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Definitions

• nucleoside phosphoramidates and their use as agents for treating viral diseases. These compounds are inhibitors of RNA-dependent RNA viral replication and are useful as inhibitors of HCV NS5B polymerase, as inhibitors of HCV replication and for treatment of hepatitis C infection in mammals.
• HCV infection is a major health problem that leads to chronic liver disease, such as cirrhosis and hepatocellular carcinoma, in a substantial number of infected individuals, estimated to be 2-15% of the world's population.
• chronic liver disease such as cirrhosis and hepatocellular carcinoma
• World Health Organization there are more than 200 million infected individuals worldwide, with at least 3 to 4 million people being infected each year. Once infected, about 20% of people clear the virus, but the rest can harbor HCV the rest of their lives.
• Ten to twenty percent of chronically infected individuals eventually develop liver-destroying cirrhosis or cancer.
• the viral disease is transmitted parenterally by contaminated blood and blood products, contaminated needles, or sexually and vertically from infected mothers or carrier mothers to their offspring.
• Current treatments for HCV infection which are restricted to immunotherapy with recombinant interferon- ⁇ alone or in combination with the nucleoside analog ribavirin, are of limited clinical benefit.
• the HCV virion is an enveloