also include cycloalkyl esters and arylalkyl
esters such as, but not limited to benzyl. Examples of pharmaceutically acceptable amides
of the compounds of this invention include, but are not limited to, primary amides, and
secondary and tertiary alkyl amides (for example with between about one and about six
carbons). Amides and esters of the compounds of the present invention may be prepared
according to conventional methods. A thorough discussion of prodrugs is provided in T.
Higuchi and V. Stella, "Pro-drugs as Novel Delivery Systems," Vol 14 of the A.C.S.
Symposium Series, and in Bioreversible Carriers in Drug Design, ed. Edward B. Roche,
American Pharmaceutical Association and Pergamon Press, 1987, both of which are
incorporated herein by reference for all purposes.
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[0087] "Metabolite" refers to the break-down or end product of a compound or its salt
produced by metabolism or biotransformation in the animal or human body; for example,
biotransformation to a more polar molecule such as by oxidation, reduction, or hydrolysis,
or to a conjugate (see Goodman and Gilman, "The Pharmacological Basis of Therapeutics"
8.sup.th Ed., Pergamon Press, Gilman - et al. (eds), 1990 for a discussion of
biotransformation). As used herein, the metabolite of a compound of the invention or its salt
may be the biologically active form of the compound in the body. In one example, a
prodrug may be used such that the biologically active form, a metabolite, is released in vivo.
In another example, a biologically active metabolite is discovered serendipitously, that is,
no prodrug design per se was undertaken. An assay for activity of a metabolite of a
compound of the present invention is known to one of skill in the art in light of the present
disclosure.
[0088] "Treating" or "treatment" of a disease, disorder, or syndrome, as used herein,
includes (i) preventing the disease, disorder, or syndrome from occurring in a human, i.e.
causing the clinical symptoms of the disease, disorder, or syndrome not to develop in an
animal that may be exposed to or predisposed to the disease, disorder, or syndromeut does
not yet experience or display symptoms of the disease, disorder, or syndrome; (ii) inhibiting
the disease, disorder, or syndrome, i.e., arresting its development; and (Hi) relieving the
disease, disorder, or syndrome, i.e., causing regression of the disease, disorder, or
syndrome. As is known in the art, adjustments for systemic versus localized delivery, age,
body weight, general health, sex, diet, time of administration, drug interaction and the
severity of the condition may be necessary, and will be ascertainable with routine
experimentation by one of ordinary skill in the art.
Embodiments of the Invention
[0089] One embodiment (A) of the Invention is directed to a Compound of Formula I
where R1 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted cycloalkylalkyl, optionally substituted aryl, optionally substituted
arylalkyl, optionally substituted heterocycloalkyl, optionally substituted
heterocycloalkylalkyl, optionally substituted heteroaryl or optionally substituted
heteroarylalkyl. Specifically, R1 is hydrogen, optionally substituted alkyl, optionally
substituted cycloalkyl, optionally substituted arylalkyl, or optionally substituted
heterocycloalkylalkyl. More specifically, R1 is hydrogen, alkyl, alkyl substituted with one
or two hydroxy, alkyl substituted with alkoxy, cycloalkyl, arylalkyl, or
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heterocycloalkylalkyl. Even more specifically, R1 is hydrogen, methyl, ethyl, propyl,
isopropyl, 2-hydroxypropyl, 3-hydroxypropyl, 2-ethoxyethyl, 3-methoxypropyl,
3-ethoxypropyl, 3-isopropoxypropyl, cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl,
benzyl, or 2-piperidin-l-ylethyl. Yet even more specifically, R1 is ethyl, isopropyl,
cyclopentyl, or cyclohexyl. Yet even more specifically, R1 is ethyl.
[0090] Another embodiment (B) of the Invention is directed to a Compound of Formula
I where R2 is hydrogen or alkyl where the alkyl is optionally substituted with 1,2,3,4, or 5
R groups. Specifically, R is hydrogen or alkyl where the alkyl is optionally substituted
• ft 0
with one, two, or three R groups. More specifically, R is hydrogen or alkyl where the
alkyl is optionally substitued with one, two, or three R8 groups; and each R8, when present,
is independently selected from amino, alkylamino, dialkylamino, and halo. Even more
specifically, R2 is hydrogen, methyl, ethyl, propyl, isopropyl, tert-butyl, 3-aminopropyl, 3-
(AT-methylamino)-propyl, S-AdimethylaminoJ-propyl, 2-fluoroethyl, or 2,2,2-
trifluoroethyl. Yet even more specifically, R2 is hydrogen or ethyl. Yet even more
preferably, R2 is hydrogen.
[0091] In another embodiment of the Invention, R2 is hydrogen.
[0092] In another embodiment of the invention, R2 is alkyl optionally substituted with 1,
2, 3, 4, or 5, R8 groups. Specifically, R2 is alkyl where the alkyl is optionally substitued
with one, two, or three R8 groups; and each R8, when present, is independently selected
from amino, alkylamino, dialkylamino, and halo. Even more specifically, R2 is methyl,
ethyl, propyl, isopropyl, ter/-butyl, 3-aminopropyl, 3-(7/-memylamino)-propyl, 3-(N,N-
dimethylamino)-propyl, 2-fluoroethyl, or 2,2,2-trifluoroethyl. Yet even more specifically,
R2 is ethyl.
[0093] Another embodiment (C) of the Invention is directed to a Compound of Formula
I where R4 is optionally substituted alkyl. Specifically, R4 is methyl or ethyl. More
specifically, R4 is methyl.
[0094] Another embodiment (D) of the Invention is directed to a Compound of Formula
I where R6 is acyl. More specifically, R6 is alkylcarbonyl. Even more specifically, R6 is
acetyl.
[0095] Another embodiment (E) of the Invention is directed to a Compound of Formula
I where R6 is phenyl optionally substituted with 1,2,3,4, or 5 R9 groups. Specifically, R6
is phenyl optionally substituted with one or two R9 groups; and each R9, when present, is
independently selected from aryl, halo, alkoxy, aryloxy, and haloalkyl. More specifically,
R is phenyl optionally substituted with one or two R9 groups; and each R9, when present, is
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independently selected from phenyl, fluoro, chloro, methoxy, phenylbxy, and
trifluoromethyl. Even more specifically, R6 is phenyl, phenyl substituted with phenyl,
fluorophenyl, difluorophenyl, chlorophenyl, dichlorophenyl, phenyl substituted with chloro
and fluoro, methoxyphenyl, dimethoxyphenyl, phenyloxyphenyl, or trifluoromefhylphenyl.
Yet even more specifically, R6 is phenyl, 2-phenyl-phenyl, 3-phenyl-phenyl, 4-phenyl-
phenyl, 2-fluorophenyl, 3-fluorophenyl, 4-fluorophenyl, 2,3-difluorophenyl, 2,4-
difluorophenyl, 2,5-difluorophenyl, 2,6-difluorophenyl, 3,4-difluorophenyl,
3,5-difluorophenyl, 2-chlorophenyl, 3-chlorophenyl, 4-chlorophenyl, 2,3-dichlorophenyl,
2,4-dichlorophenyl, 2,5-dichlorophenyl, 2,6-dichlorophenyl, 3,4-dichlorophenyl,
3,5-dichlorophenyl, 3-chloro-4-fluoro-phenyl, 2-methoxyphenyl, 3-methoxyphenyl,
4-methoxyphenyl, 2,3-dimethoxyphenyl, 2,4-dimethoxyphenyl, 2,5-dimethoxyphenyl,
2,6-dimethoxyphenyl, 3,4-dimethoxyphenyl, 3,5-dimethoxyphenyl, 4-phenyloxyphenyl,
2-trifluoromethylphenyl, 3-trifluoromethylphenyl, or 4-trifluoromethylphenyl.
[0096] Another embodiment (F) of the Invention is directed to a Compound of Formula
I where R6 is phenyl subtituted with 1,2,3,4, or 5 R9 groups.
[0097] Another embodiment (G) of the Invention is directed to a Compound of Formula
I where R6 is heteroaryl optionally substituted with 1,2, 3,4, or 5 R9 groups.
[0098] A more specific embodiment (Gl) of embodiment G is a Compound of Formula
I where R6 is a 6-membered heteroaryl optionally substituted with one or two R9. More
specifically, R6 is pyridinyl, pyrazinyl, pyrimidinyl, or pyridazinyl each of which is
optionally substituted with one R9 where R9, when present, is halo. Even more specifically,
R6 is pyridW-2-yl, pyridW-3-yl, pyridW-4-yl, 3-fluoropyridiAT-4-yl, pyrazin-2-yl, pyrazin-
3-yl, pyrimidin-2-yl, pyrimidin-4-yl, pyrimidin-5-yl, pyridazin-3-yl, or pyridazin-4-yl, each
of which is optionally substituted with one or two R9.
[0099] In an even more specific embodiment (G2) of embodiment G is a Compound of
Formula I where R6 is pyrazinyl, pyrimidinyl, or pyridazinyl each of which is optionally
substituted with one R9 where R9, when present, is halo. Even more specifically, R6 is
pyrazin-2-yl, pyrazin-3-yl, pyrimidin-2-yl, pyrimidin-4-yl, pyrimidin-5-yl, pyridazin-3-yl,
or pyridazin-4-yl.
[00100] A more specific embodiment (G3) of embodiment G is a Compound of Formula
I where R6 is 5-membered heteroaryl optionally substituted with one or two R9. Specifically
R6 is pyrazolyl, imidazolyl, thienyl, thiazolyl, oxazolyl, isoxazolyl, oxadiazolyl, furanyl,
pyrrolyl, triazolyl, or tetrazolyl, each of which is optionally substituted with one R9 where
R9, when present, is alkyl, arylalkyl, cyano, aryl, alkoxycarbonyl, or halo. More
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specifically, R6 is pyrazol-1-yl, pyrazol-3-yl, pyrazol-4-yl, pyrazol-5-yl,imidazol-1-yl,
imidazol-2-yl, imidazol-4-yl, imidazol-5-yl, thien-2-yl, thien-3-yl, thiazol-2-yl, thiazol-4-yl,
thiazol-5-yl, oxazol-2-yl, oxazol-4-yl, oxazol-5-yl, isoxazol-3-yl, isoxazol-4-yl, isoxazol-5-
yl, l,2,3-oxadiazol-4-yl, l,2,3-oxadiazol-5-yl, l,3,4-oxadiazol-2-yl, l,2,4-oxadiazol-3-yl,
- lj2,4-oxadiazol-5-yl, furan-2-yl, furan-3-ylj pyrrol- lyly pyrrol-2-yl, pyrrol-3-yl, triazol-1-
yl, triazol-4-yl, triazol-5-yl, tetrazol-1-yl, or tetrazol-5-yl; each of which is optionally
substituted with one R9 where R9, when present, is methyl, benzyl, cyano, phenyl,
JV-ferf-butoxycarbonyl, or chloro. Even more specifically, R6 is pyrazol-3-yl, pyrazol-4-yl,
pyrazol-5-yl, imidazol-2-yl, imidazol-4-yl, imidazol-5-yl, thien-2-yl, thien-3-yl, thiazol-2-
yl, thiazol-4-yl, thiazol-5-yl, oxazol-2-yl, oxazol-4-yl, oxazol-5-yl, isoxazol-3-yl, isoxazol-
4-yl, isoxazol-5-yl, l,2,3-oxadiazol-4-yl, l,2,3-oxadiazol-5-yl, l,3,4-oxadiazol-2-yl,
l,2,4-oxadiazol-3-yl, l,2,4-oxadiazol-5-yl, furan-2-yl, furan-3-yl, pyrrol-2-yl, pyrrol-3-yl,
triazol-4-yl, triazol-5-yl, or tetrazol-5-yl; each of which is optionally substituted with one R9
where R9, when present, is methyl, benzyl, cyano, phenyl, N-tert-butoxycarbonyl, or chloro.
[00101] A more specific embodiment (G4) of embodiment G is a Compound of Formula
I where R6 is thienyl, pyrrolyl, furanyl, pyrazolyl, thiazolyl, isoxazolyl, imidazolyl,
triazolyl, or tetrazolyl, each of which is optionally substituted with one R9 where R9, when
present, is methyl, benzyl, cyano, phenyl, JV-ter/-butoxycarbonyl, or chloro. Specifically, R6
is thien-2-yl, thien-3-yl, pyrrol-2-yl, furan-2-yl, furan-3-yl, pyrazol-3-yl, pyrazol-4-yl,
pyrazol-5-yl, thiazol-2-yl, thiazol-5-yl, isoxazol-4-yl, imidazol-5-yl, triazol-5-yl, tetrazol-5-
yl, each of which is optionally substituted with one R9 where R9, when present, is methyl,
benzyl, cyano, phenyl, A'-terf-butoxycarbonyl, or chloro. More specifically, R6 is thien-2-
yl, thien-3-yl, 5-cyano-thien-2-yl, 4-methyl-thien-2-yl, 4-methyl-thien-3-yl, 5-chloro-thien-
5-yl, 5-phenyl-thien-2-yl, pyrrol-2-yl, JV-terbutoxycarbonyl-pyrrol-2-yl, JV-methyl-pyrrol-
2-yl, furan-2-yl, furan-3-yl, pyrazol-3-yl, pyrazol-4-yl, iV-benzyl-pyrazol-4-yl, pyrazol-5-yl,
thiazol-2-yl, thiazol-5-yl, isoxazol-4-yl, imidazol-5-yl, triazol-5-yl, tetrazol-5-yl,
[00102] A more specific embodiment (G5) of embodiment G is a Compound of Formula
I where R6 is thien-2-yl, thien-3-yl, pyrrol-2-yl, furan-2-yl, furan-3-yl, pyrazol-3-yl,
pyrazol-4-yl, pyrazol-5-yl, thiazol-2-yl, thiazol-5-yl, isoxazol-4-yl, imidazol-5-yl, triazol-5-
yl, or tetrazol-5-yl, each of which is optionally substituted with one R9 where R9, when
present, is methyl, benzyl, cyano, phenyl, JV-fert-butoxycarbonyl, or chloro.
[00103] A more specific embodiment (G6) of embodiment G is a Compound of Formula
I where R6 is indolyl, benzimidazolyl, benzofuranyl, benzoxazolyl, or benzoisoxazolyl each
of which is optionally substituted with 1,2,3,4, or 5 R9 groups. Specifically, R6 is indol-
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2-yl, indol-3-yl, indol-4-yl, indol-5-yl, indol-6-yl, indol-7-yl, benzimidazol-2-yl,
benzimidazol-4-yl, benzimidazol-5-yl, benzimidazol-6-yl, benzimidazol-7-yl, benzofuran-2-
yl, benzofuran-3-yl, benzofuran-4-yl, benzofuran-5-yl, benzofuran-6-yl, benzofuran-7-yl,
benzoxazol-2-yl, benzoxazol-4-yl, benzoxazol-5-yl, benzoxazol-6-yl, benzoxazol-7-yl,
*benzoisoxazol-3-yl, benzoisoxazol-4-yl, benzoisoxazol-5-yl, benzoisoxazol-6-yl, or
benzoisoxazol-7-yl; each of which is optionally substituted with 1,2,3,4, or 5 R9 groups.
More specifically, R6 is indol-6-yl.
[00104] Another embodiment of the Invention (H) is a Compound of Formula 1 where
R1 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkylalkyl, or optionally substituted arylalkyl; X is -NH-; R2 is
hydrogen or alkyl where the alkyl is optionally substituted with one or two R8 groups; R4 is
alkyl; R5 is hydrogen; R6 is phenyl or heteroaryl wherein the phenyl and heteroaryl are
optionally substituted with one, two, or three R9 groups; each R8, when present, is
independently amino, alkylamino, dialkylamino, or halo; and each R9, when present, is
independently alkyl, arylalkyl, cyano, aryl, alkoxycarbonyl, or halo.
[00105] Another embodiment of the Invention (J) is a Compound of Formula 1 where R6
is pyrazol-3-yl, pyrazol-4-yl, pyrazol-5-yl, imidazol-2-yl, imidazol-4-yl, imidazol-5-yl,
thien-2-yl, thien-3-yl, thiazol-2-yl, thiazol-4-yl, thiazol-5-yl, oxazol-2-yl, oxazol-4-yl,
oxazol-5-yl, isoxazol-3-yl, isoxazol-4-yl, isoxazol-5-yl, l,2,3-oxadiazol-4-yl, 1,2,3-
oxadiazol-5-yl, l,3,4-oxadiazol-2-yl, l,2,4-oxadiazol-3-yl, l,2,4-oxadiazol-5-yl, furan-2-yl,
furan-3-yl, pyrrol-2-yl, pyrrol-3-yl, triazol-4-yl, triazol-5-yl, or tetrazol-5-yl; each of which
is optionally substituted with 1,2, 3,4, or 5 R9 groups.
[00106] Another embodiment (K) of the Invention is a Compound of Formula I where R1
is alkyl or cycloalkyl; R4 is methyl; and R6 is heteroaryl optionally substituted with one or
two R9 groups. Specifically, each R9, when present, is independently alkyl, arylalkyl,
cyano, aryl, alkoxycarbonyl, or halo. Specifically, R6 is pyrazol-3-yl, pyrazol-4-yl, pyrazol-
5-yl, imidazol-2-yl, imidazol-4-yl, imidazol-5-yl, thien-2-yl, thien-3-yl, thiazol-2-yl,
thiazol-4-yl, thiazol-5-yl, oxazol-2-yl, oxazol-4-yl, oxazol-5-yl, isoxazol-3-yl, isoxazol-4-yl,
isoxazol-5-yl, l,2,3-oxadiazol-4-yl, l,2,3-oxadiazol-5-yl, l,3,4-oxadiazol-2-yl, 1,2,4-
oxadiazol-3-yl, 1,2,4-oxadiazol-5-yl, furan-2-yl, furan-3-yl, pyrrol-2-yl, pyrrol-3-yl, triazol-
4-yl, triazol-5-yl, or tetrazol-5-yl; each of which is optionally substituted with one R9 where
R9, when present, is methyl, benzyl, cyano, phenyl, or JV-rerr-butoxycarbonyl.
[00107] A more specific embodiment (Kl) of embodiment K is a Compound of Formula
I where R2 is hydrogen.
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[00108] A more specific embodiment (K2) of embodiment K is a Compound of Formula
I where R2 is methyl or ethyl.
[00109] Another embodiment (L) of the Invention is a Compound of Formula I where R1
is alkyl or cycloalkyl; R4 is methyl; and R6 is phenyl optionally substituted with one or two
-- R9 groups. Specifically each R9, when present, is independently halo, alkoxy, or haloalkyl.
[00110] Another embodiment (M) of the Invention is a Compound of Formula I where
R1 is alkyl or cycloalkyl; R4 is methyl; and R2 is hydrogen.
[00111] Another embodiment (N) of the Invention is a Compound of Formula I where R1
is alkyl or cycloalkyl; R4 is methyl; and R2 is optionally subtituted alkyl.
[00112] Another embodiment (P) of the Invention is a method of treating disease,
disorder, or syndrome where the disease is associated with uncontrolled, abnormal, and/or
unwanted cellular activities effected directly or indirectly by PBKa which method
comprises administering to a human in need thereof a therapeutically effective amount of a
compound of Formula I or II or a pharmaceutically acceptable salt, solvate, or a
pharmaceutical composition thereof. Specifically, the Compound is of Formula I.
[00113] Another embodiment (Q) of the invention is directed to a method of treating a
disease, disorder, or syndrome which method comprises administering to a patient a
therapeutically effective amount of a compound of Formula I or a pharmaceutically
acceptable salt or solvate thereof, or a pharmaceutical composition comprising a
therapeutically effective amount of a compound of Formula I and a pharmaceutically
acceptable carrier, excipient, or diluent. Specifically, the disease is cancer. More
specifically, the cancer is breast cancer, colon cancer, rectal cancer, endometrial cancer,
gastric carcinoma, glioblastoma, hepatocellular carcinoma, small cell lung cancer, non-
small cell lung cancer, melanoma, ovarian cancer, cervical cancer, pancreatic cancer,
prostate carcinoma, acute myelogenous leukemia (AML), chronic myelogenous leukemia
(CML), or thyroid carcinoma. Even more specifically, the cancer is ovarian cancer, cervical
cancer, breast cancer, colon cancer, rectal cancer, or glioblastoma.
[00114] Another embodiment (R) of the Invetnion is directed to a method of treating a
disease, disorder, or syndrome which method comprises administering to a patient a
therapeutically effective amount of a compound of Formula II or a pharmaceutically
acceptable salt or solvate thereof, or a pharmaceutical composition comprising a
therapeutically effective amount of a compound of Formula II and a pharmaceutically
acceptable carrier, excipient, or diluent. Specifically, the disease is cancer. More
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specifically, the cancer is breast cancer, colon cancer, rectal cancer, endometrial cancer,
gastric carcinoma, glioblastoma, hepatocellular carcinoma, small cell lung cancer, non-
small cell lung cancer, melanoma, ovarian cancer, cervical cancer, pancreatic cancer,
prostate carcinoma, acute myelogenous leukemia (AML), chronic myelogenous leukemia
(GML), or thyroid carcinoma. Even more specifically, 4he cancer is ovarian cancer, cervical
cancer, breast cancer, colon cancer, rectal cancer, or glioblastomas.
[001151 Another aspect of the invention is a method of inhibiting proliferative activity in
a cell, the method comprising administering to a cell or a plurality of cells an effective
amount of a compound of Formula I or II, or a pharmaceutically acceptable salt, solvate, or
prodrug thereof, or a pharmaceutical composition thereof. Specifically, the Compound is of
Formula I.
[00116] Another aspect of the invention is directed to employing the compounds of the
invention in a method of screening for candidate agents that bind to, for example PDKa.
The protein is bound to a support, and a compound of the invention is added to the assay.
Alternatively, the compound of the invention is bound to the support and the protein is
added. Classes of candidate agents among which novel binding agents may be sought
include specific antibodies, non-natural binding agents identified in screens of chemical
libraries, peptide analogs, etc. Of particular interest are screening assays for candidate
agents that have a low toxicity for human cells. A wide variety of assays may be used for
this purpose, including labeled 'in vitro proteW-protein binding assays, electrophoretic
mobility shift assays, immunoassays for protein binding, functional assays (phosphorylation
assays, etc.) and the like.
[00117] The determination of the binding of the candidate agent to, for example, PBKa
can be done in a number of ways. In one example, the candidate agent (the compound of the
invention) is labeled, for example, with a fluorescent or radioactive moiety and binding
determined directly. For example, this may be done by attaching all or a portion of the
PI3Ka protein to a solid support, adding a labeled agent (for example a compound of the
invention in which at least one atom has been replaced by a detectable isotope), washing off
excess reagent, and determining whether the amount of the label is that present on the solid
support. Various blocking and washing steps may be utilized as is known in the art.
[00118] The term "labeled" as used herein is meant to include both direct and indirect
labeling with a compound that provides a detectable signal, for example, radioisotope,
fluorescent tag, enzyme, antibodies, particles such as magnetic particles, chemiluminescent
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tag, or specific binding molecules, and the like. Specific binding molecules include pairs,
such as biotin and streptavidin, digoxin and antidigoxin, and the like. For the specific
binding members, the complementary member would normally be labeled with a molecule
which provides for detection, in accordance with known procedures, as outlined above. The
label can directly or indirectly provide a detectable signal.
[00119] In some embodiments, only one of the components is labeled. For example,
PI3Ka protein may be labeled at tyrosine positions using 125I, or with fluorophores.
Alternatively, more than one component may be labeled with different labels; using 125I for
the proteins, for example, and a fluorophor for the candidate agents.
[00120] The compounds of the invention may also be used as competitors to screen for
additional drug candidates. The terms "candidate bioactive agent" or "drug candidate" or
grammatical equivalents as used herein describe any molecule, e.g., protein, oligopeptide,
small organic molecule, polysaccharide, polynucleotide, etc., to be tested for bioactivity.
They may be capable of directly or indirectly altering the cellular proliferation phenotype or
the expression of a cellular proliferation sequence, including both nucleic acid sequences
and protein sequences. In other cases, alteration of cellular proliferation protein binding
. and/or activity is screened. In the case where protein binding or activity is screened, some
embodiments exclude molecules already known to bind to that particular protein.
Exemplary embodiments of assays described herein include candidate agents, which do not
bind the target protein in its endogenous native state, termed herein as "exogenous" agents.
In one example, exogenous agents further exclude antibodies to PDKa.
[00121] Candidate agents can encompass numerous chemical classes, though typically
they are organic molecules having a molecular weight of more than about 100 and less than
about 2,500 daltons. Candidate agents comprise functional groups necessary for structural
interaction with proteins, particularly hydrogen bonding and lipophilic binding, and
typically include at least an amine, carbonyl, hydroxyl, ether, or carboxyl group, for
example at least two of the functional chemical groups. The candidate agents often
comprise carbocyclic or heterocyclic structures and/or aromatic or polyaromatic structures
substituted with one or more of the above functional groups. Candidate agents are also
found among biomolecules including peptides, saccharides, fatty acids, steroids, purines,
pyrimidines, derivatives, structural analogs, or combinations thereof.
[00122] Candidate agents are obtained from a wide variety of sources including libraries
of synthetic or natural compounds. For example, numerous means are available for random
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and directed synthesis of a wide variety of organic compounds and biomolecules, including
expression of randomized oligonucleotides. Alternatively, libraries of natural compounds in
the form of bacterial, fungal, plant and animal extracts are available or readily produced.
Additionally, natural or synthetically produced libraries and compounds are readily
modified through conventional chemical, physical and - biochemical means. Known
pharmacological agents may be subjected to directed or random chemical modifications,
such as acylation, alkylation, esterification, amidification to produce structural analogs.
[00123] In one example, the binding of the candidate agent is determined through the use
of competitive binding assays. In this example, the competitor is a binding moiety known to
bind to PDKa, such as an antibody, peptide, binding partner, ligand, etc. Under certain
circumstances, there may be competitive binding as between the candidate agent and the
binding moiety, with the binding moiety displacing the candidate agent.
[00124] In some embodiments, the candidate agent is labeled. Either the candidate agent,
or the competitor, or both, is added first to PBKa protein for a time sufficient to allow
binding, if present. Incubations may be performed at any temperature that facilitates optimal
activity, typically between 4°C and 40°C.
[00125] Incubation periods are selected for optimum activity, but may also be optimized
to facilitate rapid high throughput screening. Typically between 0.1 and 1 hour will be
sufficient. Excess reagent is generally removed or washed away. The second component is
then added, and the presence or absence of the labeled component is followed, to indicate
binding.
[00126] In one example, the competitor is added first, followed by the candidate agent.
Displacement of the competitor is an indication the candidate agent is binding to PDKa and
thus is capable of binding to, and potentially modulating, the activity of the PDKa. In this
embodiment, either component can be labeled. Thus, for example, if the competitor is
labeled, the presence of label in the wash solution indicates displacement by the agent.
Alternatively, if the candidate agent is labeled, the presence of the label on the support
indicates displacement.
[00127] In an alternative embodiment, the candidate agent is added first, with incubation
and washing, followed by the competitor. The absence of binding by the competitor may
indicate the candidate agent is bound to PDKa with a higher affinity. Thus, if the candidate
agent is labeled, the presence of the label on the support, coupled with a lack of competitor
binding, may indicate the candidate agent is capable of binding to PDKa.
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[00128] It may be of value to identify the binding site of PBKcc. This can be done in a
variety of ways. In one embodiment, once PI3Ka is identified as binding to the candidate
agent, the PBKa is fragmented or modified and the assays repeated to identify the
necessary components for binding.
[0012?] Modulation is tested by screening for candidate agents capable of modulating the .
activity of PBKcc comprising the steps of combining a candidate agent with PBKa, as
above, and determining an alteration in the biological activity of the PBKa. Thus, in this
embodiment, the candidate agent should both bind to (although this may not be necessary),
and alter its biological or biochemical activity as defined herein. The methods include both
in vitro screening methods and in vivo screening of cells for alterations in cell viability,
morphology, and the like.
[00130] Alternatively, differential screening may be used to identify drug candidates that
bind to native PBKa, but cannot bind to modified PBKa.
[00131] Positive controls and negative controls can be used in the assays. For example,
all control and test samples are performed in at least triplicate to obtain statistically
significant results. Incubation of samples is for a time sufficient for the binding of the agent
to the protein. Following incubation, samples are washed free of non-specifically bound
material and the amount of bound, generally labeled agent determined. For example, where
a radiolabel is employed, the samples can be counted in a scintillation counter to determine
the amount of bound compound.
[00132] A variety of other reagents can be included in the screening assays. These
include reagents like salts, neutral proteins, e.g., albumin, detergents, etc which may be used
to facilitate optimal protein-protein binding and/or reduce non-specific or background
interactions. Also reagents that otherwise improve the efficiency of the assay, such as
protease inhibitors, nuclease inhibitors, anti-microbial agents, etc., may be used. The
mixture of components can be added in any order that provides for the requisite binding.
[00133] One of ordinary skill in the art would understand that certain crystallized,
proteiAT-ligand complexes, in particular PBKa-ligand-ligand complexes, and their
corresponding x-ray structure coordinates can be used to reveal new structural information
useful for understanding the biological activity of kinases as described herein. As well, the
key structural features of the aforementioned proteins, particularly, the shape of the ligand
binding site, are useful in methods for designing or identifying selective modulators of
kinases and in solving the structures of other proteins with similar features. Such protein-
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ligand complexes, having compounds of the invention as their ligand component, are an
aspect of the invention.
[00134] As well, one of ordinary skill in the art would appreciate that such suitable x-ray
quality crystals can be used as part of a method of identifying a candidate agent capable of
binding to and modulating the activity of kinases. Such methods.may be characterized by
the following aspects: a) introducing into a suitable computer program, information defining
a ligand binding domain of a kinase in a conformation (e.g. as defined by x-ray structure
coordinates obtained from suitable x-ray quality crystals as described above) wherein the
computer program creates a model of the three dimensional structures of the ligand binding
domain, b) introducing a model of the three dimensional structure of a candidate agent in
the computer program, c) superimposing the model of the candidate agent on the model of
the ligand binding domain, and d) assessing whether the candidate agent model fits spatially
into the ligand binding domain. Aspects a-d are not necessarily carried out in the
aforementioned order. Such methods may further entail: performing rational drug design
with the model of the three-dimensional structure, and selecting a potential candidate agent
in conjunction with computer modeling.
[00135], Additionally, one skilled in the art would appreciate that such methods may
further entail: employing a candidate agent, so-determined to fit spatially into the ligand
binding domain, in a biological activity assay for kinase modulation, and determining
whether said candidate agent modulates kinase activity in the assay. Such methods may also
include administering the candidate agent, determined to modulate kinase activity, to a
mammal suffering from a condition treatable by kinase modulation, such as those described
above.
[00136] Also, one skilled in the art would appreciate that compounds of the invention can
be used in a method of evaluating the ability of a test agent to associate with a molecule or
molecular complex comprising a ligand binding domain of a kinase. Such a method may be
characterized by the following aspects: a) creating a computer model of a kinase binding
pocket using structure coordinates obtained from suitable x-ray quality crystals of the
kinase, b) employing computational algorithms to perform a fitting operation between the
test agent and the computer model of the binding pocket, and c) analyzing the results of the
fitting operation to quantify the association between the test agent and the computer model
of the binding pocket.
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Representative Compounds
[00137] Representative compounds of Formula I and/or II are depicted below. The
examples are merely illustrative and do not limit the scope of the invention in any way.
Compounds of the invention are named according to systematic application of the
nomenclature rules agreed upon by the International Union of Pure and Applied Chemistry
(RJPAC), International Union of Biochemistry and Molecular Biology (R7BMB), and the
Chemical Abstracts Service (CAS). Names were generated using ACD/Labs naming
software 8.00 release, product version 8.08.
33
Table 1


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35

36
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37
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38
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39
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40
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41
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42
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43
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44
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45
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WO 2007/044813 PCT/US2006/039734

General Administration
[00138] In one aspect, the invention provides pharmaceutical compositions comprising
an inhibitor of PI3K according to the invention and a pharmaceutically acceptable carrier,
excipient, or diluent. In certain other specific embodiments, administration is by the oral
route. Administration of the compounds of the invention, or their pharmaceutically
acceptable salts, in pure form or in an appropriate pharmaceutical composition, can be
carried out via any of the accepted modes of administration or agents for serving similar
utilities. Thus, administration can be, for example, orally, nasally, parenterally (intravenous,
intramuscular, or subcutaneous), topically, transdermally, intravaginally, intravesically,
intracistemally, or rectally, in the form of solid, semi-solid, lyophilized powder, or liquid
dosage forms, such as for example, tablets, suppositories, pills, soft elastic and hard gelatin
capsules, powders, solutions, suspensions, or aerosols, or the like, specifically in unit
dosage forms suitable for simple administration of precise dosages. _.
[00139] The compositions will include a conventional pharmaceutical carrier or excipient
and a compound of the invention as the/an active agent, and, in addition, may include
carriers and adjuvants, etc.
[00140] Adjuvants include preserving, wetting, suspending, sweetening, flavoring,
perfuming, emulsifying, and dispensing agents. Prevention of the action of microorganisms
can be ensured by various antibacterial and antifungal agents, for example, parabens,
chlorobutanol, phenol, sorbic acid, and the like. It may also be desirable to include isotonic
agents, for example sugars, sodium chloride, and the like. Prolonged absorption of the
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injectable, pharmaceutical form can be brought about by the use of agents delaying
absorption, for example, aluminum monostearate and gelatin.
[00141] If desired, a pharmaceutical composition of the invention may also contain
minor amounts of auxiliary substances such as wetting or emulsifying agents, pH buffering
agents, antioxidants, and the like, such as, for example, citric acid, sorbitan monolaurate,
Methanolamine oleate, butylalted hydroxytoluene, etc.
[00142] The choice of formulation depends on various factors such as the mode of drug
administration (e.g., for oral administration, formulations in the form of tablets, pills or
capsules) and the bioavailability of the drug substance. Recently, pharmaceutical
formulations have been developed especially for drugs that show poor bioavailability based
upon the principle that bioavailability can be increased by increasing the surface area i.e.,
decreasing particle size. For example, U.S. Pat. No. 4,107,288 describes a pharmaceutical
formulation having particles in the size range from 10 to 1,000 nm in which the active
material is supported on a crosslinked matrix of macromolecules. U.S. Pat. No. 5,145,684
describes the production of a pharmaceutical formulation in which the drug substance is
pulverized to nanoparticles (average particle size of 400 nm) in the presence of a surface
modifier and then dispersed in a liquid medium to give a pharmaceutical formulation that
exhibits remarkably high bioavailability.
[00143] Compositions suitable for parenteral injection may comprise physiologically
acceptable sterile aqueous or nonaqueous solutions, dispersions, suspensions or emulsions,
and sterile powders for reconstitution into sterile injectable solutions or dispersions.
Examples of suitable aqueous and nonaqueous carriers, diluents, solvents or vehicles
include water, ethanol, polyols (propyleneglycol, polyethyleneglycol, glycerol, and the
like), suitable mixtures thereof, vegetable oils (such as olive oil) and injectable organic
esters such as ethyl oleate. Proper fluidity can be maintained, for example, by the use of a
coating such as lecithin, by the maintenance of the required particle size in the case of
dispersions and by the use of surfactants.
[00144] One specific route of administration is oral, using a convenient daily dosage
regimen that can be adjusted according to the degree of severity of the disease-state to be
treated.
[00145] Solid dosage forms for oral administration include capsules, tablets, pills,
powders, and granules. In such solid dosage forms, the active compound is admixed with at
least one inert customary excipient (or carrier) such as sodium citrate or dicalcium
phosphate or (a) fillers or extenders, as for example, starches, lactose, sucrose, glucose,
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mannitol, and silicip acid, (b) binders, as for example, cellulose derivatives, starch,
alignates, gelatin, polyvinylpyrrolidone, sucrose, and gum acacia, (c) humectants, as for
example, glycerol, (d) disintegrating agents, as for example, agar-agar, calcium carbonate,
potato or tapioca starch, alginic acid, croscarmellose sodium, complex silicates, and sodium
carbonate, (e) solution retarders, as for example paraffin, (f) absorption accelerators, as for
example, quaternary ammonium compounds, (g) wetting agents, as for example, cetyl
alcohol, and glycerol monostearate, magnesium stearate and the like (h) adsorbents, as for
example, kaolin and bentonite, and (i) lubricants, as for example, talc, calcium stearate,
magnesium stearate, solid polyethylene glycols, sodium lauryl sulfate, or mixtures thereof.
In the case of capsules, tablets, and pills, the dosage forms may also comprise buffering
agents.
[00146] Solid dosage forms as described above can be prepared with coatings and shells,
such as enteric coatings and others well known in the art. They may contain pacifying
agents, and can also be of such composition that they release the active compound or
compounds in a certain part of the intestinal tract in a delayed manner. Examples of
embedded compositions that can be used are polymeric substances and waxes. The active
compounds can also be in microencapsulated form, if appropriate, with one or more of the
above-mentioned excipients.
[00147] Liquid dosage forms for oral administration include pharmaceutically acceptable
emulsions, solutions, suspensions, syrups, and elixirs. Such dosage forms are prepared, for
example, by dissolving, dispersing, etc., a compound(s) of the invention, or a
pharmaceutically acceptable salt thereof, and optional pharmaceutical adjuvants in a carrier,
such as, for example, water, saline, aqueous dextrose, glycerol, ethanol and the like;
solubilizing agents and emulsifiers, as for example, ethyl alcohol, isopropyl alcohol, ethyl
carbonate, ethyl acetate, benzyl alcohol, benzyl benzoate, propyleneglycol,
1,3-butyleneglycol, dimethylformamide; oils, in particular, cottonseed oil, groundnut oil,
corn germ oil, olive oil, castor oil and sesame oil, glycerol, tetrahydrofurfuryl alcohol,
polyethyleneglycols and fatty acid esters of sorbitan; or mixtures of these substances, and
the like, to thereby form a solution or suspension.
[00148] Suspensions, in addition to the active compounds, may contain suspending
agents, as for example, ethoxylated isostearyl alcohols, polyoxyethylene sorbitol and
sorbitan esters, microcrystalline cellulose, aluminum metahydroxide, bentonite, agar-agar
and tragacanth, or mixtures of these substances, and the like.
48

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{00149] Compositions for rectal administrations are, for example, suppositories that can
be prepared by mixing the compounds of the present invention with for example suitable
non-irritating excipients or carriers such as cocoa butter, polyethyleneglycol or a
suppository wax, which are solid at ordinary temperatures but liquid at body temperature
and therefore, melt while in a suitable body cavity and release the active component therein.
[00150] Dosage forms for topical administration of a compound of this invention include
ointments, powders, sprays, and inhalants. The active component is admixed under sterile
conditions with a physiologically acceptable carrier and any preservatives, buffers, or
propellants as may be required. Ophthalmic formulations, eye ointments, powders, and
solutions are also contemplated as being within the scope of this invention.
[00151] Compressed gases may be used to disperse a compound of this invention in
aerosol form. Inert gases suitable for this purpose are nitrogen, carbon dioxide, etc.
[00152] Generally, depending on the intended mode of administration, the
pharmaceutically acceptable compositions will contain about 1% to about 99% by weight of
a compound(s) of the invention, or a pharmaceutically acceptable salt thereof, and 99% to
1% by weight of a suitable pharmaceutical excipient. In one example, the composition will
be between about 5% and about 75% by weight of a compound(s) of the invention,, or a
pharmaceutically acceptable salt thereof, with the rest being suitable pharmaceutical
excipients.
[00153] Actual methods of preparing such dosage forms are known, or will be apparent,
to those skilled in this art; for example, see RemingtoATs Pharmaceutical Sciences, 18th
Ed., (Mack Publishing Company, Easton, Pa., 1990). The composition to be administered
will, in any event, contain a therapeutically effective amount of a compound of the
invention, or a pharmaceutically acceptable salt thereof, for treatment of a disease-state in
accordance with the teachings of this invention.
[00154] The compounds of the invention, or their pharmaceutically acceptable salts or
solvates, are administered in a therapeutically effective amount which will vary depending
upon a variety of factors including the activity of the specific compound employed, the
metabolic stability and length of action of the compound, the age, body weight, general
health, sex, diet, mode and time of administration, rate of excretion, drug combination, the
severity of the particular disease-states, and the host undergoing therapy. The compounds of
the present invention can be administered to a patient at dosage levels in the range of about
0.1 to about 1,000 mg per day. For a normal human adult having a body weight of about 70
kilograms, a dosage in the range of about 0.01 to about 100 mg per kilogram of body weight
49

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per day is an example. The specific dosage used, however, can vary. For example, the
dosage can depend on a number of factors including the requirements of the patient, the
severity of the condition being treated, and the pharmacological activity of the compound
being used. The determination of optimum dosages for a particular patient is well known to
one of ordinary skill in the art.
[00155] If formulated as a fixed dose* such combination products employ the compounds
of this invention within the dosage range described above and the other pharmaceuticaUy
active agent(s) within its approved dosage range. Compounds of the instant invention may
alternatively be used sequentially with known pharmaceutically acceptable agent(s) when a
combination formulation is inappropriate.
[00156] Representative pharmaceutical formulations containing a compound of Formula
I are described below in the Pharmaceutical Composition Examples.
UTILITY
[00157] Certain compounds of this invention have been tested using the assay described
in Biological Example 1 and have been determined to be PI3K inhibitors. As such
compounds of Formula I are useful for treating diseases, particularly cancer in which PI3K
activity contributes to the pathology and/or symptomatology of the disease. For example,
cancer in which PI3K activity contributes to its pathology and/or symptomatology include
breast cancer, colon cancer, rectal cancer, endometrial cancer, gastric carcinoma,
glioblastoma, hepatocellular carcinoma, small cell lung cancer, non-small cell lung cancer,
melanoma, ovarian cancer, cervical cancer, pancreatic cancer, prostate carcinoma, acute
myelogenous leukemia (AML), chronic myelogenous leukemia (CML), or thyroid
carcinoma i
[00158] Suitable in vitro assays for measuring PI3K activity and the inhibition thereof by
compounds are known in the art. For further details of an in vitro assay for measuring PI3K
activity see Biological Examples, Example 1 infra. Following the examples disclosed
herein, as well as that disclosed in the art, a person of ordinary skill in the art can determine
the inhibitory activity of a compound of this invention.
[00159] Assays for measurement of in vitro efficacy in treatment of cancer are known in
the art. In addition, cell-based tumor models are described in Biological Examples,
Example 2, 3, and 4 infra.
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[00160] Suitable in vivo models for cancer are known to those of ordinary skill in the art.
For further details of in vivo models for prostate adenocarcinoma, glioblastoma, lung
carcinoma, and melanoma, see Biological Examples 5, 6,7, 8, 9, and 10, infra.
General Synthesis
[00161] Compounds of this invention can be made by the synthetic procedures described
below. The starting materials and reagents used in preparing these compounds are either
available from commercial suppliers such as Aldrich Chemical Co. (Milwaukee, Wis.), or
Bachem (Torrance, Calif.), or are prepared by methods known to those skilled in the art
following procedures set forth in references such as Fieser and Fieser's Reagents for
Organic Synthesis, Volumes 1-17 (John Wiley and Sons, 1991); Rodd's Chemistry of
Carbon Compounds, Volumes 1-5 and Supplemental (Elsevier Science Publishers, 1989);
Organic Reactions, Volumes 1-40 (John Wiley and Sons, 1991), March's Advanced
Organic Chemistry, (John Wiley and Sons, 4th Edition) and Larock's Comprehensive
Organic Transformations (VCH Publishers Inc., 1989). These schemes are merely
illustrative of some methods by which the compounds of this invention can be synthesized,
and various modifications to these schemes can be made and will be suggested to one
skilled in the art having referred to this disclosure. The starting materials and the
intermediates of the reaction may be isolated and purified if desired using conventional
techniques, including but not limited to filtration, distillation, crystallization,
chromatography and the like. Such materials may be characterized using conventional
means, including physical constants and spectral data.
[00162] Unless specified to the contrary, the reactions described herein take place at
atmospheric pressure and over a temperature range from about -78 °C to about 150 °C, more
specifically from about 0 °C. to about 125 °C and more specifically at about room (or
ambient) temperature, e.g., about 20 °C. Unless otherwise stated (as in the case of an
hydrogenation), all reactions are performed under an atmosphere of nitrogen.
[00163] Prodrugs can be prepared by techniques known to one skilled in the art. These
techniques generally modify appropriate functional groups in a given compound. These
modified functional groups regenerate original functional groups by routine manipulation or
in vivo. Amides and esters of the compounds of the present invention may be prepared
according to conventional methods. A thorough discussion of prodrugs is provided in T.
Higuchi and V. Stella, "Pro-drugs as Novel Delivery Systems," Vol 14 of the A.C.S.
Symposium Series, and in Bioreversible Carriers in Drug Design, ed. Edward B. Roche,

WO 2007/044813

PCT/US2006/039734

American Pharmaceutical Association and Pergamon Press, 1987, both of which are
incorporated herein by reference for all purposes.
The compounds of the invention, or their pharmaceuticaUy acceptable salts, may have
asymmetric carbon atoms or quaternized nitrogen atoms in their structure. Compounds of
Formula I that may be prepared through the syntheses described herein may exist as single
stereoisomers, racemates, and as mixtures of enantiomers and diastereomers. The
compounds may also exist as geometric isomers. All such single stereoisomers, racemates
and mixtures thereof, and geometric isomers are intended to be within the scope of this
invention. Some of the compounds of the invention may exist as tautomers. For example,
where a ketone or aldehyde is present, the molecule may exist in the enol form; where an
amide is present, the molecule may exist as the imidic acid; and where an enamine is
present, the molecule may exist as an imine. All such tautomers are within the scope of the
invention. In particular, imidazol-5-yl and pyrazol-5-yl each can also exist in their
respective tautomeric forms imidazol-4-yl and pyrazol-3-yl. Regardless of which structure
or which terminology is used, each tautomer is included within the scope of the Invention.
[00164] The present invention also includes N-oxide derivatives and protected
derivatives of compounds of Formula I. For example, when compounds of Formula I
contain an oxidizable nitrogen atom, the nitrogen atom can be converted to an N-oxide by
methods well known in the art. When compounds of Formula I contain groups such as
hydroxy, carboxy, thiol or any group containing a nitrogen atom(s), these groups can be
protected with a suitable "protecting group" or "protective group". A comprehensive list of
suitable protective groups can be found in T.W. Greene, Protective Groups in Organic
Synthesis, John Wiley & Sons, Inc. 1991, the disclosure of which is incorporated herein by
reference in its entirety. The protected derivatives of compounds of Formula J can be
"prepared by methods well known in the art.
[00165] Methods for the preparation and/or separation and isolation of single
stereoisomers from racemic mixtures or non-racemic mixtures of stereoisomers are well
known in the art. For example, optically active (R)- and (S)- isomers may be prepared using
chiral synthons or chiral reagents, or resolved using conventional techniques. Enantiomers
(R- and S-isomers) may be resolved by methods known to one of ordinary skill in the art,
for example by: formation of diastereoisomeric salts or complexes which may be separated,
for example, by crystallization; via formation of diastereoisomeric derivatives which may
be separated, for example, by crystallization, selective reaction of one enantiomer with an
enantiomer-specific reagent, for example enzymatic oxidation or reduction, followed by
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separation of the modified, and unmodified enantiomers; or gas-liquid or liquid
chromatography in a chiral environment, for example on a chiral support, such as silica with
a bound chiral ligand or in the presence of a chiral solvent. It will be appreciated that where
a desired enantiomer is converted into another chemical entity by one of the separation
procedures described above, a further step may be required to liberate the desired
enantiomeric form. Alternatively, specific enantiomer may be synthesized by asymmetric
synthesis using optically active reagents, substrates, catalysts or solvents or by converting
on enantiomer to the other by asymmetric transformation. For a mixture of enantiomers,
enriched in a particular enantiomer, the major component enantiomer may be further
enriched (with concomitant loss in yield) by recrystallization.
[00166] In addition, the compounds of the present invention can exist in unsolvated as
well as solvated forms with pharmaceutically acceptable solvents such as water, ethanol,
and the like. In general, the solvated forms are considered equivalent to the unsolvated
forms for the purposes of the present invention.
[00167] The chemistry for the preparation of the compounds of this invention is known
to those skilled in the art. In fact, there may be more than one process to prepare the
compounds of the invention. For specific examples, see M. Barvian et al. J. Med. Chem.
2000, 43, 4606-4616; S. N. VanderWei et al. J. Med. Chem. 2005, 48, 2371-2387; P. L.
Toogood et al. J. Med. Chem. 2005, 48, 2388-2406; J. Kasparec et al. Tetrahedron Letters
2003, 44, 4567-4570; and references cited therein. See also U.S. Pre-grant publication
US2004/0009993 Al (M. Angiolini et al.), which is incorporated herein by reference, and
references cited therein. The following examples illustrate but do not limit the invention.
All references cited herein are incorporated by reference in their entirety.
[00168] A compound of the invention where R1. is optionally substituted alkyl, R2 is
hydrogen or optionally substituted alkyl, R4 is methyl or ethyl, R6 is phenyl or heteroaryl
each of which is optionally substituted with 1, 2, 3, 4, or 5 R9 groups (as defined in the
Summary of the Invention), and R2 is hydrogen can be prepared according to Scheme 1.
53


WO 2007/044813 PCT/US2006/039734
[00169] To a solution of commercially available 2-methyl-2-thiopseudourea sulfate in a
solvent such as water is added a base such as sodium carbonate and an intermediate of
formula 10 at room temperature. The reaction mixture is stirred for overnight or less. After
neutralizing, 11 is collected through filtration and followed by drying under vacuum. 11 is
then treated with POCI3 and the reaction is heated to reflux for approximately 2 h and then
concentrated under vacuum to dryness. 1 can be used directly in the next reaction without
further purification.
[00170] An intermediate of formula 2 is prepared by reacting an intermediate of formula
1 with a primary amine R'NHfe in a solvent such as water and with heating. 2 is then treated
with iodine monochloride in a solvent such as methanol at around 0 °C and allowed to react
for approximately overnight or less as needed for the reaction to go to completion to form 3.
After completion the residue is triturated with acetone. The intermediate 3 is then reacted in
a solvent, such as DMA, with ethyl acrylate in the presence of a base, such as triemylamine,
and in the presence of a catalyst, such as Pd(OAc)2, and (+)BINAP. The reaction is heated
to approximately 100 °C and allowed to react for approximately overnight or less as needed
for the reaction to go to completion to form 4. 4 is then optionally purified by column
chromatography.
[00171] 5 is prepared by treating 4 with DBU in the presence of a base such as DIPEA at
room temperature. Then the reaction mixture is heated to reflux and reacted for
54

WO 2007/044813 PCT/US2006/039734
approximately 15 h. After evaporation of solvent, the residue is triturated with acetone and
collected by filtration to yield 5.
[00172] 6 is prepared by reacting 5 with a brominating agent such as Br2 in a solvent
such as DCM at room temperature. Then the reaction mixture is stirred for approximately
overnight The resulting product is filtered and then suspended in a solvent such as DCM
and treated with a base such as triethylamine. The mixture is then washed with water and
dried over a drying agent such as Na2SC>4 to yield 6.
[00173] A Suzuki coupling is then performed using 6 reacting with a boronic acid (or
ester) of formula ROH in a solvents) such as a DME-H2O mixture, in the presence of
a catalyst such as Pd(dpppf) and a base such as triethylamine at room temperature. The
reaction mixture is heated to reflux for approximately 4 h. After cooling to room
temperature, the reaction mixture is partitioned with water and ethyl acetate. After
separation, the organic layer is dried over a drying agent such as Na2SC>4 to yield 7.
[00174] The methylthio group of 7 is then oxidized with m-CPBA in a solvent such as
DCM at room temperature allowing to stir for approximately 4 h. After removal of the
solvent under reduced pressure, the product is treated with with an amine of formula R2NH2
in a solvent such as dioxane and stirred at room temperature for approximately overnight to
yield a Compound of Formula I.
[00175] Alternatively, a compound of the invention where R1 is optionally substituted
alkyl, R4 is methyl or ethyl, R6 is phenyl or heteroaryl each of which is optionally
substituted with 1, 2, 3,4, or 5 R9 groups (as defined in the Summary of the Invention), and
R2 is hydrogen can be prepared according to Scheme 2.
Scheme 2

[00176] An intermediate of formula 9 is prepared by reacting an intermediate of formula
8 with neat POCI3 and heating. 9 is then treated with a primary amine R'NKk in a solvent
55

WO 2007/044813 PCT/US2006/039734
such as water or THF and.triethylamine at 0 °C to form 10. After removal of the solvent
under reduced pressure, the intermediate 10 is then reacted with lithium aluminum hydride
in a solvent such as THF at 0 °C. After quenching and aqueous workup, solvent removal
provided crystalline 11 without further purification. Treatment of 11 with manganese (H)
dioxide in a solvent such as methylene chloride or chloroform at room temperature provided
aldehyde 12 upon filtration and solvent removal. A Wittig reaction with aldehyde 12 can be
employed with (carbethoxymethylene)triphenylphosphorane in refluxing THF to provide
the common intermediate 4. 4 can then be used to prepare a Compounf of Frmula I using
the procedures described in Scheme 1.
[00177] A compound of the invention where R1 is optionally substituted alkyl, R4 is
methyl or ethyl, R6 is phenyl or heteroaryl each of which is optionally substituted with 1,2,
3, 4, or 5 R groups (as defined in the Summary of the Invention), and R is hydrogen can
be prepared according to Scheme 3.
Scheme 3

[00178] An intermediate of formula 14 is prepared by reacting an intermediate of
formula 13 with a primary amine R1NH2 in a solvent such as water and with heating. 14 is
then treated with iodine monochloride in a solvent such as methanol at around 0 °C and
allowed to react for approximately overnight or less as needed for the reaction to go to
completion to form 15. After completion the residue is triturated with acetone. The
intermediate 15 is then reacted in a solvent, such as DMA, with ethyl acrylate in the
presence of a base, such as triethylamine, and in the presence of a catalyst, such as
Pd(OAc)2, and (+)BINAP. The reaction is heated to approximately 100 °C and allowed to
react for approximately overnight or less as needed for the reaction to go to completion to
form 16. 16 is then optionally purified by column chromatography. A Compound of
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WO 2007/044813 PCT/US2006/039734
Formula I can then be prepared from 16 by using the same reaction conditions as described
in Scheme 1 (starting at the point of the preparation of 5 from 4).
[00179] A compound of the invention where R1 is optionally substituted alkyl, R4 is
methyl or ethyl, R6 is phenyl or heteroaryl each of which is optionally substituted with 1,2,
5, 4. or 5R9 groups (as defined in the Summary of the Invention), and R2 is hydrogen can
alternatively be prepared according to Scheme 4.
Scheme 4

[00180] An intermediate of formula 20 is prepared by reacting an intermediate of
formula 19 with neat POCI3 and heating. 20 is then treated with a primary amine R'lSDHb in a
solvent such as water or THF and triethylamine at 0 °C to form 21. After removal of the
solvent under reduced pressure, the intermediate 21 is then reacted with lithium aluminum
hydride in a solvent such as THF at 0 °C. After quenching and aqueous workup, solvent
removal provided crystalline 22 without further purification. Treatment of 22 with
manganese (II) dioxide in a solvent such as methylene chloride or chloroform at room
temperature provided aldehyde 23 upon filtration and solvent removal. A Knovenegal-type
condensation with 23 and an arylacetonitrile in the presence of a base such as potassium
carbonate or sodium hydroxide in a protic solvent provides the cyclized imine 24.
Acetylation of the imine with acetic anhydride is required prior to hydrolysis which takes
place in the presence of aqueous acid and heating to afford 25. Subsequently, 25 can be,
oxidized to the corresponding sulfone with TK-CPBA at room temperature and displaced
with ammonium to provide I.
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Synthetic Examples
Example 1
2-ammo-ethyM-methyl-6-(lH-pyrazol-5-yl)pyrido[23-rf]pyrimidin-7(8uH)-one



[00181] To a solution of 2-me%l-2-thiopseudourea sulfate (Aldrich, 5 8.74 g, 0.422 mol)
in water (1000 mL) were added sodium carbonate (81.44 g, 0.768 mol) and ethyl
acetoacetate (50 g, 0.384 mol) at room temperature. The reaction mixture was stirred
overnight. After neutralizing to pH = 8> the solid was collected through filtration followed
by drying under vacuum overnight to afford 6-methyl-2-(methyltino)pyrimidin-4(3Jt0-one
(57.2 g, 95% yield) of product. !H NMR (400 MHz, DMSO-d6): 8 12.47 (bs, 1H), 5.96 (bs,
lH),2.47(s,3H),2.17(s,3H).

[00182] To the round bottom flask containing 6-memyl-2-(methyltMo)pyrimidin-4(3/f)-
one (19 g, 121.6 mmol) was added POCl3 (30 mL). The reaction mixture was heated to
reflux for 2 h and then concentrated on a rotary evaporator to dryness. The crude 4-chloro-
6-methyl-2-(memylthio)pyrimidine was used directly in the next reaction without further
purification.

[00183] To the 4-chloro-6-methyl-2-(methylthio)pyrimidine from above was added 30
mL of a solution of 70% ethylamine in water. The reaction mixture was heated to 50 °C for
3 h. After completion, excess ethylamine was evaporated on rotary evaporator under
vacuum. The solid was filtered and dried under vacuum to afford JV-ethyl-6-methyl-2-
(methylthio)pyrimidin-4-amine (20 g, 90% yield).
58

WO 2007/044813 PCT/US2006/039734

[001S4] To the solution of A-ethyl-6-methyl-2-(me1hylthio)pyrimidainine (20 g,
121.6 mmol) in methanol was added iodine monochloride (26.58 g, 163.7 mmol) in small
portions at 0 °C. Then the reaction mixture was stirred overnight. After evaporation of
solvent, the residue was triturated with acetone. The product iV-ethyl-5-iodo-6-methyl-2-
(methyltWo)pyrimin-4-amine (25.2 g, 75% yield) was collected by filtration. JH NMR (400
MHz, CDC13): 5 5.37 (bs, 1H), 3.52 (q, J = 7.2 Hz, 1H), 2.50 (s, 3H), 1.26 (t, J = 7.2 Hz,
3H).

[00185] To the solution of Amyl-5-iodomemyl-2-(memyltWo)pyrimin-4-amine
(25.2 g, 81.48 mmol) in DMA (260 mL) were added ethyl acrylate (12.23 g, 122.2 mmol),
Pd(OAc)2 (3.65 g, 16.25 mmol), (+)BINAP and triethyl amine (24.68 g, 244.4 mmol). Then
the reaction mixture was heated to 100 °C and reacted overnight. After evaporation of
solvent, the residue was diluted with water and the aqueous layer was extracted with ethyl
acetate. The product (E)-emyl-3-(4-(emylammo)-6-memyl-2-(methylthio)pyrimidin-5-
yl)acrylate (16.8 g, 73% yield) was isolated by silica gel column chromatography with 6-8%
ethyl acetate in hexane as eluent !H NMR (400 MHz, CDCI3): 8 7.65 (d, J = 16.4Hz, 1H),
6.20 (d, J = 16.4Hz, 1H), 5.15 (bs, 1H), 4.28(q, J = 7.2 Hz, 2H), 3.54 (q, J = 7.2 Hz, 2H),
2.53 (s, 3H), 2.37 (s, 3H), 1.35 (t, J = 7.2 Hz, 3H), 1.24 (t, J = 7.2 Hz, 3H),

[00186] To a solution of (E)-e%l-3-(4-(emylammo)-6-me%l-2-(me%lthio)pyrimidin-
5-yl)acrylate (16.8 g, 59.8 mmol) in DIPEA was added l,8-diazabicyclo[5.4.0]undec-7-ene
59

WO 2007/044813 PCT/US2006/039734
(DBU, .18.21 g, 119.6 mmol) at room temperature. Then the reaction mixture was heated to
reflux and reacted for 15 h. After evaporation of solvent, the residue was triturated with
acetone. The product 8myM-memyl-2-(methyltWo)pyrido[2,3]pyrirrudin-7(8/f)-one
(10.77 g, 77% yield) was collected by filtration. *H NMR (400 MHz, CDC13): 8 7.78 (d, J =
9.6 Hz, 1H), 6.63 (d, J = 9.6 Hz, 1H), 4.5(q, J = 7.2 Hz, 2H), 2.67 (s, 3H), 2.62 (s, 3H), 1.33
(t,J = 7.2Hz,3H).

[00187J To a solution of 8mylmemyl-2-(memyltrdo)pyrido[2,3-d]pyrimidin-7(8/0-
one (6.31 g, 26.84 mmol) in DCM was added Br2 (4.79 g, 29.52 mmol) dropwise at room
temperature. Then the reaction mixture was stirred at room temperature overnight. After
filtration the solid was suspended in DCM (100 mL), and triethylamine (20 mL) was added.
The mixture was washed with water and dried with Na2SC>4, and the product 6-bromo-8-
emylme%l-2 obtained after evaporation of DCM. !H NMR (400 MHz, CDCI3): 5 8.22 (s, 1H), 4.56 (q, J
= 7.2 Hz, 2H), 2.68 (s, 3H), 2.62 (s, 3H), 1.34 (t, J = 7.2Hz, 3H).

[00188J To a solution of 6-bromo-8-ethyl-4-methyl-2-(methylthio)pyrido[2,3-
d]pyrimidin-7(8fl)-one (0.765 g, 2.43 mmol) in DME-H20 (10:1 11 mL) was added 1H-
pyrazol-5-ylboronic acid (Frontier, 0.408 g, 3.65 mmol), [1,1'-
bis(diphenylphosphino)ferrocene]dichloropalladium(II) complex with CH2CI2
(Pd(dpppf),0.198 g, 0.243 mmol) and triethylamine (0.736 g, 7.29 mmol) at room
temperature. Then the reaction mixture was heated to reflux and reacted for 4 h. After
cooling down to room temperature, the reaction mixture was partitioned with water and
ethyl acetate. After separation, the organic layer was dried with Na2SC>4, and the product 8-
emyl-4-methyl-2-(me%ltMo)-6-(li7-pyrazol-5-yl)pyrido[2,3-d]pyrirm
(0.567 g, 77% yield) was obtained by silica gel column chromatography. !H NMR (400
60

WO 2007/044813 PCT/US2006/039734
MHz, CDClj): 8 13.3. (bs, 1H), 8.54 (s, 1H), 7.82-7.07 (m, 2H), 4.45 (q, J = 7.2 Hz, 2H),
2.71 (s, 3H), 2.60 (s, 3H), 1.26 (t, J = 7.2Hz, 3H).

[00189] To the solution of 8-ethyl-4-methyl-2-(methylthio)-6-(l/f-pyrazol-5-
yl)pyrido[2,3-d]pyrimidin-7(8//)-one (0.123 g, 0.41mmol) in DCM (2 mL) was added
MCPBA (0.176 g, 77%, 0.785 mmol) in a small portion at room temperature. Then the
reaction mixture was stirred for 4 h. After evaporation of DCM, dioxane (1 mL) and liquid
ammonia (1 mL) were introduced. The reaction was stirred at room temperature overnight.
The product 2-arnmo-8-emyl-4-meftyl-6-(li7-pyrazol-5-yl
one (50.4 mg) was obtained by silica gel column chromatography. *H NMR (400 MHz,
CD3OD): 8 8.41 (s, 1H), 7.62 (d, J = 2.0 Hz, 1H), 6.96 (d, J = 2.0Hz, 1H), 4.51 (q, J =
7.2Hz, 2H), 2.64 (s, 3H), 1.29 (t, J = 7.2Hz, 3H); MS (EI) for Ci3Hi4N60:271.3 (MH*).
[00190] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example la. 2-(amino)-8-emyl-4-emyl-6-(lH-pyrazol-5-yl)pyrido[2,3-d]pyrimidm-7(8/f)-
one: JH NMR (400 MHz, DMSO-D6): 8 8.40 (s, 1H), 7.27 (bs, 1H), 7.00 (s, 1H), 4.40 (q, J
= 7.2 Hz, 2H), 2.95 (d, J = 7.20 Hz, 2H), 1.14 (t, J = 7.2 Hz, 3H), 1.08 (t, J = 7.2Hz, 3H),
0.89 (m, 1H), 0.24 (m, 2H), 0.01 (m, 2H); MS (EI) for CwHieNeO: 285.2 (MH4).
Example lb. 8-ethyl-4-methyl-2-(methylamino)-6-(l H-pyrazol-5-yl)pyrido[2,3-
c/]pyrimidin-7(8i:f)-one: !H NMR (400 MHz, CH3OH-): 8 8.39 (s, 1H), 7.60 (bs, 1H), 6.93
(bs, 1H), 4.53 (bs,2H), 3.02 (s, 3H), 2.84 (bs, 3H), 1.33 (bs, 3H); MS (EI) for Ci*Hi6N60:
285.3 (MH*).
Example lc.8-Ethyl-2-[(2-fluoroe%l)ammo]-4-methyl-6-(l/y-pyrazol-5-yl)pyrido[2,3--
pyrimidin-7(8ii)-one: JH NMR (400 MHz, CH3OH-): 8 8.34 (bs, 1H), 7.25 (bs, 1H),
6.90 (bs, 1H), 4.60 (dt, J= 5.2,2.2 Hz, 2H), 4.49 (q, J= 7.20 Hz, 2H), 3.78 (dt, J= 5.2,2.2
Hz, 2H), 2.64 (s, 3H), 1.30 (t, J= 7.2 Hz, 3H); MS (EI) for C15H17FN60:317.3 (MH4).
Example Id. 2-Ammo-8-cyclopentyl-4-me1hyl-6-(lif-pyrazol-3-yl)pyrido[2,3-pyrimidin-
7(8/f)-one: lB NMR (400 MHz, DMSO-id): 8 13.10 (s, 1H), 8.42 (d, 1H), 7.70 (s, 1H),
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WO 2007/044813 PCT/US2006/039734
7.20 (bs, 2H), 6.01 (m, 1H), 2.61 (s, 3H), 2.30 (m, 2H), 2.10 (m, 2H), 1.80 (m, 2H), 1.60
(m, 2H); MS (EI) for CigHigNeO: 311.8 (M+H).
Intermediate 1
Alternate route to (E)-ethyl-3-(4-(ethylamino)-6-methyl-2-(methyIthio)pyrimidiii-5-
yl)acrylate

[00191] //.JV-Dimethyl acetamide dimethyl acetal (75 g, 0.56 mole) was added to a
suspension of thiourea (33.0 g, 0.43 mole) in methylene chloride. The mixture was heated
under reflux for 4 h. The solvent was removed and the residue was crystallized from 5%
MeOH and diethyl ether affording (lE)rA'-(aminocarbonothioyl)-iV;jV-
dimemylemanimidamide (47.8 g, 76% yield).

[00192] A suspension of (lE)-'-(aminocarbonolMoyl)-AAUmemylethanimidamide
(47.8 g, 0.33 mole) in methyl iodide (150 mL) and THF (350 mL) was stirred for 18 h at
room temperature. The mixture was evaporated under reduced pressure. After addition of
5% MeOH and diethyl ether, the compound precipitated and was collected by filtration
affording (lE)A''-[amino(memylmio)memyl]-iV)//-dimethylethanimidamide hydrogen
iodide salt (91.0 g, 96% yield).

[00193] To a solution of (lE)W'-[arrmio(methylthio)methyl]-iV;iV-
dimemylellianimidamide hydrogen iodide salt (73.0 g, 0.26 mole) in dry dichloromethane
(900 mL), was added ethyl 3-chloro-3-oxopropanoate (44 mL, 95% Lancaster, 0.34 mole)
was added under a nitrogen atmosphere. The mixture was stirred for 4 h at room
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WO 2007/044813 PCT/US2006/039734
temperature, cooled to 0 °C theii triethylamine (107 mL, 0.78 mole) was added. The
reaction mixture was stirred overnight. The solvent was removed and H2O was added. The
pH was adjusted to pH = 5.0 with acetic acid and extracted with ethylacetate then
evaporated and crystallized from the appropriate solvent (Ethylacetate-Hexanes mixture
solvent, approximately 20% ethylacetate-Hexanes). This afforded ethyl 4-methyl-2-
(memyltrno)-6-oxo-l,6-dmydropyrimidine-5-carboxylate (36.5 g, 62% yield) after drying
under vacuum.

[00194] A solution of ethyl 4-memyl-2-(memylthio)-6K)xo-l,6Kimydropyrimidine-5-
carboxylate (60 g, 0.26 mole) and phosphorous oxychloride (POCI3, 320 mL) was heated
under reflux for 4 to 5 h (monitor reaction by TLC using 30% ethylacetate and hexanes).
After completion of reaction, phosphorous oxychloride was removed on a rotary evaporator.
The residue was poured on to ice water and extracted with ethylacetate several times. The
combined organic layers were evaporated, on a rotary evaporator, to give crude ethyl
4-cUoro-6-memyl-2-(memyllMo)pyrimidine-5-carboxylate (65 g). This compound was used
without purification.

[00195] To a solution of ethyl 4-chloro-6-methyl-2-(methylthio)pyrimidine-5-
carboxylate (65 g) in THF (1000 mL) and triethylamine (110 mL, 0.81 mole) was added
ethylamine (2.0 M in THF, 0.81 mole) at 0 °C. This reaction mixture was stirred at room
temperature overnight and then solvents were removed on a rotary evaporator. H2O was
added and the mixture extracted with ethyl acetate several times. Solvents from the
combined organic layers were removed on a rotary evaporator affording 58 g (86% yield) of
ethyl 4-(emylammo)-6-memyl-2-(memyl1mo)pyrimidine-5-carboxylate. This material was
used as such without further purification.
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[00196] To a lithium aluminum hydride solution (LAH, 1.0 M solution in THF, Aldrich,
450 mL) was added a solution of ethyl 4-(ethylamino)-6-methyl-2-(methylthio)pyrimidine-
5-carboxylate (57 g) in THF (1000 mL). The reaction mixture was stirred overnight. After
cooling to 0 °C, the reaction mixture was cautiously quenched with a 1:9 mixture of
H2O/THF until gas evolution has ceased, then diluted with EfeO (500 mL) and stirred well
for 2 h. The resulting slurry was extracted with ethylacetate several times. The aqueous
layer was then filtered through Celite and washed with ethylacetate again. The combined
organic layers were washed with brine, dried and concentrated under reduced pressure to
give 41.0 g (85% yield) of [4-(emylammo)-6-memyl-2-(methylthio)pyrimidin-5-
yl]methanol as a light yellow crystal, which was used without purification in the next step.

[00197] To a solution of [4-(ethylamino)-6-methyl-2-(methylthio)pyrimidin-5-
yl]methanol (41.0 g) in chloroform (4000 mL) was added manganese oxide (125 g, 1.4
mole) and stirred for 4 h at room temperature. More manganese oxide was added until the
disappearance of alcohol compound was observed. The reaction mixture was filtered
through Celite and washed with some chloroform and evaporated all organic solvents to
give 38 g (92 % yield) of 4-(ethylammo)-6-memyl-2-(memylthio)pyrimidine-5-
carbaldehyde as a colorless solid, which was used without purification in the next step.

[00198] To a solution of 4-(emylamino)-6-memyl-2-(memyltMo)pyrirnidine-5-
carbaldehyde (38 g, 180 mmol) in THF (500 mL) was added (Carbethoxymethylene)
64

WO 2007/044813 PCT/US2006/039734
triphenylphosphorane (95%, Aldrich, 85.18 g, 244 mmol). The reaction mixture was heated
to reflux for 1.5 h and was monitered by TLC (4:1 hexanes/ethylacetate). The reaction was
cooled to room temperature and was concentrated on a rotary evaporator. It was directly
subjected to column chromatography (4:1 hexanes/ethylacetate) to give (E)-ethyl-3-(4-
(emylammo)-6-memyl-2memyltMo)pyrmiidin-5-yl)acrylate as a white crystal, 46.14 g
(91% yield).
Example 2
2-Ainino-6-bromo-8-ethyl-4-methylpyrido[23-d]pyrimidin-7(8fl)-one

100199] To a 3-necked 3-L flask, that was equipped with an overhead stirrer, was added
in order 2-ammo-4-chloro-6-memylpyrimidine (Aldrich, 100 g, 0.696 mol, 1 equiv.),
ethylamine (70% ethylamine in water, Lancaster, 625 mL), 625 mL H2O, and 125 mL TEA
(0.889 mol, 1.28 equiv.). The mixture was stirred and heated at reflux for 20 h, during
which time, the reaction turned homogeneous. The reaction was allowed to cool to room
temperature. The volatile ethylamine was removed on a rotary evaporator. A precipitate
formed. The aqueous mixture containing the precipitate was allowed to stand at room
temperature for 2 h and then filtered. After drying under vacuum, 106 g (100% yield) of 2-
ariimo-6-ethylarninopyrimidine was obtained as a colorless solid. This material was used as
such in the following reaction.

[00200] To a solution of 2-ammo-6-emylammopyrimidine (98 g, 0.64 mol) in methanol
(1.6 L) was added IC1 (115.0 g, 0.71 mol) in a small portion at 15 °C. Then the reaction
mixture was stirred at room temperature for 3 h (monitored by LC/MS). After evaporation
of solvent by rotary evaporator, the residue was triturated with acetone. 2-amino-6-
emylammo-4-iodopyrimidine hydrochloride (188.5 g, 93% isolated yield) was obtained by
65

WO 2007/044813 PCT/US2006/039734
vacuum filtration and drying. !H NMR (400 MHz, CD3OD) 8 3.58 (q, 2H), 2.14 (s, 3H),
1.11 (t, 3H); MS (EI) for C7H11N4CII: 279.1 (MH4).

[00201] To a three-neck round bottom flask equipped with over-head mechanic stirrer
were added 2-ammo-6-ethylamino-4-iodopyrimidine hydrochloride (188.5 g, 0.60 mol),
ethyl acrylate (221 mL, 2.0 mol), triethylamine (285 mL, 2.0 mol), DMF (1.3 L), and
tetrakis(triphenylphosphme)palladium(0) (Pd(PPh3)4, 31.3 g, 0.027 mol). The reaction
mixture was heated to 95 °C and stirred for 3 h (monitored by LC/MC). After reaction
completion, the reaction mixture was evaporated about to 1/10 of original volume and
partitioned with 500 mL of ethyl acetate and 1000 mL of water. The aqueous layer was
extracted with ethyl acetate 5 times. (E)-Ethyl 3-(2-amino-4-(ethylamino)-6-
methylpyrimidin-5-yl)acrylate (100 g, 67% yield) was obtained by recrystalization from
acetone after evaporation of ethyl acetate. !H NMR (400 MHz, CD3OD) 5 7.48 (dd, Jl =
16.0 Hz, J2 = 4.0 Hz, 1H), 6.20 (dd, Jl = 16 Hz, .72 = 4 Hz, 1H), 4.25 (q, J= 7.2 Hz, 2H),
3.51 (q, J= 1.6 Hz, 2H), 2.39 (s, 3H), 1.3 (t, J= 7.2 Hz, 3H), 1.2 (t, J= 7.6 Hz, 3H). MS
(EI) for C12H18N4O2: 251.3 (MH4).

[00202] (E)-Ethyl 3-(2-amino-4-(e%lanno)-6-me%lpyrimidin-5-yl)acrylate (4.50 g,
18.0 mmol) was added to DBU (10.95 g, 4.0 equiv.) and the mixture was heated to 165 °C
and stirred for 24 h. After that, the mixture was cooled to 70 °C followed by the addition of
H2O (20 mL) to precipitate crystal and stirred for 1 h at room temperature. The crystal was
collected and washed with H2O and acetone and dried under vacuum to afford 2.70 g
(73.5% yield of 2-ammo-8-emyl-4-me%lpyrido[2,3-d]pyrimidin-7(8//)-one as a light
yellowish brown solid. LC/MS: Calculated for C10H12N4O (204.2). Found: 205.31 (M+l);
HPLC analytical purity: 98.5%. !H NMR (400 MHz, DMSO-y): 5 7.9 (d, 1H), 7.20 (bs,
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WO 2007/044813 PCT/US2006/039734
2H), 6.20 (m, 1H), 4.20 (q, 2H), 2.50 (s, 3H), 1,20 (t, 3H); MS (EI) for C10Hi2N4O: 205.11
(MH4).

[00203J 2-Amino-8-ethyl-4-methylpyrido[2,3-d]pyrimidin-7(8i7)-one (2.70 g, 13.2
mmol) was added to dichloromethane (100 mL), and then bromine (0.75 mL, 1.10 equiv.)
was added slowly. This reaction mixture was stirred for 3 h at room temperature. After that,
the solvent was evaporated nearly 80% volume of reaction mixture under vacuum, and then
acetone was added to give 3.54 g 2-Amino-6-bromo-8-ethyl-4-methylpyrido[2,3-
d]pyrimidin-7(8i/)-one as a tan solid. LC/MS: Calculated for CioHnBrN40 (283.12).
Found: 285.15 (M+2). HPLC analytical purity: 97.7%.
Example 3
2-Amino-4-methyl-8methylethyl)-6-(l#-
one

[00204] To a crude solution of 7/4sopropyl-6-memyl-2-(methyl1liio)pyrimidin-4-
amine (44.6 g, 224 mmol), prepared using analogous procedures as described in Example 1,
in 400 mL of methanol was added IC1 (40.0 g, 246 mmol) in small portions at room
temperature. The reaction mixture was then stirred at for 3 h monitoring by LC/MS. After
evaporation of solvent by rotary evaporator, the residue was triturated with acetone to yield
5-iodo-iV'4sopropyl-6-methyl-2-(methyltMo)pyrimidin-amine. *H NMR (400 MHz,
CDC13) 8 6.37 (br m, 1H), 4.47 (m, 1H), 2.78 (s, 3H), 2.67 (s, 3H), 1.41 (d, J = 6.4,6H).
67

WO 2007/044813 PCT/US2006/039734

[00205] 5Jodo-iV-isopropyl-6-methyl-2-(me1iiyltWo)pyrimidin-4-amine (8.1 g, 26.2
mmol), ethyl acrylate (5.24 g, 52.4 mmol), triethylamine (10.6 g, 105 mmol), palladium (II)
acetate (1.17 g, 5.23 mmol), and tri-o-tolyl phosphine (1.59 g, 5.23 mmol) were added in
that order to 10.8 mL of DMA in a pressure tube and sealed. The reaction mixture was
heated to 100 °C and allowed to stir overnight. The reaction was quenched by filtration
through a short silica plug washing with ACN. The solvent was evaporated and diluted with
ethyl acetate then extracted with 10 % aqueous LiCl, followed by water and brine. NOTE:
Extraction is necessary to remove all DMA giving resolution in chromatography. The
sample was purified by silica gel column chromatography using 20 % ethyl acetate/hexarie
as eluent. Desired fractions were combined and reduced to afford 2.5 g (34 % yield) of
ethyl (2E)-3-[4-(isopropylarmno)-6-me1liyl-2-(methyltluo)pyrimidin-5-yl]acrylate as a
yellow/orange oil.

[00206] (E)-Ethyl 3 yl)acrylate (2.5 g, 8.46 mmol) was dissolved in acetic acid by gentle warming. Sample was
placed in microwave reactor for 6 h at 180 °C, 300 W, and 200 PSI. The product was
purified by silica gel column chromatography eluting with 20 % ethyl acetate/hexane.
Desired fractions were combined and reduced into 8-isopropyl-4-methyl-2-
(methyllMo)pyrido[2,3-d]pyrimidin-7(8/f)-one as a yellow powder (1.20 g, 57 % yield)
which was then dried under heavy vacuum overnight. JH NMR (400MHz, CDC13) 5 7.74 (d,
J= 9.6, 1H), 6.58 (d, J= 9.6, 1H), 5.84 (br s, 1H), 2.65 (s, 3H), 2.63 (s, 3H), 1.63 (d, J =
6.8,6H).
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WO 2007/044813 PCT/US2006/039734

[00207] 8-IsopropyM-methyl-2-(methylthio)pyrido[23-d]pyrimidin-7(8iZ)-one (5.38
g, 21.59 mmol) was dissolved in 100 mL DCM. To the stirring solution, m-CPBA (13.97 g,
64.78 mmol) was added. The reaction was allowed to stir for 2.5 h at room temperature.
LCMS indicated reaction had gone to completion. Sample was diluted with 300 mL of
DCM and 300 mL K2CO3, upon addition of base a white precipitate formed that dissolved
in excess H2O. Organic layer was extracted further with H2O and brine, and then dried over
. Na2C03. The solvent was evaporated to afford the product8-isopropyl-4-methyl-2-
(memylsulfonyl)pyrido[2,3]pyrimidin-7(8/0-one (6.0 g, 99 % yield) as a light yellow oil
that was used immediately in the next reaction.

[00208] 8-isopropyR-memyl-2-(methylsulfonyl)pyrido[2,3]pyrimidin-7(8/0-one
(approximately 3.0 g) was dissolved in 50 mL THF, in a 350 mL pressure tube. While
stirring, NH3 (g) was bubbled in through solution for 1.5 minutes. A color change was
observed form light yellow to olive green in about 120 seconds. The tube was sealed and
stirred at room temperature overnight. A precipitate had formed. The reaction mixture,
including precipitate, was reduced to near dryness, filtered and washed with a minimal
volume of cold THF, affording 2.88 g of 2-arnino-8-isopropyl-4-methylpyrido[2,3-
d]pyrimidin-7(8/f)-one.

[00209] To a solution of 2-ammo-8-isopropylmemylpyrido[2,3-d]pyrimidin-
7(8#)-one (2.88 g, 13.19 mmol) dissolved in 80 mL of DCM at 0 °C, (4.21 g, 26.39 mmol)
bromine was added. Reaction vessel was removed from ice bath and allowed to react at
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WO 2007/044813 PCT/US2006/039734
room temperature over night. LCMS indicated complete conversion of starting material to
product. Sample was evaporated to remove DCM and excess bromine. Orange solid was
diluted in ethyl acetate and extracted with 10 % NaHSC>3, EfeO, and brine. Organic layer
was dried over Na2S04, filtered, and reduced to dryness yielding 2-amino-6-bromo-8-
isopropylmethylpyrido[2,3 yield). *H NMR (400MHz, CDC13) 8 8.08 (s, 1H), 5.83 (m, 1H), 5.69 (br s, 2H), 2.60 (s,
3H), 1.58 (d, J = 6.8,6H).

[00210] In a 350 mL pressure tube 2-amino-6-bromo-8-isopropyl-4-
memylpyrido[2,3-d]pyrimidin-7(8//)-one (1-50 g, 5.05 mmol), lH-pyrazol-3-yl boronic
acid (1.12 g, 10.09 mmol), K2CO3 (336 mg, 15.1 mmol), and tetrakis(triphenylphosphine)
palladium (0) (583 mg, 0.0504 mmol) were dissolved in 50 mL dioxane and 5 mL H2O. The
tube was sealed, heated to 100 °C and allowed to react overnight. A color change was
observed. LCMS indicated no presence of starting material. Sample was filtered through a
syringe filter and evaporated to dryness. Compound was dissolved in ethyl acetate and
triturated in hexane. Light yellow powder of 2-amino-8-isopropyl-4-methyl-6-(lH-pyrazol-
5-yl)pyrido[2,3-d]pyrirnidin-7(8/f)-one (195 mg, 13.7% yield) was found to be 98% pure by
HPLC. !H NMR (400MHz, CDC13) 5 12.97 (br s, 1H), 8.35 (s, 1H), 7.60 (br s, 1H), 7.21 (s,
2H), 6.94 (s, 1H), 5.86 (br s, 1H), 2.50 (m, 6H), 1.54 (s, 3H), MS (EI) for C14Hi6N60: 285.0
(MH").

[00211] 3-Chloroperbenzoic acid (0.565 g, 3.27 mmol) was added to a solution of
6-bromo-8-emyl-4-methyl-2-(methyltMo)pyrido[2,3-d]pyrimidin-7(8/0-one (0.308 g, 0.980
mmol) in dichloromethane (5.0 mL) at room temperature. After 30 minutes, the reaction
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was diluted with dichloromethane (50 mL) and washed twice with saturated NaHC03,
followed by brine. The organic phase was separated and dried over Na2S04, filtered, and
concentrated in vacuo. The residue was precipitated with ethyl acetate to provide 8-ethyl-4-
me%l-2 yellow solid.

[00212] To a stirred solution of (76.5 mg, 0.221 mmol) in 1.5 mL of CH2C12 was
added isopropyl amine (709.9 mg, 12.0 mmol, 54 eq.) The reaction was stirred for 15 h at
room temperature. The reaction was diluted with CH2CI2 and extracted with 2N NaOH,
H2O, and brine. The organic layer was dried over Na2SC>45 filtered and concentrated. The
crude material was purified using preparative HPLC. Lyophillization of the product
containing fractions affored 19.9 mg (27.6 %yield) of 6-bromo-8-ethyl-2-(isopropylamino)-
4-methylpyrido[2,3- 5.30 (bs, 1H), 4.48 (bd, 2H), 4.18 (bs, 1H), 2.52 (s, 3K)l 1.62 (bs, 3H), 1.29 (m, 9H), MS
(EI) for C13H17BrN40: 325.2 (MH4).
[00213] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 4b. 6-bromo-2-(tebu1ylanimo)-8-emyl-4-memylpyrido[2,3-pyrirddin-7(8//)-
one: }H NMR (400 MHz, CDCI3): 5 8.08 (s, 1H), 5.47 (bs, 1H), 4.48 (m, 2H), 2.50 (s, 3H),
1.58 (bs, 3H), 1.49 (s, 9H), MS (EI) for Ci4Hi9BrN40: 339.2 (MH4)
Example 4c. 6-Bromo-2-(cyclopentylammo)-8-ethyM-memylpyrido[2.3-pyrimidin-
7(8H)-one: !H NMR (400 MHz, CDC13): 5 8.07 (s, 1H), 5.89 (bs, 1H), 4.49 (bd, 2H), 2.51
(s, 3H), 2.07 (m, 2H), 1.71 (m, 2H), 1.58 (m, 2H), 1.31 (t, 3H), MS (EI) for Ci5Hi9BrN40:
351.2 (MH4)
Example 4d.6-Bromo-2-(cyclohexylammo)-8-ethyl-4-metnyIpyrido[2,3-c(Jpyrirmdin-
7(8i*)-one: !H NMR (400 MHz, CDC13): 8 8.07 (s, 1H), 5.41 (bs, 1H), 4.47 (bd, 2H), 3.84
(bs, 1H), 2.51 (s, 3H), 2.05 (d, J= 12.4 Hz, 2H), 1.77 (m, 2H), 1.64 (br m, 4H), 1.39 (m,
2H), 1.30 (m, 3H), MS (EI) for Ci6H2,BrN40: 365.2 (MH4)
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WO 2007/044813 PCT/US2006/039734
Example 4e. 6-Bromo-8-ethyM-methyl-2-(2-morpholinoethylamino)pyrido[2,3-
%yrimidin-7(8#)-one: !H NMR (400 MHz, CDC13): 5 8.08 (s, 1H), 6.22 (bs, 1H), 4.48 (q,
7= 6.4 Hz, 2H), 3.74 (t, 7= 4.4 Hz, 1H), 3.57 (q, 7= 4.8 Hz, 3H), 2.98 (bs, 2H), 2.63 (t, 7=
6.0 Hz, 2H), 2.53 (s, 3H), 1.30 (t, 7= 6.8 Hz, 2H), MS (EI) for CisHBrNjO: 396.2 (MH4)
Example 4f.6-Bromo-8-ethyM-methyI-2-[(3-rnorpholino-4-ylpropyl)amino]pyrido[2,3-
d]pyrimidin-7(8/0-one: !H NMR (400 MHz, CDCI3): 8 8.07 (s, 1H), 6.23 (bs, 1H), 4.47
(bs, 1H), 3.75 (m, 4H), 3.57 (m, 2H), 2.52 (m, 4H), 2.48 (m, 2H), 1.82 (m, 2H), 1.28 (s,
3H), MS (EI) for Ci7H24BrN50:410.2 (MH4)
Example 4g.6-Bromo-2-{[3-(dimethylamino)propyl]amino}-8-ethyI-4-methylpyrido[2,3-
(m, 2H), 3.54 (m, 2H), 2.78 (t, 7= 7.6 Hz, 2H), 2.52 (s, 3H), 2.50 (s, 3H), 2.04 (s, 3H), 2.00
(m, 2H), 1.29 (t, 7 = 7.2 Hz, 3H), MS (EI) for Ci5H22BrN50: 369.2 (MH*)
Example 4h. 8-E%l-2-(e%lamino)-me%lpyrido[2,3-cqpyrimidin-7(8i7)-one: !H NMR
(400 MHz, CDCI3): 5 7.67 (d, 7= 92 Hz, 1H), 6.39 (d, 7= 9.2 Hz, 1H), 5.31 (bs, 1H), 2.54
(s, 3H), 4.32 (q, 7= 6.8 Hz, 2H), 3.52 (q, 7= 6.8 Hz, 2H), 2.53 (s, 3H), 1.15 (m, 6H); MS
(EI) for Ci2Hi6N40:233.2 (Mtf).
Example 4j. 6-Bromo-2-{[2-(dethylamino)ethyl]ainino}-8-ethyl-4-methylpyrido[2,3-
pyrimidin-7(8#)-one: JH NMR (400 MHz, DMSO-): 5 8.37 (s, 1H), 7.83 (bt, 7= 8.0
Hz, 1H), 4.34 (q, 7= 8.0 Hz, 2H), 3.42 (q, 7= 4.0 Hz, 2H), 2.51 (s, 3H), 2.45 (t, 7= 4.0 Hz,
2H), 1.83 (s, 6H), 1.20 (t, 7= 8.0 Hz, 3H); MS (EI) for C14H2oBrN50: 354.3 (M*).
Example 4k. 6-bromo-2-(ethylamino)-methyl-8-(l-metliylethyl)pyrido[2,3-pyrirnidin-
7(8#)-one: lE NMR (400 MHz, CDCI3): 8 8.04 (s, 1H), 6.66 (bs, 1H), 5.83 (sept, 7= 6.8
Hz, 1H), 3.54 (dq, 7= 12.8,7.6 Hz, 2H), 2.62 (s, 3H), 1.60 (d, 7= 6.8 Hz, 6H), 1.34 (t, 7=
7.2 Hz, 3H); MS (EI) for Ci3H17BrN40:324.9 (M*).
Example 4m. 6-Bromo-8-ethyM-methyl-2-moipholW-4-ylpyrido[2,3-d]pyiimidin-7(8i0-
one: 'H NMR (400 MHz, CDCI3): 8 8.09 (s, 1H), 4.45 (q, 7= 6.8 Hz, 2H), 3.92 (s, 3H),
3.79 (s, 3H), 2.55 (s, 3H), 1.30 (t, 7= 6.8 Hz, 3H); MS (EI) for C14Hi7Br N402: 355.1
(M2H4).
Example 4n. 6-Bromo-8-ethyM-methyl-2-[(phenylmethyl)am
7(8//)-one: 2H NMR (400 MHz, CDCI3): 8 8.09 (s, 1H), 7.32 (m, 5H), 5.86 (bs, 1H), 4.68
(s, 2H), 4.43 (q, 7= 7.2 Hz, 2H), 2.54 (s, 3H), 1.13 (t, 7= 7.2 Hz, 3H); MS (EI) for
Ci7Hi7BrN40:! 375.1 (M2Ht).Example 4p. 6-Bromo-8-ethyl-2-(ethylamino)-4-
me%lpyrido[2,3-pyrimidin-7(8#)-one: XH NMR (400 MHz, CDC13): 8 8.09 (s, 1H), 5.71
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WO 2007/044813 PCT/US2006/039734
(bs, 1H),4.48 (bs,2H),3.54(q,J= 6.8Hz,2H),2.53 (s, 3H), 1.16(m,6H);MS (EI)for
CiiHjsBrNrSllCMH4).
Example 5
2-(Ethylammo)-4-me%l-8-(l-methyte

[00214] Pd(dppf) dichloromethane adduct (0.077 g, 0.095 mmol) was added to a
suspension of 6-bromo-2-(ethylamino)-4-methyl-8-(l -methylethyl)pyridb[2,3-i/Jpyrimidm-
7(8//)-one (0.154 g, 0.474 mmol), 2-thiophene boronic acid (0.079 g, 0.616 mmol), and
triethylamine (165 uL, 1.19 mmol) in 10:1 DME: water (1.5 mL). The reaction was heated
to 100 °C. After 5 h, the reaction was cooled to room temperature, filtered though a Celite
plug and concentrated in vacuo. The residue was purified on Si02 (3:2 hexanes: ethyl
acetate) to give 2-(emylamino)-4-methyl-8-(l-methyIethyl)-6-(2-thienyl)pyrido[2,3-
pyrimidin-7(8#)-one (28 mg, 18 % yield) as a light yellow solid: !H NMR (400 MHz,
CDC13): 8 8.06 (s, 1H), 7.60 (dd, J= 4.0, 1.2 Hz, 1H), 7.38 (dd, J= 5.2 , 0.8 Hz, 1H), 7.10
(dd, J= 4.8, 3.2 Hz, 1H), 5.93 (bsept, 1H), 5.13 (bs, 1H), 3.54 (pent, J= 7.2 Hz, 2H), 2.61
(s, 3H), 1.66 (d, /= 6.8 Hz, 6H), 1.28 (t, J= 7.6 Hz, 3H); MS (EI) for C17H2oN4OS: 329.0
(MH4).
[00215] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 5a. 2-(Ethylamino)-6-furan-2-yl-4-methyl-8-(l -methylethyl)pyrido[2,3-
pyrimidin-7(8#)-one: 'H NMR (400 MHZ, CDCL3): 8 8.43 (S, 1H), 7.81 (S, 1H), 7.47
(T, /= 2 HZ, 1H), 6.75 (DD, J= 2.0,0.8 HZ, 1H), 5.92 (BSEPT, 1H), 5.25 (BS, 1H), 3.53
(DQ, J= 12.5,7.6 HZ, 2H), 2.60 (S, 3H), 1.65 (D, J= 6.8 HZ, 6H), 1.29 (T, J= 7.2 HZ,
3H); MS (EI) FOR G17H20N4O2:313.1 (MH4).
Example 5b. 2-(Ethylamino)-4-methyl-8-(l -methylethyl)-6-(li7-pyrazol-3-yl)pyrido[2,3-
i/Ipyrimidin-7(8i7)-one: !H NMR (400 MHz, CDCI3): 8 8.08 (s, 1H), 7.61 (d, J= 2.0 Hz,
1H), 6.65 (bs, 1H), 5.93 (bs, 1H), 5.44 (bs, 1H), 3.55 (dq, J= 12.8,6.4 Hz, 2H), 2.62 (s,
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3H), 1.66{d, J= 6.4 Hz, 6H), 1.30 (t, J= 7.6 Hz,-3H); MS (EI) for Ci6H2oN60:313.3
(MH4).
Example 5c. 2-(Ethylamino)-4-methyl-6-(l i7-pyrazolO-yl)pyrido[2,3-pyrimidin-7(8Jf/)-
one: rH NMR (400 MHz, MeOH.-d4:TFA-d, 10:1): 5 8.59 (s, 1H), 8.07 (s, 1H), 7.30 (s,
1H), 3.59 (q, /= 8.0 Hz, 2H), 2.88 (s, 3H), 1.28 (t, J= 8.0 Hz, 3H); MS (EI) for CnHiO:
271.0(MH+).
Example 5e. 8-Cyclopentyl-2-(e1hylamino)-4-rnethyl-6-(lJf/'-pyrazol-3-yl)pyrido[2,3-
pyrimidin-7(8#)-one: *H NMR (400MHz, DMSO-): 5 8.32 (s, 1H), 7.80 (s, 1H), 7.59
(s, 1H), 6.916 (s, 1H), 5.95 (m, 1H), 2.35 (bs, 2H), 1.95 (bs, 2H), 1.73 (bs, 2H), 1.61 (bs,
2H), 1.12 (t, J= 6.8 Hz, 3H), MS (EI) for Ci8ffi2N60: 339.1 (MH4)
Example 5f.6-(2,4-Difluorophenyl)-8-e%l-2-(ethylamino)-4-methylpyrido[2,3-
pyrimidin-7(8//)-one: *H NMR (400 MHz, CDC13): 5 7.78 (d, 2H), 7.52 (m, 1H), 6.85
(m, 2H), 5.38 (bs, 1H), 4.48 (m, 2H), 3.56 (m, 2H), 2.57 (s, 3H), 1.39 (m, 6H); MS (EI) for
Ci8tfi8F2N40: 345.1 (MH4).
Example 5g. 6-(3-CUoro-fluorophenyl)-8-e1hyl-2-(ethylainino)-4-methylpyrido [2,3-
pyrimidin-7(8fl)-one: !H NMR (400 MHz, CDCI3): 5 7.79 (s, 2H), 7.57 (m, 1H), 7.19
(m, 1H), 5.41 (bs, 1H), 4.45 (bs, 2H), 3.58 (m, 2H), 2.59 (m, 3H), 1.36 (m, 6H); MS (EI) for
Cig/n8ClFN40: 361.0 (MH4).
Example 5h.6-(2,4-Dichlorophenyl)-8-ethyl-2-(eihylamino)-4-metliylpyrido[2,3-
pyrimidin-7(8i?)-one: JH NMR (400 MHz, CDCI3): 8 7.75 (s, 1H), 7.42 (d, 1H), 7.38 (m,
2H), 5.38 (bs, 1H), 4.42 (m, 2H), 3.59 (m, 2H), 2.56 (s, 3H), 1.24 (m, 6H); MS (EI) for
C18//18CI2N4O: 377.0 (M4), 379.0 (M+2)
Example 5i.6-(3,4-Difluorophenyl)-8-ethyl-2-(ethylamino)-4rmethylpyrido[2,3-
pyrimidin-7(8#)-one: !H NMR (400 MHz, CDCI3): 5 7.79 (s, 1H), 7.59 (m, 1H), 7.39
(m, 1H), 7.18 (m, 1H), 5.39 (bs, 1H), 4.46 (m, 2H), 3.58 (m, 2H), 2.59 (s, 3H), 1.27 (m,
6H); MS (EI) for C18tfi8F2N40: 345.1 (MH4).
Example 5j. 8-Ethyl-2-(ethylamino)-4-methyl-6- [4-(phenyloxy)phenyl]pyrido [2,3-
(/Jpyrimidin-7(8//)-one: *H NMR (400 MHz, CDCI3): 8 7.78 (s, 1H), 7.63 (d, 2H), 7.39 (t,
2H), 7.16 (t, 1H), 7.04 (d4H)5 5.38 (bs, 1H), 4.47 (m, 2H), 3.57 (m, 2H), 2.59 (s, 3H), 1,26 -
(m, 6H); MS (EI) for C24H24N402:401.1 (MH4).
Example 5k. 8-Ethyl-2-(ethylamirio)-4-methyl-6-naphthaleA'-1 -ylpyrido [2,3- 7(8#)-one: *H NMR (400 MHz, CDC13): 8 7.84 (d, 2H), 7.80 (s, 1H), 7.73 (d, 1H), 7.48
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(iMH), 539 (bs, 1H), 4.55 (bs, 2H), 3.59 (m, 2H), 2.54 (s, 311), 1.37 (m, 6H); MS (EI) for
C22H22N40:359.1 (MH4).
Example 5m. 8-Ethyl-2-(ethylamino)-4-methyl-6-[3-(trifluoromethyl)phenyl]pyrido[2,3-
pyrimidin-7(8Z/)-one: !H NMR (400 MHz, CDC13): 8 7.82 (m, 3H), 7.56 (m, 2H), 5.59
(bs, 1H), 4.47 (d, 2H), 3.51 (m, 2H), 2.58 (s, 3H), 1.30 (m, 6H); MS (EI) for C19H19F3N4O:
377.1 (Mtf).
Example 5n.8-Ethyl-2 one: !H NMR (400 MHz, CDC13): 5 8.09 (s, 1H), 7.64 (dd, J= 3.60,1.20 Hz, 1H), 7.38
(dd3 J= 5.20,1.20 Hz, 1H), 7.10 (dd, J= 4.78,3.60 Hz, 2H), 3.54 (qn, 2H), 2.62 (s, 3H),
1.30 (m, 6H); MS (EI) for CigHisWS: 315.0 (MPT).
Example 5p.6-(3-CUorophenyl)-8-ethyl-2-(ethylamino)-4-methylpyrido[2,3-pyrirnidin-
7(8/7)-one: !H NMR (400 MHz, CDCI3): 5 7.78 (s, 1H), 7.65 (s, 1H), 7.56 (dd, 1H), 7.34
(m, 2H), 5.39 (bs, 1H), 4.43 (m, 2H0, 3.57 (m, 2H), 2.59 (s, 3H), 1.32 (m, 6H); MS (EI) for
Ci8/fl9ClN40: 343.0 (MH*).
Example 5q. 6-(4-Chlorophenyl)-8-ethyl-2-(ethylamino)-4-methylpyrido [2,3-d]pyrimidin-
7(SH)-one: *H NMR (400 MHz, CDCI3): 8 7.77 (s, 1H), 7.62 (dd, 2H0,7.40 (dd, 2H), 5.38
(bs, 1H), 4.47 (m, 2H), 3,58 (m, 2H), 2.59 (s, 3H), 1.39 (m, 6H); MS (EI) for Ci8#i9ClN40:
343.0 (MH*).
Example 5r. 8-Ethyl-2-(ethylamino)-4-methyl-6- [4-(trifluoromethyl)phenyl]pyrido[2,3-
(bs, 1H), 4.51 (m, 2H), 3.58 (m, 2H), 2.58 (s, 3H), 1.33 (m, 6H); MS (EI) for C19H19F3N4O:
343.0 (Mtf).
Example 5s. 8-Ethyl-2-(e%lamino)-4-me%l-6 one: *H NMR (400 MHz, CDC13): 8 8.11 (dd, /= 2.10,0.90 Hz, 1H), 7.94 (s, 1H), 7.52
(dd, J= 3.90,1.20 Hz, 1H), 7.35 (qr, 1H), 5.33 (bs, 1H), 4.52 (qr, 2H), 3.54 (m, 2H), 2.58
(s, 3H), 1.28 (m, 6H); MS (EI) for Ci6Hi8N4OS: 315.0 (MH4).
Example 5t.8-Ethyl-2 IE), 5.38 (bs, 1H), 4.58 (qr, 2H)S 3.57 (m, 2H), 2.61 (s, 1H), 233 (s, 1H), 1.60 (s, 3H); MS
(EI) for Ci7H2oN4OS: 329.0 (MH4).
Example 5u.8-Ethyl-2 75

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1H), 535 (bs, 1H),.4.51 (qr, 2H), 3.57 (ra, 2H), 2.58 (s,3H), 2.22 (s, 3H), 1.32 (m,6H); MS
(EI) for Ci7H2oN4OS: 329.0 (MH+).
Example 5v. 1,1-Dimethylethyl 2-[8-ethyl-2-(ethylamino)-4-methyl-7-oxo-7,8-
dihydropyrido[2J-pyrimidin-6-yl]-ljy-pyrrole-l-carboxylate: lH NMR (400 MHz,
CDC13): 5 7.65 (s, 1H), 7.38 (d, 1H), 6.22 (m, 2H), 5.29 (bs, 1H), 4.41 (m, 2H), 3.57 (m,
2H), 2.56 (s, 3H), 1.41 (s, 9H), 1.22 (m, 6H); MS (EI) for C2iH27N503: 398.0 (MH*).
Example 5w. 8-Eliyl-2-(ethylamino)-4-me11iyl-6-(lH-pyrrol-2-yl)pyrido[2,3-pyrimidin-
7(8#)-one: !H NMR (400 MHz, CDC13): 8 11.1 (bs, 1H), 7.99 (s, 1H), 6.85 (d, 1H), 6.62
(d, 1H), 6.29 (d, 1H), 5.28 (bs, 1H), 4.57 (m, 2H), 3.56 (m, 2H), 2.61 (s, 3H), 1.35 (m, 6H);
MS (EI) for Ci6Hi9N50:298.1 (MH4).
Example Sx. 8-E%l-2-(e%lamino)-6-fean-3-yl-4-methylpyrido[2r3-«fjpyriniidin-7(8-f0-..
one: rH NMR (400 MHz, CDC13): 8 8.42 (s, 1H), 7.83 (s, 1H), 7.43 (s, 1H),6.76 (s, 1H),
5.37 (bs, 1H), 4.52 (m, 2H), 3.58 (m, 2H), 2.61 (s, 3H), 1.30 (m, 6H); MS (EI) for
Ci6H18N402: 299.1 (MH4).
Example 5y. 8-Elhyl-2-(ethylamino)-4-methyl-6-[l-phenyhnethyl)-lif-pyrazol-4-
yl]pyrido[2,3-f/]pyrimidin-7(8/0-one: *H NMR (400 MHz, CDCI3): 8 8.39 (s, 1H), 7.98 (d,
1H), 7.96 (d, 1H), 7.35 (m, 5H), 5.39 (s, 2H), 5.35 (bs, 1H), 4.52 (m, 2H), 3.58 (m, 2H),
2.62 (s, 3H), 1.35 (m, 6H); MS (EI) for C22H24N6O: 389.3 (MH4).
Example 5z. 6-(3,5-DimethyUsoxazol-4-yl)-8-ethyl-2-(ethylamino)-4-methylpyrido[2,3-
rf]pyrimidin-7(8#)-one: *H NMR (400 MHz, CDC13): 8 7.59 (s, 1H), 7.24 (s, 1H), 5.43 (bs,
1H), 4.47 (bs, 2H), 3.56 (m, 2H), 2.58 (s, 3H), 2.39 (s, 3H), 2.25 (s, 3H), 1.29 (m, 6H) ; MS
(EI) for Ci7H2iN502: 328.1 (MH4).
Example 5aa. 8-Ethyl-2-(ethylamino)-methyl-6-(lH-pyrazol-5-yl)pyrido[2,3-
1H), 5.43 (bs, 1H), 4.58 (m, 2H), 3.59 (m, 2H), 2.62 (s, 3H),' 1.38 (m, 6H); MS (EI) for
Ci5HigN60: 299.1 (MET).
Example 5bb. 8-Ethyl-4-methyl-6-(lfi'-pyrazol-5-yl)-2-[(2,2>
trifluoroe%l)amino]pyrido[2,3-pyrimidin-7(8/f)-one: JH NMR (400 MHz, CDCI3): 8
8.18 (s,lH), 7.63 (d, 1H), 6.73 (d, 1H), 5.62 (bs, 1H), 4.58 (m, 2H), 4.30 (m, 2H), 2.74 (s,
3H), 1.35 (t, 3H); MS (EI) for C15H15F3N6O: 353.0 (MH*).
Example 5cc. 8-Ethyl-2-(ethylamino)-4-methyl-6-(l,3-ttaazol-2-yl)pyrido[2,3- 7(8#)-one: *H NMR (400 MHz, CDC13): 8 8.87 (s, 1H), 7.98 (s, 1H), 7.43 (s, 1H), 7.22 (s,
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1H>, 5.56 (bs, 1H), 4.58 (bs, 2H), 2.72 (s, 3H0,1.36 (m, 6H); MS (EI) for C15H17N5OS:
316.0 (MH*).
Example 6
6-BiphenyM-yl-8-emyl-2e%lammo)-4-methylpyri

[00216} 2-Ethylammo-6-bromo-8-e11iyW-methylpyrid6
(60 mg, 0.194 mmol), K2C03 (81.0 mg, 3.0 equiv.), biphenyl boronic acid (17.8 mg, 1.5
equiv.) and Pd(PPh3)4 (10 mol %, 225 mg) were added to dioxane / H20 (10 mL / 3 mL).
The reaction was heated to 95 °C and stirred for 2 h. The reaction mixture was partitioned
between organic and aqueous layers with ethyl acetate (20 mL) and H2O (10 mL) and
saturated aqueous NaCl (5 mL). The organic layer was dried over anhydrous magnesium
sulfate, filtered and evaporated to give 6-Biphenyl-4-yl-8-ethyl-2-(ethylamino)-4-
memylpyrido[2,3-pyridinudW-7(8#)-one (48.42 mg, 65 % yield): *H NMR (400 MHz,
CDCI3): 8 7.81 (s, 1H), 7.74 (m, 2H), 7.60 (m, 4H), 7.42 (m, 2H), 7.38 (m, 1H), 4.50 (q,
2H), 3.60 (q, 2H), 2.60 (s, 3H), 1.30 (m, 6H); MS (EI) for C24H24N4O: 385.1 (MH4).
[00217] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 6a. 8-Ethyl-2-(ethylamino)-4-methyl-6-[4-(methyloxy)phenyl]pyrido[2,3-
pyridimidW-7(8#)-one: lH NMR (400 MHz, CDCI3): 5 7.81 (s, 1H), 7.60 (d, 2H), 6.96
(d, 2H), 4.50 (q, 2H), 3.82 (s, 3H), 3.58 (q, 2H), 2.58 (s, 3H), 1.30 (m, 6H); MS (EI) for
C19H22N4O2: 339.10).
Example 6b. 8-Ethyl-2-(ethylamino)-4-methyl-6-[2-(methyloxy)phenyl]pyrido[2,3-
pyridimidW-7(8JfO-one: ]H NMR (400 MHz, CDCI3): 5 7.81 (s, 1H), 7.60 (d, 2H), 6.96
(d, 2H), 4.50 (q, 2H), 3.80 (s, 3H), 3.58 (q, 2H), 2.50 (s, 3H), 1,30 (m, 6H); MS (EI) for
Ci9H22N402: 339.1 (MH4).
Example 6c. 6-[2,4-Bis(methyloxy)phenyl]-8-ethyl-2-(ethylamino)-4-methylpyrido[2,3-
pyrimidin-7(8#)-one: !H NMR (400 MHz, CDCI3): 8 7.70 (s, 1H), 7.30 (s, 1H), 6.60 (m,
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2H), 4.50(q,2H), 3.82(s,3H), 3.80(ss3H), 3.45 (q,2H),.2.50(s,3H), 1.30 (m,,6H);MS ,
(EI) for C20H24N4O3: 369.1 (MH4).
Example 6d. 8-Ethyl-2-(ethylamino)-4-methyl-6-[3-(methyloxy)phenyl]pyrido[2,3-
d]pyridimidiiV-7(8//)-one: !H NMR (400 MHz, CDC13): 8 7.81 (s, 1H), 7.60 (d, 2H), 6.96
(d, 2H), 4.50 (q, 2H), 3.80 (s, 3H), 3.58 (q, 2H), 2.50 (s, 3H), 1.30 (ra, 6H); MS (EI) for
Ci9H22N402: 339.1 (MH4).
Example 6e.8-(5-Chloro-2-thienyl)-8-ethyl-2-(ethylamino)-4-methylpyrido[2,3-
pyrimidin-7(8#)-ofle: lH NMR (400 MHz, CDCk): 8 8.00 (s, 1H), 7.38 (d, 2H), 6.96 (d,
2H), 4.50 (q, 2H), 3.58 (q, 2H), 2.60 (s, 3H), 1.30 (m, 6H); MS (EI) for CMHITCTNUOS:
349.2 (MH4).
Example 6f. 8-Ethyl -2-(ethylamino)-4-methyl 6-pyrinudin-5-ylpyrido[2,3-pyridirnidW- , , .
7(8.H)-one: *H NMR (400 MHz, DMSO-«j): 8 9.19 (s, 1H), 9.16 (s, 1H), 8.23 (s, 1H), 8.00
' (m, 1H), 4.38 (q, 2H), 3.40 (q, 2H), 2.50 (s, 3H), 1.30 (m, 6H); MS (EI) for C16H18N60:
311.3 (MH4).
Example 6g. 8-Elhyl-2-(e1hylamino)-6-(3-fluoropyridW-4-yl)-4-metliylpyrido[2,3-
ifjpyrimidin-7(8//)-one: *H NMR (400 MHz, CDCI3): 8 8.58 (s, 1H), 8.42 (d, 1H), 7.98 (s,
1H), 7.60 (t, 1H), 4.50 (q, 2H), 3.58 (q, 2H), 2.60 (s, 3H), 1.30 (m, 6H); MS (EI) for
CnHijjFNsO: 328.3 (MH4).
Example 6h. 8-Ethyl -2-(ethylamino)-6-(l i/-indole-6-yl)-4-meihylpyrido[2,3-f/lpyrimidin-
7(8i?)-one: *H NMR (400 MHz, DMSO-): 8 11.2 (s, 1H), 7.90 (s, 1H), 7.88 (s, 1H), 7.42
(s, 2H), 7.38 (s, 1H), 6.50 (s, 1H), 4.40 (q, 2H), 3.40 (q, 2H), 2.42 (s, 3H), 1.30 (m, 6H);
MS (EI) for C2oH2iN50: 348.3 (MH4).
Example 6i. 8-Ethyl -2-(ethylamino)-4-methyl-6-(5-phenyl-2-thienyl)pyrido[2,3-
(d, 2H), 7.50 (d, 1H), 7.42 (m, 2H), 7.30 (m, 1H), 4.40 (q, 2H), 3.40 (q, 2H), 2.42 (s, 3H),
1.30 (m, 6H); MS (EI) for C22H22N4OS: 391.3 (MH4).
Example 6j. 8-Ethyl-2-(ethylamino)-4-methyl-6-phenylpyrido[2,3-pyrimidin-7(8i7)-one:
*H NMR (400 MHz, CDCI3): 8 7.78 (s, 1H), 7.46 (m, 5H), 5.41 (bs, 1H), 4.50 (q, /= 6.8
Hz,2H), 3.60 (ms 2H), 2.57 (s, 3H), 1.30(m, 6H);MS (EI)forCi8/CoN40: 309.2 (MH4).
Example 6k. 8-Ethyl-2-(e11iylairdno)-6-(3-fluorophenyl)-4-methylpyrido[2,3-cpyrimidiii-
7(8fl)-one: ]H NMR (400 MHz, CDC13): 8 7.79 (s, 1H), 7.46-7.02 (m, 4H), 5.41 (bs, 1H),
4.51 (q, J= 6.4 Hz, 2H), 3.55 (q, J= 6.8 Hz, 2H), 2.58 (s, 3H), 1.34 (t, J= 6.80Hz, 3H),
1.29 (t, J= 6.40 Hz, 3H); MS (EI) for CgENtO: 327.3 (MH4).
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Example 6m. 8&yl~2~(ethylamino)-62-fluorophenyi)-mefhylpyrido[2,3-pyrmiidia-
7(8fl)-one: *H NMR (400 MHz, CDC13): 5 7.80 (s, 1H), 7.52-7.12 (m, 4H), 5.33 (bs, 1H),
4.49 (q, J= 6.8 Hz, 2H), 3.53 (q, J= 7.2 Hz, 2H), 2.55 (s, 3H), 1.34 (t, J= 7.20 Hz, 3H),
1.28 (t, J= 6.80 Hz, 3H); MS (EI) for CigrW): 327.3 (MH*).
Example 6n. 8-ethyl-2-(ethylamino)-6-(4-fluorophenyl)-4-methylpyrido[2,3-pyrimidin-
7(8#)-one: !H NMR (400 MHz, CDC13): 5 7.75 (s, 1H), 7.66-7.08 (m, 4H), 5.30 (bs, 1H),
4.52 (q, J= 6.4 Hz, 2H), 3.54 (q, J= 6.8 Hz, 2H), 2.58 (s, 3H), 1.34 (t, 7= 6.80 Hz, 3H),
1.29 (t, J= 6.40 Hz, 3H); MS (EI) for CFW: 327.3 (MH+).

[00218] 3-Chloroperbenzoic acid (1.78 g, 10.4 mmol) was added to a solution of
6-bromo-4-methyl-8-( 1 -methylethyl)-2-(methylthio)pyrido [2,3-]pyrimidin-7(8/f)-one
(1.33 g, 4.14 mmol), prepared using procedures similar to those described in Example 1, in
dichloromethane (30.0 mL) at room temperature. After 1, the reaction was diluted with
dichloromethane (50 mL) and washed twice with saturated NaHC03, followed by brine.
The organic phase was separated and dried over Na2SC>4, filtered, and concentrated in
vacuo. The residue was precipitated with ethyl acetate/hexanes to provide the corresponding
sulfone (1.31 g, 93 % yield) as an off-white solid.
Example 8
2-Amino-4-memyl-8-(phenylmethyl)-6-(l//-pyrazol-3-yl)pyrido[2,3-pyrimidin-7(8i)-one

[00219] Triethylamine (3.4 mL, 24.6 mmol) was added to a suspension of 2-amino-4-
cUoro-6-memylpyrimidine (Aldrich, 1.77 g, 12.3 mmol) and benzylamine (1.98 g, 18.5
mmol) in anhydrous dioxane (20 mL). The reaction was heated to 80 °C and allowed to run
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for 12 h. Upon cooling to room temperature, a white precipitate formed which was collected
by vacuum filtration. The solid was recrystallized from acetone: hexanes to afford N4-
benzyl-6-methylpyrimidine-2,4-diamine (2.33 g, 89 % yield) as a white solid.

[00220] Iodine (3.04 g, 12.0 mmol) was added to a solution of A-benzyl-6-
methylpyrimidine-2,4-diamine (2.33 g, 10.9 mmol) in anhydrous MeOH (50 mL) at 0 °C.
The reaction was allowed to warm to room temperature overnight. After 12 hours, an
additional 0.5 equiv of iodine was added, and the reaction wanned to 50 °C. After four
hours, the reaction was cooled to room temperature and concentrated in vacuo. The residue
was diluted with ethyl acetate (200 mL) and washed with 10% NaHS03 (200 mL). The
aqueous phase was separated and washed once more with ethyl acetate (200 mL). The
organic phases were combined, washed with brine, separated and dried over Na2S04, The
filtrate was concentrated in vacuo to afford the product iV*-benzyl-5-iodo-6-
methvlpvrimidine-2,4-diamine (3.14 e, 85 % vield).

[00221] Triethylamine (7.60 mL, 54.5 mmol) was added to a suspension
beri2yl-5-iodo-6rmethylpyrimidine-2,4-diamine (3.14 g, 10.9 mmol), ethyl acrylate (3.55
mL, 32.7 mmol) and Pd(PPh3)4 (629 mg, 0.545 mmol) in anhydrous DMF (20 mL). The
reaction was heated to 95 °C under nitrogen. After 24 h, the reaction was allowed to cool to
room temperature and concentrated in vacuo. The residue was poured into a 10% solution of
LiCl and washed with ethyl acetate (100 mL). The organic phase was separated and washed
with brine, separated and dried over Na2S04, The filtrate was concentrated in vacuo and
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• purified-on S1O2 (3i2 methylene chloride: ethyl acetate) to afford (E)-ethyl~3-2-amino-4 -
(benzylanaino)-6-me1hylpyrimidiii-5-yl)acrylate (0.954 g, 28 % yield) as a light yellow
solid.

[00222] 2-anuno-me%l-8-(phenylme%l)pyrido[2,3-pyrimidin-7(8if)-one
Diazabicyclo[5.4.0]undec-7-ene (DBU) (1.83 mL, 12.2 mmol) was added to a flask charged
with (thyl-3-(2-ammo-4enzylamino)-6-metliylpyrimidin-5-yl)acrylate (0.954 g, 3.05
, mmol) and the reaction refluxed at 160 °C under a nitrogen atmosphere. After 20 hours, the
reaction was cooled to room temperature and concentrated in vacuo. Purification on S1O2
(1:1 methylene chloride: ethyl acetate) afforded the product (0.508 g, 62 % yield) as an off-
white solid.

[00223] Bromine (72 uL, 1.40 mmol) was added to a suspension of 2-amino-4-
methyl-8-(phenyimethyl)pyrido[2,3-pyrirnidin-7(8//)"one (0.340 g, 1.27 mmol) in
methylene chloride (20 mL) at 0 °C. The reaction was allowed to warm to room temperature
over one hour and the resulting precipitate collected by vacuum filtration to afford 2-amino-
6-bromo-4-methyl-(8-phenymiemyl)pyrido[23-pyrimidin-7(8J:0-one (0.435 g, 99 %
yield) after drying. The yellow solid was used in the next step without further purification.
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[00224] A 10:1 solution of dioxane and water (11 mL) was added to a flask charged
with2-amino-6-bromo-4-methyl-(8-phenylmethyl)pyrido[2,3-d]pyrhnidin-7(8//)-one
(0.435 g, 1.27 mmol), lH-pyrazole-5-boronic acid (0.284 g, 2.54 mmol), Pd(PPh3)4 (0.073
mg, 0.063 mmol), and K2CO3 (0.527 g, 3.81 mmol). The flask was flushed with nitrogen
and fitted with a reflux condenser and heated to 110 °C. After 12 h the reaction was cooled
to room temperature and diluted with ethyl acetate (100 mL) and washed with water. The
aqueous phase was acidified to pH 1.0 and washed with ethyl acetate (100 mL). The organic
phases were combined and washed with brine, separated and dried over Na2SC>4, filtered
and concentrated in vacuo. The residue was precipitated with ethyl acetate to give 2-Amino-
4-memyl-8-(phenylmemyl)-(l#-pyrazol-3-yl
15 % yield) as a yellow solid: *H NMR (400 MHz, DMSO-d6): 8 13.10 (bs, 1H), 12.93 (bs,
1H), 8.47 (s, 1H), 7.76 (bs, 1H), 7.51 (bs, 1H), 7.28 (m, 5H), 6.97 (s, 1H), 5.55 (s, 2H), 2.55
(bs, 3H); MS (EI) for Ci8Hi6N60: 333.1 (MH4).
Example 9
2-Ammo-8-emyl-4-memyl-6-(4-memyl-3-tWenyl)pyrido[2,3-d]pyrimidm-7(8

[00225] A 3:1 solution of dioxane and water (4 mL) was added to a flask charged
with 2-ammo-6-bromo-8-e%M-me%lpyrido[2,3-pyrimidin-7(8//)-one (0.140 g, 0.495
mmol) from above, 4-methylthiophene-3-boronic acid (0.140 g, 0.989 mmol), Pd(PPh3)4
(0.057 mg, 0.050 mmol), and K2C03 (0.205 g, 1.48 mmol). The flask was flushed with
nitrogen and fitted with a reflux condenser and heated to 100 °C. After 12 hours the reaction
was cooled to room temperature and diluted with ethyl acetate (70 mL) and washed with
water. The aqueous phase was separated and washed with an additional amount of ethyl
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acetate (70 mLVTheorganic phases were combined and washed with brine, separated and "
dried over Na2SC>4, filtered and concentrated in vacuo. The residue was purified on S1O2
(1:1 methylene chloride: ethyl acetate) to give 2-Amino-8-ethyl-4-methyl-6-(4-methyl-3-
thienyl)pyrido[2,3-fir|pyrimidin-7(8fl)-one (0.081 g, 55 % yield) as an off-white solid: !H
NMR (400 MHz, DMSO-d6): 8 7.84 (s, 1H), 7.46 (d, J= 4.0 Hz, 1H), 7.19 (m, 3H), 4.32
(q,J=8.0Hz,2H),2.52 (s,3H), 2.11 (bs, 3H), 1.19 (t, J=8.0Hz, 3H);MS (EI) for
C15H16N4OS: 301.1 (MH4).
[00226] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 9a. 2-Ammo-8-emyl-4-memyl-6-(3-tMenyl)pyrido[2,3-pyrimidin-7(8i/)-one:
'H NMR (400 MHz, CDCI3): 8 8.11 (dd, J- 2.8,1.2 Hz, 1H), 7.95 (s, 1H), 7.51 (dd, J=
5.2,1.2 Hz, 1H), 7.37 (dd, J= 4.8, 3.2 Hz, 1H), 5.21, (bs, 2H), 4.48 (q, J= 6.8 Hz, 2H),
2.63 (s, 3H), 1.32 (t, J= 7.2 Hz, 3H); MS (EI) for C14H14N4OS: 287.0 (MH4).
Example 9b. 2-Ammo-8-e%l-6-furan-3-yl-4-me%lpyrido[2,3-pyrimidm-7(8i-one: *H
NMR (400 MHz, CDCI3): 8 8.47 (bs, 1H), 7.85 (s, 1H), 7.49 (t, J= 1.6 Hz, 1H), 6.77 (dd, J
= 2.0, 0.8 Hz, 1H), 5.19, (bs, 2H), 4.48 (q, J= 6.8 Hz, 2H), 2.64 (s, 3H), 1.31 (t, /= 7.2 Hz,
3H); MS (EI) for Ci4Hi4N402:271.1 (MH4),
Example 9c. 2-Amino-6-(3,5Kimiethylisoxazol-4-yl)-8-ethyl-4-methylpyrido[2,3-
pyrirrudin-7(8#)-one: *H NMR (400 MHz, CDC13): 8 7.62 (s, 1H), 5.27, (bs, 2H), 4.44
(q, J= 7.2 Hz, 2H), 2.59 (s, 3H), 2.38 (s, 3H), 2.25 (s, 3H), 1.31 (t, J= 6.8 Hz, 3H); MS
(EI) for C15H17N5O2:300.1 (MH4).
Example 9d.2Ammo-8-ethyl-6-isoxazoM-yl-4-methylpyrido[2,3-pyrimidin-7(80-one:
!H NMR (400 MHz, CDC13): 8 9.36 (s, 1H), 8.71 (s, 1H), 7.91 (s, 1H), 5.30, (bs, 2H), 4.48
(q, J= 7.2 Hz, 2H), 2.67 (s, 3H), 1.32 (t, J= 6.8 Hz, 3H); MS (EI) for C13H13N5O2:272.0
(MH4).
Example 9e. 2-Ammo-8-ethyl-6-furan-2-yl-4-methyIpyrido[2,3- NMR (400 MHz, CDCI3): 8 8.19 (s, 1H), 7.48 (d, J= 0.8 Hz, 1H), 7.37 (d, J= 3.6 Hz, 1H),
6.53 (dd, J= 3.6,2.0 Hz 1H), 5.21, (bs, 2H), 4.48 (q, J= 7.2 Hz, 2H), 2.66 (s, 3H), 1.32 (t,
7= 6.8 Hz, 3H); MS (EI) for Ci4H14N402:271.0 (MH4).
Example 9f.5-(2-Ammo-8thyM-methyl-7-oxo-7,8-dmydropyrido[2,3-pyrimidin-6-
yl)thiophene-2-carbonitrile: !H NMR (400 MHz, CDCI3): 8 8.24 (s, 1H), 7.61 (d, 7= 4.4
Hz, 1H), 7.55 (d, J= 4.4 Hz, 1H), 5.33, (bs, 2H), 4.48 (q, J= 7.2 Hz, 2H), 2.68 (s, 3H), 1.33
(t, J= 6.8 Hz, 3H); MS (EI) for C15H13N5OS: 312.0 (MH4).
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Example 9g; 2-Ainino-8-ethyl-4-mfcthyl-6-(lil3r-pyrazol-4-yl)pyiidcjf2i3 ~d]pyrimidmr7{&H)-
one: !H NMR (400 MHz, DMSO-j): 812.88 (s, 1H), 8.38 (s, 1H), 8.17 (s, 2H), 7.10 (bs,
2H), 4.35 (q, /= 7.2 Hz, 2H), 2.59 (s, 3H), 1.20 (t, J= 7.2 Hz, 3H); MS (EI) for Ci3Hi4N60:
271.0 (MH4).
Example 9h. 2-Amino-8-ethyl-4-methyl-6-(l ,3-thiazol-2-yl)pyrido[2,3- J]pyrimidin-7(8#)-
one: JH NMR (400 MHz, CDC13): 5 8.94 (s, 1H), 7.94 (d, J= 3.2 Hz, 1H), 7.46 (d, J= 3.2
Hz, 1H), 5.34 (bs, 2H), 4.54 (q, J= 7.2 Hz, 2H), 2.73 (s, 3H), 1.35 (t, J= 7.2 Hz, 3H); MS
(EI) for C13H13N5OS: 288.0 (MH4).
Example 9i.2-Amino-8-ethyl-4-methyl-6-(l-methyl-l//'-pyrrol-2-yl)pyrido[2,3-
c0pyrimidin-7(8F)-one: JH NMR (400 MHz, DMSO-rfg): 8 7.81 (s, 1H), 7.20 (bs, 2H), 6.81
6.11 (dd, J= 3.6,2 .0Hz, 1H), 6.02 (t, J = 3.2 Hz, 1H), 4.32 (q, J= 7.2 Hz, 2H), 3.49 (s,
3H), 2.52 (s, 3H), 1.19 (t, 7= 7.2 Hz, 3H); MS (EI) for C15H17N5O: 284.1 (MH").
Example 9j. 2-Amino-8-ethyl-4-methyl-6-phenylpyrido[2,3pyrimidin-7(8/0-one: *H
NMR (400MHz, CDC13): 8 7.79 (s, 1H), 7.65 (d, J= 6.8 Hz, 2H), 7.43 (d, J= 7.2 Hz, 2H),
7.36(d,J=7.2Hz, 1H), 5.24 (bs,2H), 4.47 (q,J= 7.2 Hz, 2H), 2.60 (s,3H), 1.31 (d,J=
7.2 Hz, 3H), MS (EI) for Ci6Hi6N40:281.2 (MH4)
Example 9k 2-Amino-8-ethyl-6-(4-methoxyphenyI)-methylpyrido[2,3-pyrimidin-
7(8#)-one: *H NMR (400MHz, CDC13): 8 7.75 (s, 1H), 7.62 (d, J= 8.8 Hz, 2H), 6.96 (d, J
= 8.8 Hz, 2H), 5.17 (bs, 2H), 4.47 (q, J= 6.8 Hz, 2H), 3.85 (s, 3H), 2.60 (s, 3H), 1.31 (d, /=
7.2 Hz, 3H), MS (EI) for Ci7Hi8N402: 311.2 (MH4)
Example 9m 2-Amino-8-ethyl-6-(2-methoxyphenyl)-methylpyrido[2,3-pyrimidin-
7(8/0-one: !H NMR (400MHz, CDC13): 8 7.75 (m, 1H), 7.36 (m, 2H), 7.01 (m, 2H), 5.20
(bs, 2H), 4.45 (m, 2H), 3.82 (s, 3H), 2.56 (s, 3H), 1.31 (m, 3H), MS (EI) for Ci7IIi8N402:
Example 9n2-Amino-6-(4-cUorophenyl)-8-ethylme11iylpyrido[2,3- one: *H NMR (400MHz, CDCI3): 8 7.78 (s, 1H), 7.61 (d, J= 8.8 Hz, 2H), 7.39 (d, J= 8.8
Hz, 2H), 5.23 (bs, 2H), 4.46 (q, J= 12 Hz, 2H), 2.61 (s, 3H), 1.31 (d, J= 6.8 Hz, 3H), MS
(EI)forCi6Hi5ClN40: 315.1 (MH4)
Example 9p2-Amino-6-(3-cMorophenyl)-8-ethyM-me1hylpyrido[2,3-pyrimidiii-7(8ii0-
one: 'HNMR (400MHz, CDCI3): 8 7.79 (s, 1H), 7.66 (m, 1H), 7.56 (m, 1H), 7.35 (m, 2H),
5.25 (bs, 2H), 4.46 (q, J= 5.6 Hz, 2H), 2.61 (s, 3H), 1.31 (d, J= 7.2 Hz, 3H), MS (EI) for
Ci6Hi5ClN40: 315.1 (MH4)
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Example 9q Anuire6- one: JH NMR (400MHz, CDC13): 5 7.75 (s, 1H), 7.67 (m,1H), 7.54 (m, 2H), 7.38 (m, 1H),
7.333 (m, 1H), 5.22 (bs, 2H), 4.46 (q, J= 6.8 Hz, 2H), 2.57 (s, 3H), 1.31 (d, J= 6.8 Hz,
3H), MS (EI) for Ci6Hi5ClN40:315.1 (MH4)
Example 9r2-Amino-6-(2,4-dichlorophenyl)-8-e1hyM-methylpyrido[2,3-pyrimidin-
7(BH)-one: JH NMR (400MHz, CDC13): 8 7.77 (s, 1H), 7.67 (m, 1H), 7.49 (m, 1H), 7.32
(m, 1H), 5.24 (bs, 2H), 4.45 (q, J= 6.8 Hz, 2H), 2.58 (s, 3H), 1.30 (d, J= 7.2 Hz, 3H), MS
(EI) for C16H14CI2N4O: 349.1 (MH4)
Example 9t 2-Amino-8-e%l-4-metiiyl-6-(2-tWenyl)pyrido[2,3-d]pyriinidin-7(8/0-one: *H
NMR (400 MHz, DMSO-rf6): 5 8.39 (s, 1H), 7.85-7.13 (m, 5H), 4.37 (q, J= 7.2 Hz, 2H),
2.62 (s, 3H), 1.18 (t, J= 7.2 Hz, 3H); MS (EI) for C14H14N4OS: 287.1 (MH4).
Example 9u 2-Amino-8-ethyl-6-(4-fluorophenyl)-4-methyl
one: *H NMR (400 MHz, DMSO-rf6): 5 7.99 (s, 1H), 7.76-7.22 (m, 6H), 4.34 (q, J= 7.2Hz,
2H), 2.56 (s, 3H), 1.20 (t, J= 7.2 Hz, 3H); MS (EI) for Ci6Hi5FN40: 299.2 (MH4).
Example 9v2-Amino-8-ethyl-6-(3-fluorophenyl)-4-methylpyrido[2,3-£/]pyrirMdin-7(8//)-
one: ]H NMR (400 MHz, DMSO-rf6): 5 8.06 (s, 1H), 7.61-7.44 (m, 3H), 7;29 (bs, 2H), 7.20-
7.15 (m, 1H), 4.34 (q, J= 7.2Hz, 2H), 2.58 (s, 3H), 1.20 (t, J= 7.2 Hz, 3H); MS (EI) for
C16Hi5FN40: 299.2 (MH4).
Example 9w2-Amino-8-ethyl-6-(2-fluorophenyl)-4-methylpyrido[2,3-pyrimidin-7(8/r)-
one: *H NMR (400 MHz, DMSO-4): 5 7.96 (s, 1H), 7.50-7.23 (m, 6H), 4.32 (q, 7= 6.8 Hz,
2H), 2.52 (s, 3H), 1.19 (t, J= 6.8 Hz, 3H); MS (EI) for C16H15FN4O: 299.2 (MH4).
Example 9x Methyl 3-(2-amino-8-ethyl-4-methyl-7-oxo-7,8-dihydropyrido[2,3-
pyrimidin-6-yl)benzoate: JH NMR (400 MHz, DMSO-d6): 8 8.34 (s, 1H), 8.06 (s, 1H),
7.95-7.55 (m, 3H), 7.28 (bs, 1H), 4.35 (q, J= 6.8 Hz, 2H), 3.89 (s, 3H), 2.58 (s, 3H), 1.21 (t,
J= 6.8 Hz, 3H); MS (EI) for C1MI8N4O 3: 339.2 (MH4).
Example 9y 2-Amino-8-ethyl-4-me1hyl-6-pyrimidin-5-ylpyrido
one:.NMR (400 MHz, DMSO-): 8 8.39 (s, 1H), 7.65-7.30 (rn, 5H), 4.31 (q, J= 7.2 Hz,
2H), 2.50 (s, 3H), 1.17 (t, 7= 7.2 Hz, 3H); MS (EI) for C14H14N6O: 283.2 (MH4).
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Example 10
2-Ammo-8-e&yl-6-(lH-imdazol-5-yl)-me

[00227] A solution of potassium hydroxide (0.139 g, 2.48 mmol) in absolute ethanol
(3.0 mL) was added to a pressure tube charged with 4-(ethylamino)-6-methyl-2-
(methylthio)pyrimidine-5-carbaldehyde (0.229 g, 1.08 mmol), prepared using procedures
isimlar to those described for Intermediate 1, and 2-(lH-imidazol-5-yl)acetonitrile (0.174 g,
162 mmol) and heated to 70 °C. After 12 h, the reaction was allowed to cool to room
temperature and concentrated in vacuo affording 8-ethyl-6-(lif-imidazol-5-yl)-4-methyl-2-
(memyltWo)pyrido[2,3-d]pyrimidin-7(8iy)-imine as a solid. The product was used in the
subsequent step without further purification.

[00228] Acetic anhydride (15.0 mL) was added to a flask charged with crude 8-ethyl-
6-(l#4midazol-5-yl)-4-methyl-2-(memyl1hio)py
heated to 100 °C. After 30 minutes, the reaction was allowed to cool to room temperature
and concentrated in vacuo. The acetylated residue was then treated with 6 N HC1 (16 mL)
and heated to 95 °C for 30 minutes then transferred to a large flask. A saturated solution of
NaHC03 (150 mL) was added at 0 °C to about pH = 8.0. The aqueous phase was washed
thrice with ethyl acetate (100 mL) and the organic layers combined, then washed with brine
and dried over Na2SC>4. The drying agent was filtered off and the organic layers were
concentrated in vacuo to afford crude 8-ethyl-6-(lif-imidazol-5-yl)-4-methyl-2-
(memyllMo)pyrido[2,3-rf]pyrimidin-7(8/i)-one which was used in the subsequent step
without further purification.
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[00229] 3-Chloroperbenzoic acid (0.299 g, 1.73 mmol) was added to a solution of
crade8-ethyl-6 one (0.260g, 0.866 mmol) in dichloromethane (10.0 mL) at room temperature. After 1.5 h,
the reaction was diluted with dichloromethane (50 mL) and washed twice with saturated
NaHCC>3, followed by brine. The organic phase was separated and dried over Na2SC>4,
filtered, and concentrated in vacuo. The corresponding sulfone was used in the subsequent
step without further purification.

[00230] Concentrated aqueous ammonium hydroxide (400 uL) was added to a
solution of the sulfone in dioxane (10 mL) at 0 °C. The reaction flask sealed, and allowed to
warm to room temperature upon standing overnight. The reaction was concentrated in vacuo
and purified on reverse phase HPLC (acetonitrile: water 0.1 % TFA, 20-60% gradient). The
fractions containing product were collected and concentrated to one half volume and poured
into saturated NaHC03 (50 mL). The aqueous phase was washed trice with ethyl acetate (50
mL) and dried over Na2SC>4, filtered, and concentrated in vacuo. The residue was triturated
with methylene chloride and ethyl acetate to afford 2-amino-8-ethyl-6-(li?-imidazol-5-yl)-
4-me%lpyrido[2,3-pyrimidin-7(8#)-one (29 mg, 12 % yield) as a light yellow solid: *H
NMR (400 MHz, CH3OH-): 8 8.52 (bs, 1H), 7.88 (bs, 1H), 7.76 (s, 1H), 4.30 (q, J= 6.8
Hz, 2H), 2.65 (s, 3H), 1.29 (t, J= 6.8 Hz, 3H); MS (EI) for CiaHnNeO: 271.0 (MH4).
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*- "' - Example li : -'* ' - * -"* '
2-Amino-8%M-methyl-6-(lH-l,23-triazol-5-yl)pyrido[23-pyrimidin-7(8

[00231] Trimethylsilylethyne (1.44 mL, 10.2 mmol) was added to a pressure tube
charged with 2-amino-6-bromo-8-ethyW-melhylpyrido[2,3-pyrimidin-7(8//)-one (1.58 g,
5.59 mmol) from above, Cul (0.053 g, 0.279 mmol), and PdCl2(PPh3)2 (0.211 g, 0.279
mmol) in triethylamine (20 mL). The pressure tube was sealed under nitrogen and heated to
50 °C 96 h. The reaction was cooled to room temperature and poured into a saturated
solution of NaHC03 (150 mL), then washed four times with ethyl acetate (50 mL). The
organic layers were pooled and dried over Na2SC>4, filtered and concentrated in vacuo. The
residue was purified on SiC>2 (2:1, methylene chloride: ethyl acetate) to afford 2-amino-8- ethyM-me%l-6-((trime%lsilyl)em (1.09 g, 65 %
yield) as an off white solid.

[00232] Potassium carbonate (1.00 g, 7.28 mmol) was added to a flask charged with
2-amino-8-emyM-memyl-6-((tximethylstty
(1.09 g, 3.64 mmol) in anhydrous methanol (15 mL). The reaction was stirred at room
temperature under nitrogen for 16 h. The reaction was concentrated to one half volume and
the yellow precipitate collected by vacuum filtration to afford 2-amino-8-ethyl -6-ethynyl-4-
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[00233] Anhydrous DMF (5.0 mL) was added to a flask charged with 2-amino-8-
ethyl -6-ethynyl-4-methylpyrido[23-d]pyrimidin-7(8/0-one (0.204 g, 0.894 mmol), sodium
azide (0.070 g, 1.07 mmol), and ammonium chloride (0.057 g, 1.07 mmol). The reaction
was capped under nitrogen and heated to 120 °C. After 48 h, the reaction was cooled to
room temperature and concentrated in vacuo. The residue was purified on reverse phase
HPLC (acetonitrile: water 0.1 % TFA, 20-60% gradient). The fractions containing product
were collected and concentrated to one half volume and poured into saturated NaHCOa (50
mL). The aqueous phase was washed trice with ethyl acetate (50 mL) and dried over
Na2SC>4, filtered, and concentrated in vacuo. The residue was triturated with methylene
chloride and ethyl acetate to afford 2-amino-8-ethyl-4-methyl-6-(lJH'-l,2,3-triazol-5-
yl)pyrido[2,3-d]pyrimidin-7(8/0-one (14 mg, 6 % yield) as a light yellow solid: !H NMR
(400 MHz, DMSO-rftf): 8 8.55 (bs, 1H), 8.41 (bs, 1H), 7.32 (bs, 2H), 4.37 (q, J= 7.2 Hz,
2H), 2.60 (s, 3H), 1.21 (t, J= 7.2 Hz, 3H); MS (EI) for C12Hi3N70:272.0 (MH4).
Example 12 2rAmino-8-emyl-4-methyl-6-(li/4etrazol-5-yl)pyrido[2,3-pyrinddin-7(8i-
[00234] Potassium carbonate (0.539 g, 3.90 mmol) was added to a suspension of
4-(ethylamino)-6-methyl-2-(methyltMo)pyrimidine-5-carbaldehyde (0.413 g, 1.95 mmol)
from above, and malononitrile (0.194 g, 2.93 mmol) in absolute ethanol (15.0 mL) and
heated to 70 °C. After one h, the reaction was allowed to cool to room temperature and
concentrated in vacuo. The residue was diluted with ethyl acetate (50 mL) and washed with
saturated NaHC03 (50 mL), and brine. The organic phase was separated and concentrated in
vacuo. The residue was precipitated with ethyl acetate and hexanes to give 8-ethyl-7-imino-
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4-methyl-2-(methylthio)~7,8-dih as a brown
solid that was used in the subsequent step without further purification.

[00235] Acetic anhydride (10.0 mL) was added to a flask charged with 8-ethyl-7-
mmo-4-methyl-2-(methylttao)-7,8-dihyd
1.95 mmol) and heated to 100 °C. After one h, the reaction was allowed to cool to room
temperature and concentrated in vacuo. The acetylated residue was then treated with 6 N
HC1 (40 mL) and heated to 95 °C for one hour then transferred to a large flask. A saturated
solution of NaHCC>3 (500 mL) was added slowly at 0 °C until a ~pH 8.0 was achieved. The
aqueous phase was washed thrice with ethyl acetate (100 mL) arid the organic layers
combined, then washed with brine and dried over Na2SC>4. The drying agent was filtered
and concentrated in vacuo to afford crude 8-ethyl-4-methyl-2-(methylthio)-7-oxo-7,8-
dmydropyrido[2,3-d]pyrimidine-6-carbonitrile which was used in the subsequent step
without further purification.

[00236] 3-Chloroperbenzoic acid (1.00 g, 5.85 mmol) was added to a solution of
crade8-ethyH-memyl-2-(memyltMo)-7-oxo-7,8-dmydropyrido[23-pyrimidine-6-
carbonitrile (0.507 g, 1.95 mmol) in dichloromethane (30.0 mL) at room temperature. After
2.5 hours, the reaction was diluted with dichloromethane (50 mL) and washed twice with
saturated NaHCC>3, followed by brine. The organic phase was separated and dried over
Na2S04, filtered, and concentrated in vacuo. 2-Amino-8-ethyl-4-methyl-7-oxo-7,8-
dihydropyrido[2,3 -pyrirnidine-6-carbonitrile was used in the subsequent step without
further purification.
[00237] Ammonium hydroxide (500 uL) was added to a solution of the above sulfone
in dioxane (10 mL) at 0 °C. The reaction flask sealed, and allowed to warm to room
temperature upon standing overnight. The reaction was concentrated in vacuo triturated
90

WO 2007/044813 PCT/US2006/039734
with ethyl acetate to afford the product which was used in the subsequent step without
further purification.

[00238] Tributyltin azide (660 uL, 2.41 mmol) was added to a flask charged with
2-ammo-8-ethyM-methyl-7-oxor7,8- g, 0.803 mmol) in anhydrous toluene (5.0 mL). The reaction was fitted with a reflux
condenser and heated to 140 °C under a nitrogen atmosphere. After 20 h, the reaction was
cooled to room temperature and the precipitate collected by vacuum filtration and washed
with absolute ethanol to give 2-amino-8-ethyl-4-methyl-6-(l/f-tetrazol-5-yl)pyrido[2,3-
]pyrimidin-7(8//)-orie (98 mg, 45 % yield) as a light brown solid: *H NMR (400 MHz, 20
% DC1 in D20): 8 6.97 (s, 1H), 2.42 (q, J= 7.2 Hz, 2H), 0.953 (s, 3H), -0.73 (t, 7= 7.2 Hz,
3H); MS (EI) for CuHnN80: 271.0 (MH4).
Example 13

[00239] A mixture of 8-(3-methoxypropyl)-4-methyl-2-(methylthio)pyrido[2,3-
d]pyrimidin-7(8if)-one (0.36 g, 1.29 mmol), prepared using procedures similar to those
described in Example 1, dichloromethane (10 mL), and 77 % 3-chloroperbenzoic acid with
water (0.723 g, 3.23 mmol) was stirred for 1 h. The mixture was diluted with
dichloromethane, washed with sat. sodium bicarbonate (3 times), brine, dried over sodium
sulfate, and DCM was removed under reduced pressure. The crude 8-(3-methoxypropyl)-4-
memyl-2-(memylsulfonyl)pyrido[2,3]pyrinudin-7(8iJ)-one was used without further
purification for subsequent step.
91

WO 2007/044813 PCT/US2006/039734

[00240] 8-(3-methoxypropyl)-methyl-2-(methylsulfonyl)pyrido[23-d]pyrimidin-
7(8Jy)-one, and a solution of 2M ethylamine in THF (20 mL) was stirred for 2 h. THF was
removed under reduced pressure and the crude product was purified by flash column
chromatography to give 2-(ethylamino)-8-(3-methoxypropyl)-4-methylpyrido[2,3-
d]pyrimidin-7(8//)-one (0.18 g, 50 % yield over 2 steps).

[00241] To a solution of 2-(ethylamino)-8-(3-methoxypropyl)-4-methylpyrido[2,3-
d]pyrimidin-7(8//)-one (0.18 g, 0.65 mmol), acetic acid (5 mL) and dichloromethane (3
mL) was added bromine (36 ul, 0.7 mmol). The mixture was stirred for 5 minutes, and then
diluted with DCM and water. The organic layer was washed with sat. sodium bicarbonate
(3 times), brine, dried over sodium sulfate, filtered and concentrated under reduced
pressure. The crude product was purified by flash column chromatography to gave 0.13 g
(56 % yield) of 6-bromo-2-(ethylamino)-8-(3-methoxypropyl)-4-methylpyrido[2,3-
d]pyrimidin-7(8#)-one. !H NMR (400MHz, CDC13) 8 8.09 (s, 1H), 5.44 (Br. s, 1H), 4.55
(m, 2H), 3.54-3.47 (m, 4H), 3.33 (s, 3H), 2.53 (s, 3H), 2.05-2.00 (m, 2H), 1.30- 1.23 (m,
3H);MS(EI)forCi4H19BrN402:355(MH+).
[00242] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 13a. 6-bromo-8-(2-emoxyemyl)-2-(emylammo)-4-methylpyrido[2,3-d]pyrimidin-
7(8#)-one: *H NMR (400MHz, CDC13) 8 8.09 (s, 1H), 5.37 (Br. s, 1H), 4.67 (m, 2H), 3.74
(m, 2H), 3.61-3.56 (t, 2H), 3.51 (m, 2H), 2.53 (s, 3H), 1.29-1.25 (t, 3H), 1.19-1.15 (t, 3H);
MS (EI) for Ci4Hi9BrN402: 355 (MH+).
Example 13b. 6-bromo-8-(3-ethoxypropyl)-2-(ethylamino)-4-methylpyrido[2,3-
d]pyrimidin-7(8#)-one: !H NMR (400MHz, CDCI3) 8 8.09 (s, 1H), 5.37 (Br. s, 1H), 4.53
92

WO 2007/044813 PCT/US2006/039734
(m, 2H), 3.52 (m, 4H},- 3.48-3.43 (m, 2H), 2.53(s, 3H), 2.04-2.00 (m, 2H), 1.29-1.25 (t,
3H), 1.19-1.15 (t, 3H); MS (EI) for CisKbiBrN: 369 (MH+).
Example 13c. 6-bromo-2-(ethylamino)-8-(3-isopropoxypropyl)-4-methylpyrido[2,3-
d]pyrimidin-7(8#)-one: !H NMR (400MHz, CDC13) 5 8.09 (s, 1H), 5.37 (Br. s, 1H), 4.53
(m,2HX3.59-3.49 (m, 5H), 2.52 (s, 3H), 2.01-1.98 (m>.2H)rl,28-1.25 (t, 3H), 1.134,11 (t,
6H); MS (EI) for CielfeBrN: 383 (MH+).
Example 14

[00243] A mixture of 2,4-dichloro-6-methylpyrimidine (Aldrich, 5 g, 30 mmol),
cyclohexylamine (3 g, 30 mmol) and DIEA (10 mL) was stirred at 80 °C for 12 h. The
volatile material was removed under reduced pressure. The residue was loaded on a silica
gel column, and was eluted with hexanes/ethyl acetate (3:1). 8-cyclohexyl-2-(ethylamino)-
4-methyl-6-(thiophei-2-yl)pyrido[2,3-d]pyrimidin-7(8fi)-one was obtained as colorless oil
(2.8 g, 41% yield).

[00244] The product was reacted with a solution of ethylamine (10 equiv.) in THF at
100 °C for 12 h. The crude 2-ethylarnmo-4-cycIohexylammo-6-memylpyrimidine was
obtained from a standard workup and was used in the next step.

[00245] To a solution of 2-emylammo-4-cyclohexylanimo-6-memylpyrimidine (600
mg, 2.56 mmol) in CH3CN (10 mL) was added JV-iodosuccinimide (NIS, 658 mg, 2.92
mmol). The reaction was stirred for 2 h at room temperature. After removal of the solvent,
93

WO 2007/044813 PCT/US2006/039734
the residue was dissolved in EtOAc. The organic phase was then washed with sodium *
bisulfite, brine, and dried over Na2S04. Purification by flash column chromatography gave
660 mg (73% yield) of 2-emylamino-4-cyclohexylammo-5-iodo-6-me1hylpyrimidine.

[00246] To a solution of 2-ethylamino-4-cyclohexylamino-5-iodo-6-
methylpyrimidine (660 mg, 1.83 mmol) in DMA (7 mL) was added ethyl acrylate (458 mg,
4.58 mmol), Pd(OAc)2 (121 mg, 0.18 mmol), (o-Tol)3P (110 mg, 0.37 mmol), and Et3N
(740 mg, 7.32 mmol). The mixture was then stirred at 100 °C for 12 h under N2. Standard
workup and purification by column chromatography gave 411 mg (67% yield) of (E)-ethyl
3 -(4-(cyclohexylammo)-2-(emylammo)-6-methylpyrimidin-5-yl)acrylate

[00247] (E)-ethyl 3-(4-(cyclohexylamino)-2-(emylammo)-6-memylpyrimidin-5-
yl)acrylate (200 mg, 0.6 mmol) was dissolved in AcOH (2 mL). This solution was heated
in a sealed tube at 186 °C for 17 h. Standard workup and purification by column
chromatography gave 65 mg (38 % yield) of 8-cyclohexyl-2-(ethylamino)-4-
methylpyrido[2,3-d]pyrimidin-7(8/f)-one.

[00248] To 8-cyclohexyl-2 in AcOH and CH2C12 was added Br2 (22 uL, 0.42 mmol) at 80 °C. Standard workup and
94

WO 2007/044813 PCT/US2006/039734
purification by column chromatography gave 65 mg (0.17 mmol, 80 % yield) of 6-bronio-8-
cyclohexyl-2-(ethylammo)-methylpyrido[23]pyrirmdin-7(8/0-°ne-

[00249] The bromide (65 mg, 0.17 mmol) obtained above was reacted with
2-thiopheneboronic acid (45 mg, 0.36 mmol) in the presence of Pd(PPb.3)4 (20 mg, 0.018
mmol) and Na2C03 (38 mg, 0.36 mmol) in l,4-dioxane/H20 (1:1) at 100 °C for 2 h.
Removal of solvents and purification by column chromatography gave 33 mg (50% yield)
of 8-cyclohexyI-2-(emylammoH-memyl-6-(miopheAr-2-yl)pyrido[2,3-d]pyrimidm-7(8/
one. *H NMR (400 MHz, DMSO-d6) 5. 8.01 (br s, 1 H), 7.60 (m, 1 H), 7.37 (m, 1 H), 7.10
(m, 1H), 5.60-5.40 (m, 1 H), 3.55 (m, 2 H), 2.85 (m, 1 H), 2.61 (s, 3 H), 1.90 (m, 2 H), 1.71
(m, 4 H), 1.43 (m, 2 H), 1.30-1.2 (m, 2 H),1.30 (t, 3 H); MS (EI) for C2oH24N4OS: 369
(MH+).
[00250] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compound was prepared:
Example 14a. 6-bromo-8-cyclopropyl-2-(emylamino)-4-methylpyrido[2,3-d]pyrimidin-
7(8#)-one: *H NMR (400 MHz, CDC13) 5 8.06 (s, 1 H), 5.37 (br s, 1 H), 3.54 (m, 2 H), 2.94
(br s, 1H), 2.51 (s, 3 H), 1.31-1.25 (m, 5 H), 0.91 (br s, 2 H); MS (EI) for Ci3Hi5BrN40:
323 (MH+).

[00251] To a solution of 6-bromo-2-(ethylamino)-4-methylpyrido[2,3-d]pyrimidin-
7(8/f)-one (100 mg, 0.35 mmol) in DMF (2 mL), prepared using porocedures analogous to
those described in Example.14, was added NaH (30 mg, 60%, 0.7 mmol). The mixture was
stirred for 30 min at room temperature .and was warmed to 70 °C. 3-Bromopropanol (48
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WO 2007/044813 PCT/US2006/039734
rag, 0,35 mmol) was then added. The stirring was continued for 12 h; Standard workup and
purification by column chromatography gave 33 mg (27% yield) of 6-bromo-2-
(ethylammo)-8 (400 MHz, CDC13) 8 8.13 (s, 1 H), 5.42 (br s, 1 H), 4.59 (br s, 2 H), 3.50-3.47 (m, 5 H),
2.55 (s, 3 H), 2.02 (br s, 2 H), 1.28 (t, 3 H); MS (EI) for CuHnBrN: 341 (MH+).
[00252] Using the same or analogous synthetic techniques and substituting with
appropriate reagents, the following compounds were prepared:
Example 15a. 6-bromo-2-(ethylamino)-8-(2-hydroxyethyl)-4-methylpyrido[2,3-
d]pyrimidin-7(8#)-one: lE NMR (400 MHz, DMSO-d6) 5 8.38 (s, 1 H), 4.82 (br s, 1 H),
4.40 (br s, 2 H), 3.62-3.55 (m, 2 H), 3.40-3.20 (m, 3 H), 2.55 (s, 3 H), 1.15 (t, 3 H); MS (EI)
for Ci2H15BrN402: 327 (MH+).
Example 15b. 6-bromo-2-(ethylamino)-4-methyl-8-(2-(piperidin-l-yl)ethyl)pyrido[2,3-
d]pyrinridin-7(8#)-one: ]H NMR (400 MHz, CDC13) 5 8.08 (s, 1 H), 5.39 (br s, 1 H), 4.59
(br s, 2 H), 3.55-3.40 (m, 2 H), 2.70-2.50 (m, 6 H), 2.52 (s, 3 H), 1.62-1.58 (m, 4 H), 1.46-
1.40 (m, 2 H), 1.27 (t, 3 H); MS (EI) for Ci7H24BrN50: 394 (MH+).
Biological Examples
Biological Example 1
PI3Kalpha Luciferase-Coupled Chemiluminescence Assay Protocol
[00253] PDKa activity is measured as the percent of ATP consumed following the
kinase reaction using luciferase-luciferW-coupled chemiluminescence. Reactions were
conducted in 384-well white, medium binding microtiter plates (Greiner). Kinase reactions
were initiated by combining test compounds, ATP, substrate (PIP2), and kinase in a 20 uL
volume in a buffer solution. The standard PDKalpha assay buffer is composed 50 mM Tris,
pH 7.5,1 mM EGTA,T0 mM MgCI2, 1 mM DTT and 0.03%XHAPS7 The standard assay
concentrations for enzyme, ATP, and substrate are 0.5-1.1 nM, luM, and 7.5 uM,
respectively. The reaction mixture was incubated at ambient temperature for approximately
2 h. Following the kinase reaction, a 10 uL aliquot of luciferase-luciferin mix (Promega
Kinase-Glo) was added and the chemiluminescence signal measured using a Victor2 plate
reader (Perkin Elmer). Total ATP consumption was limited to 40-60% and IC50 values of
control compounds correlate well with literature references.
[00254] Certain compounds of the invention were tested in this assay and demonstrated
the ability to bind to PI3K. For example, in one embodiment of the invention, the PI3K
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inhibitor is selected from the compounds in Table 1 having a PBK-binding affinity of about
9 uM or less. In another embodiment, the PDK inhibitor is selected from the compounds in
Table 1 having a PBK-binding affinity of about 5 uM or less. In another embodiment, the
PDK inhibitor is selected from the compounds in Table 1 having a PI3K-binding affinity of
about 3 uM or less. In another embodiment, the PBK inhibitor is selected from the
compounds in Table 1 having a PBK-binding affinity of about 1.5 uM or less. In another
embodiment, the PI3K inhibitor is selected from the compounds in Table 1 having a PBK-
binding affinity of about 1 uM or less. In another embodiment, the PBK inhibitor is
selected from the compounds in Table 1 having a PBK-binding affinity of about 0.6 M or
less. In another embodiment, the PBK inhibitor is selected from the compounds in Table 1
having a PBK-binding affinity of about 0.3 uM or less. In another embodiment, the PBK
inhibitor is selected from the compounds in Table 1 having a PBK-binding affinity of about
0.2 pM or less. In another embodiment, the PBK inhibitor is selected from the compounds
in Table 1 having a PBK-binding affinity of about 0.1 uM or less. In another embodiment,
the PBK inhibitor is selected from the compounds in Table 1 having a PBK-binding
affinity of about 0.04 uM or less. In another embodiment, the PBK inhibitor is selected
from the compounds in Table 1 having a PBK-binding affinity of about 0.020 |iM or less.
Biological Example 2
Phospho AKT assayPC3 cells were seeded on 6-well plates at 150,000 cells/well. Cells
were cultured for 3 days, then treated with compounds in serum-free medium for 3 hr. EGF
(100 ng/mL) was added for the last 10 min. Cells were lysed in TENN buffer. Phospho
T308 Akt and total Akt were quantified by ELISA performed according to the Biosource
assay protocol. The readings of phospho Akt were normalized to total Akt readings.
Biological Example 3
Phospho S6 assay
[00256] PC3 cells were seeded on 96-well plates at 8,000 cells/well. For each
experiment, cells were seeded and treated in duplicated plates: one plate for phospho S6
CellELISA, and one plate for total S6 CellELISA. Cells were cultured on the plates for 3
days, then treated with compounds in serum-free medium for 3 hr in triplicate. Cells were
fixed with 4% formaldehyde, quenched with 0.6% H2O2, blocked with 5% BSA, incubated
with either phospho S6 antibody or total S6 antibody overnight, incubated with goat-anti-
rabbit-IgG-HRP for 1 hr, and developed in chemiluminescent substrate.
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WO 2007/044813 PCTVUS2006/039734
Biological Example 4
PIP3 assay
100257] MCF-7 cells grown in 10-cm dishes were starved for 3 hours in DMEM, and
4hen treated with compounds for 20 minutes. lathe last 2 minutes of the incuhationAviththe
compounds, EGF (100 ng/mL) was added to stimulate the production of PIP3. The medium
was aspirated and the cells were scraped with 10% trichloroacetic acid. The lipids were
extracted from the pellet after the cell lysates were centrifuged. PEP3 in the cellular lipid
extraction was quantified with the AlphaScreen assay in which Grpl-PH is used as the PIP3
specific probe. The amount of cellular PIP3 was calculated from the standard curve of diCg
PI(3,4,5)P3.
Biological Example 5-10
In vivo models
[00258] Female and male athymic nude mice (NCr) 5-8 weeks of age and weighing
approximately 20 g were used in the following model. Prior to initiation of a study, the
animals were allowed to acclimate for a minimum of 48 h. During these studies, animals
were provided food and water ad libitum and housed in a room conditioned at 70-75°F and
60% relative humidity. A 12 h light and 12 h dark cycle was maintained with automatic
timers. All animals were examined daily for compound-induced or tumor-related deaths.
[00259] PC-3 human prostate adenocarcinoma cells were cultured in vitro in DMEM
(Mediatech) supplemented with 20% Fetal Bovine Serum (Hyclone), PenicilhW-
Streptomycin and non-essential amino acids at 37°C in a humidified 5% CO2 atmosphere.
On day 0, cells were harvested by trypsinization and 3x106 cells (passage 13, 99% viability)
in 0.1 mL of ice-cold Hank's balanced salt solution were implanted subcutaneOusly into the
hindflank of 5-8 week old male nude mice. A transponder was implanted in each-mouse for
identification, and animals were monitored daily for clinical symptoms and survival. Body
weights were recorded daily.
[00260] U-87 MG human glioblastoma cells were cultured in vitro in DMEM
(Mediatech) supplemented with 10% Fetal Bovine Serum (Hyclone), PenicillW-
Streptomycin and non-essential amino acids at 37°C in a humidified 5% CO2 atmosphere.
On day 0, cells were harvested by trypsinization and 2x106 cells (passage 5, 96% viability)
in 0.1 mL of ice-cold Hank's balanced salt solution were implanted intradermally into the
hindflank of 5-8 week old female nude mice. A transponder was implanted in each mouse
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for identification, and animals were monitored daily for clinical symptoms and survival.
Body weights were recorded daily.
[00261] A549 human lung carcinoma cells were cultured in vitro in DMEM (Mediatech)
supplemented with 10% Fetal Bovine Serum (Hyclone), PenicilliiV-Streptomycin and non-
essential amino acids at 37°C in-a humidified 5% C02 atmosphere, On day 0, cells, were
harvested by trypsinization and 10x10s cells (passage 12, 99% viability) in 0.1 mL of
ice-cold Hank's balanced salt solution were implanted intradermally into the hindflank of
5-8 week old female nude mice. A transponder was implanted in each mouse for
identification, and animals were monitored daily for clinical symptoms and survival. Body
weights were recorded daily.
[00262] A2058 human melanoma cells were cultured in vitro in DMEM (Mediatech)
supplemented with 10% Fetal Bovine Serum (Hyclone), PenicilliiV-Streptomycin and non-
essential amino acids at 37°C in a humidified, 5% CO2 atmosphere. On day 0, cells were
harvested by trypsinization and 3x106 cells (passage 3, 95% viability) in 0.1 mL ice-cold
Hank's balanced salt solution were implanted intradermally in the hind-flank of 5-8 week
old female athymic nude mice. A transponder was implanted in each mouse for
identification, and animals were monitored daily for clinical symptoms and survival. Body
weights were recorded daily.
[00263] WM-266-4 human melanoma cells were cultured in vitro in DMEM (Mediatech)
supplemented with 10% Fetal Bovine Serum (Hyclone), PenicilliiV-Streptomycin and non-
essential amino acids at 37°C in a humidified, 5% CO2 atmosphere. On day 0, cells were
harvested by trypsinization and 3xl06 cells (passage 5, 99% viability) in 0.1 mL ice-cold
Hank's balanced salt solution were implanted intradermally in the hind-flank of 5-8 week
old female athymic nude mice. A transponder was implanted in each mouse for
identification, and animals were monitored daily for clinical symptoms and survival. Body
weights were recorded daily.
[00264] For subcutaneous or intradermal tumors, the mean tumor weight of each animal
in the respective control and treatment groups was determined twice weekly during the
study. Tumor weight (TW) was determined by measuring perpendicular diameters with a
caliper, using the following formula:
tumor weight (mg) = [tumor volume = length (mm) x width2 (mm2)]/2
[00265] These data were recorded and plotted on a tumor weight vs. days
post-implantation line graph and presented graphically as an indication of tumor growth
rates. Percent inhibition of tumor growth (TGI) is determined with the following formula:
99


where Xo = average TW of all tumors on group day
Xf = TW of treated group on Day f
Yf=TW of vehicle control group on Day f
If tumors regress below their starting sizes, then the percent tumor regression is determined
with the following formula:

Tumor size is calculated individually for each tumor to obtain a mean ± SEM value for each
experimental group. Statistical significance is determined using the 2-tailed Student's t-test
(significance defined as P Pharmaceutical Composition Examples
[00266] The following are representative pharmaceutical formulations containing a
compound of Formula I.
Tablet Formulation
The following ingredients are mixed intimately and pressed into single scored tablets.

Ingredient Quantity per tablet, mg
compound of this invention 400
Cornstarch 50
croscarmellose sodium 25
Lactose 120
magnesium stearate 5
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WO 2007/044813 PCT/US2006/039734
Capsule Formulation
The following ingredients are mixed intimately and loaded into a hard-shell gelatin capsule.

Ingredient Quantity per tablet, mg
compound of this invention
lactose, spray-dried
magnesium stearate 200
148
2
Suspension Formulation
The following ingredients are mixed to form a suspension for oral administration.

Ingredient Amount
compound of this invention 1.0 g
fumaric acid 0.5 g
sodium chloride 2.0 g
methyl paraben 0.15 g
propyl paraben 0.05 g
granulated sugar 25.5 g
sorbitol (70% solution) 12.85 g
Veegum K (Vanderbilt Co.) 1.0 g
Flavoring 0.035 mL
Colorings 0.5 mg
distilled water q.s. to 100 mL
Injectable Formulation
The following ingredients are mixed to form an injectable formulation.

Ingredient Amount
compound of this invention 1.2 g
sodium acetate buffer solution 0.4M2.0mL
HCl(lN)orNaOH(lM) q.s. to suitable pH
water (distilled, sterile) q.s.to 20 mL
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WO 2007/044813 PCT/US2006/039734
[00267] All of the above ingredients, except water, are combined and heated to 60-
70.degree. C. with stirring. A sufficient quantity of water at 60.degree. C. is then added with
vigorous stirring to emulsify the ingredients, and water then added q.s. to 100 g.
Suppository Formulation
[00268] A suppository of total weight 2.5 g is prepared by mixing the compound of the
invention with WitepsoLRTM. H-15 (triglycerides of saturated vegetable fatty acid; Riches-
Nelson, Inc., New York), and has the following composition:

Ingredient Quantity per tablet, mg
compound of this invention
Witepsol®H-15 500
balance
The foregoing invention has been described in some detail by way of illustration and
example, for purposes of clarity and understanding. The invention has been described with
reference to various specific embodiments and techniques. However, it should be
understood that many variations and modifications may be made while remaining within the
spirit and scope of the invention. It will be obvious to one of skill in the art that changes
and modifications may be practiced within the scope of the appended claims. Therefore, it is
to be understood that the above description is intended to be illustrative and not restrictive.
The scope of the invention should, therefore, be determined not with reference to the above
description, but should instead be determined with reference to the following appended
claims, along with the full scope of equivalents to which such claims are entitled. All
- patents, patent applications and publications cited in-this application are hereby
incorporated by reference in then1 entirety for all purposes to the same extent as if each
individual patent, patent application or publication were so individually denoted.
102


WE CLAIM t
1. A Compound of Formula I:
or a single stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof, wherein
R1 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted cycloalkylalkyl, optionally substituted aryl, optionally substituted
arylalkyl, optionally substituted heterocycloalkyl, optionally substituted
heterocycloalkylalkyl, optionally substituted heteroaryl or optionally substituted
heteroarylalkyl;
0 ft
R is hydrogen or alkyl where the alkyl is optionally substituted with 1,2, 3,4, or 5 R
groups;
X is -NR3-;
R3 hydrogen;
R4 is optionally substituted alkyl;
R5 is hydrogen; and
R6 is phenyl, acyl, or heteroaryl wherein the phenyl and heteroaryl are optionally substituted
with 1,2, 3,4, or 5 R9 groups;
each R , when present, is independently hydroxy, halo, alkoxy, haloalkoxy, amino,
alkylamino, dialkylaminoalkyl, or alkoxyalkylamino; and
each R9, when present, is independently halo, alkyl, haloalkyl, alkoxy, haloalkoxy, cyano,
amino, alkylamino, dialkylamino, alkoxyalkyl, carboxyalkyl, alkoxycarbonyl,
aminoalkyl, cycloalkyl, aryl, arylalkyl, aryloxy, heterocycloalkyl, or heteroaryl and
where the cycloalkyl, aryl, heterocycloalkyl, and heteroaryl, each either alone or as
part of another group within R9, are independently optionally substituted with 1,2, 3,
or 4 groups selected from halo, alkyl, haloalkyl, hydroxy, alkoxy, haloalkxy, amino,
alkylamino, and dialkylamino.
2. The Compound of Claim 1 where R1 is hydrogen, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkylalkyl, or
optionally substituted arylalkyl; X is -NH-; R2 is hydrogen or alkyl where the alkyl
-103-

is optionally substituted with one or two R8 groups; R4 is alkyl; R5 is hydrogen; R6 is
phenyl or heteroaryl wherein the phenyl and heteroaryl are optionally substituted
with one, two, or three R9 groups; each R8, when present, is independently amino,
alkylamino, dialkylamino, or halo; and each R9, when present, is independently
alkyl, arylalkyl, cyano, aryl, alkoxycarbonyl, or halo; or a single stereoisomer or
mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof.
3. The Compound of Claim 1 where R2 is hydrogen; or a single stereoisomer or
mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof.
4. The Compound of Claim 3 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
5. The Compound of Claim 3 where R1 is optionally substituted alkyl or cycloalkyl; or
a single stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
6. The Compound of Claim 4 where R1 is optionally substituted alkyl; or a single
stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
7. The Compound of Claim 3 where R6 is phenyl optionally substituted with 1, 2, or 3
R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
8. The Compound of Claim 7 where each R9, when present, is independently aryl, halo,
alkoxy, aryloxy, or haloalkyl; or a single stereoisomer or mixture of stereoisomers
thereof and optionally as a pharmaceutically acceptable salt or solvate thereof.
9. The Compound of Claim 7 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
10. The Compound of Claim 3 where R6 is heteroaryl optionally substituted with 1, 2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
11. The Compound of Claim 10 where each R9, when present, is independently alkyl,
arylalkyl, cyano, aryl, alkoxycarbonyl, or halo; or a single stereoisomer or mixture
of_stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
-104-

12. The Compound of Claim 3 where R is pyrazolyl, imidazolyl, thienyl, thiazolyl,
oxazolyl, isoxazolyl, oxadiazolyl, furanyl, pyrrolyl, triazolyl, or tetrazolyl; each of
which is optionally substituted with 1, 2, or 3 R9 groups; or a single stereoisomer or
mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof. - -.
13. The Compound of Claim 3 where R is pyrazol-3-yl, pyrazol-4-yl, pyrazol-5-yl,
imidazol-2-yl, imidazol-4-yl, imidazol-5-yl, thien-2-yl, thien-3-yl, thiazol-2-yl,
thiazol-4-yl, thiazol-5-yl, oxazol-2-yl, oxazol-4-yl, oxazol-5-yl, isoxazol-3-yl,
isoxazol-4-yl, isoxazol-5-yl, l,2,3-oxadiazol-4-yl, l,2,3-oxadiazol-5-yl, 1,3,4-
oxadiazol-2-yl, l,2,4-oxadiazol-3-yl, l,2,4-oxadiazol-5-yl, furan-2-yl, furan-3-yl,
pyrrol-2-yl, pyrrol-3-yl, triazol-4-yl, triazol-5-yl, or tetrazol-5-yl; each of which is
optionally substituted with 1, 2, or 3 R groups; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
14. The Compound of Claim 12 where R is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
15. The Compound of Claim 3 where R6 is pyrazinyl, pyrimidinyl, or pyridazinyl each
of which is optionally substituted with 1, 2, or 3 R groups; or a single stereoisomer
or mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof.
16. The Compound of Claim 15 where R is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
17. The Compound of Claim 1 where R2 is hydrogen, R4 is methyl, R1 is optionally
substituted alkyl or cycloalkyl, and R6 is phenyl optionally substituted with 1,2, or 3
R groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
18. The Compound of Claim 1 where R2 is hydrogen, R4 is methyl, R1 is optionally
substituted alkyl or cycloalkyl, and R6 is heteroaryl optionally substituted with 1, 2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
19. The Compound of Claim 3 where R1 is heterocycloalkyl and R4 is methyl; or a
single stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
-105-

20. The Compound of Claim 19 where R6 is phenyl optionally substituted with 1,2, or 3
R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
21. The Compound of Claim 19 where R6 is heteroaryl optionally substituted with 1,2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
22. The Compound of Claim 3 where R1 is heterocycloalkylalkyl and R4 is methyl; or a
single stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
23. The Compound of Claim 22 where R6 is phenyl optionally substituted with 1,2, or 3
R groups; or a single stereoisomer or mixture Of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
24. The Compound of Claim 22 where R is heteroaryl optionally substituted with 1, 2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
25. The Compound of Claim 1 where R is alkyl optionally substituted with 1,2, or 3 R
groups; or a single stereoisomer or mixture of stereoisomers thereof and optionally
as a pharmaceutically acceptable salt or solvate thereof.
26. The Compound of Claim 25 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
27. The Compound of Claim 25 where R1 is optionally substituted alkyl or cycloalkyl;
or a single stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
28. The Compound of Claim 25 where R1 is optionally substituted alkyl; or a single
stereoisomer or mixture of stereoisomers thereof and optionally as a
pharmaceutically acceptable salt or solvate thereof.
29. The Compound of Claim 25 where R6 is phenyl optionally substituted with 1,2, or 3
R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
30. The Compound of Claim 29 where each R9, when present, is independently aryl,
halo, alkoxy, aryloxy, and haloalkyl; or a single stereoisomer or mixture of
stereoisomers thereof and optionally as a pharmaceutically acceptable salt or solvate
thereof.
-106-

31. The Compound of Claim 29 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
32. The Compound of Claim 25 where R6 is heteroaryl optionally substituted with 1,2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
33. The Compound of Claim 32 where each R9, when present, is independently alkyl,
arylalkyl, cyano, aryl, alkoxycarbonyl, or halo; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
34. The Compound of Claim 25 where R6 is pyrazolyl, imidazolyl, thienyl, thiazolyl,
oxazolyl, isoxazolyl, oxadiazolyl, furanyl, pyrrolyl, triazolyl, or tetrazolyl; each of
which is optionally substituted with 1, 2, or 3 R9 groups; or a single stereoisomer or
mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof.
35. The Compound of Claim 25 where R6 is pyrazol-3-yl, pyrazol-4-yl, pyrazol-5-yl,
imidazol-2-yl, imidazol-4-yl, imidazol-5-yl, thien-2-yl, thien-3-yl, thiazol-2-yl,
thiazol-4-yl, thiazol-5-yl, oxazol-2-yl, oxazol-4-yl, oxazol-5-yl, isoxazol-3-yl,
isoxazol-4-yl, isoxazol-5-yl, l,2,3-oxadiazol-4-yl, l,2,3-oxadiazol-5-yl, 1,3>4-
oxadiazol-2-yl, l,2,4-oxadiazol-3-yl, l,2,4-oxadiazol-5-yl, furan-2-yl, furan-3-yl,
pyrrol-2-yl, pyrrol-3-yl, triazol-4-yl, triazol-5-yl, or tetrazol-5-yl; each of which is
optionally substituted with 1, 2, or 3 R9 groups; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
36. The Compound of Claim 34 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
37. The Compound of Claim 25 where R6 is pyrazinyl, pyrimidinyl, or pyridazinyl each
- of which is optionally substituted with 1, 2, or 3 R9 groups; or a single stereoisomer
or mixture of stereoisomers thereof and optionally as a pharmaceutically acceptable
salt or solvate thereof.
38. The Compound of Claim 37 where R4 is methyl; or a single stereoisomer or mixture
of stereoisomers thereof and optionally as a pharmaceutically acceptable salt or
solvate thereof.
-107-

-108-
39. The Compound of Claim 1 where R2 is hydrogen, R4 is methyl, R1 is optionally
substituted alkyl or cycloalkyl, and R6 is phenyl optionally substituted with 1,2, or 3
R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
40. The Compound of Claim 1 where R2 is hydrogen, R4 is methyl, R1 is optionally
substituted alkyl or cycloalkyl, and R6 is heteroaryl optionally substituted with 1,2,
3,4, or 5 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
41. The Compound of Claim 25 where R1 is heterocycloalkyl or heterocycloalkylalkyl
and R4 is methyl; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
42. The Compound of Claim 41 where R6 is phenyl optionally substituted with 1, 2, or 3
R groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof.
43. The Compound of Claim 41 where R6 is heteroaryl optionally substituted with 1, 2,
or 3 R9 groups; or a single stereoisomer or mixture of stereoisomers thereof and
optionally as a pharmaceutically acceptable salt or solvate thereof,
44. A Compound selected from



-109-


-110-


and optionally as a pharmaceutically acceptable salt or solvate thereof.
-111-


-112-


-113-


and optionally as a pharmaceutically acceptable salt or solvate thereof.
46. A pharmaceutical composition which comprises a compound of Claim 1 or a single
stereoisomer or mixture of stereoisomers thereof, optionally as I 'a
pharmaceutically acceptable salt or solvate thereof, and a pharmaceutically
acceptable carrier, excipient, or diluent.
47. A method for treating a disease, disorder, or syndrome which method comprises
administering to a patient a therapeutically effective amount of a compound of
Claim 1 or a single stereoisomer or mixture of stereoisomers thereof, optionally as
a pharmaceutically acceptable salt or solvate thereof, or administering to a
patient a pharmaceutical composition comprising a compound of Claim 1 or a single
stereoisomer or mixture of stereoisomers thereof, optionally as a pharmaceutically
acceptable salt or solvate thereof, and a pharmaceutically acceptable carrier,
excipient, or diluent.
48. The method of Claim 47 where the disease is cancer.
49. The method of Claim 47 where the cancer is breast cancer, colon cancer, rectal
cancer, endometrial cancer, gastric carcinoma, glioblastoma, hepatocellular
carcinoma, small cell lung cancer, non-small cell lung cancer, melanoma, ovarian
cancer, cervical cancer, pancreatic cancer, prostate carcinoma, acute myelogenous
leukemia (AML), chronic myelogenous leukemia (CML), or thyroid carcinoma.
50. The method of Claim 47 where the cancer is ovarian cancer, cervical cancer, breast
cancer, colon cancer, rectal cancer, or glioblastoma.
-114-

The invention is directed to Compounds of Formula I:
and pharmaceutically acceptable salts or solvates thereof, as well as methods of making and using the compounds.

Documents:

01169-kolnp-2008-abstract.pdf

01169-kolnp-2008-claims.pdf

01169-kolnp-2008-correspondence others.pdf

01169-kolnp-2008-description complete.pdf

01169-kolnp-2008-form 1.pdf

01169-kolnp-2008-form 13.pdf

01169-kolnp-2008-form 3.pdf

01169-kolnp-2008-form 5.pdf

01169-kolnp-2008-international publication.pdf

01169-kolnp-2008-international search report.pdf

01169-kolnp-2008-pct priority document notification.pdf

01169-kolnp-2008-pct request form.pdf

1169-KOLNP-2008-(07-11-2014)-CLAIMS.pdf

1169-KOLNP-2008-(07-11-2014)-CORRESPONDENCE.pdf

1169-KOLNP-2008-(07-11-2014)-FORM-13.pdf

1169-KOLNP-2008-(07-11-2014)-FORM-3.pdf

1169-KOLNP-2008-(07-11-2014)-FORM-5.pdf

1169-KOLNP-2008-(07-11-2014)-PA.pdf

1169-KOLNP-2008-(08-10-2014)-CORRESPONDENCE.pdf

1169-KOLNP-2008-(09-09-2013)-CLAIMS.pdf

1169-KOLNP-2008-(09-09-2013)-CORRESPONDENCE.pdf

1169-KOLNP-2008-(09-09-2013)-FORM-13.pdf

1169-KOLNP-2008-(09-09-2013)-FORM-2.pdf

1169-KOLNP-2008-(09-09-2013)-FORM-3.pdf

1169-KOLNP-2008-(09-09-2013)-OTHERS-1.1.pdf

1169-KOLNP-2008-(09-09-2013)-OTHERS-1.2.pdf

1169-KOLNP-2008-(09-09-2013)-OTHERS.pdf

1169-KOLNP-2008-(09-09-2013)-PETITION UNDER RULE 137-1.1.pdf

1169-KOLNP-2008-(09-09-2013)-PETITION UNDER RULE 137.pdf

1169-KOLNP-2008-(19-03-2008)-FORM 13.pdf

1169-KOLNP-2008-ASSIGNMENT.pdf

1169-KOLNP-2008-CLAIMS-1.1.pdf

1169-KOLNP-2008-CORRESPONDENCE 1.2.pdf

1169-KOLNP-2008-CORRESPONDENCE 1.3.pdf

1169-KOLNP-2008-CORRESPONDENCE-1.1.pdf

1169-KOLNP-2008-FORM 13-1.1.pdf

1169-KOLNP-2008-FORM 18.pdf

1169-KOLNP-2008-FORM 3.1.1.pdf

1169-KOLNP-2008-PA.pdf

abstract-01169-kolnp-2008.jpg


Patent Number 263800
Indian Patent Application Number 1169/KOLNP/2008
PG Journal Number 48/2014
Publication Date 28-Nov-2014
Grant Date 20-Nov-2014
Date of Filing 19-Mar-2008
Name of Patentee EXELIXIS, INC.
Applicant Address 210 EAST GRAND AVENUE, P.O. BOX 511 SOUTH SAN FRANCISCO, CA
Inventors:
# Inventor's Name Inventor's Address
1 WANG YONG 465 BISCAYNE AVENUE, FOSTER CITY, CALIFORNIA 94404 UNITED STATES OF AMERICA
2 LARA KATHERINE 3133 CASA DE CAMPO #211, SAN MATEO, CALIFORNIA 94403
3 MA SUNGHOON 802 SPRUANCE LANE, FOSTER CITY, CALIFORNIA 94404
4 MAC MORRISON B. 2567 30TH AVENUE, SAN FRANCISCO, CA 94116
5 NUSS JOHN M. 16 WOODRANCH CIRCLE, DANVILLE, CALIFORNIA 94506
6 WANG LONGCHENG 4294 WILKIE WAY, APT. L, PALO ALTO, CALIFORNIA 94306
7 WANG YONG 667 CATAMARAN STREET, APT 3, FOSTER CITY, CALIFORNIA 94404
8 YEUNG BRYAN K. S. NOVARTIS INSTITUTE FOR TROPICAL DISEASES, 10 BIOPOLIS ROAD, #05-01 CHROMOS 138670
9 BUHR CHRIS A. 355 BELMONT AVENUE, REDWOOD CITY, CALIFORNIA 94061
PCT International Classification Number C07D 471/04
PCT International Application Number PCT/US2006/039734
PCT International Filing date 2006-10-09
PCT Conventions:
# PCT Application Number Date of Convention Priority Country
1 60/743719 2006-03-23 U.S.A.
2 60/724571 2005-10-07 U.S.A.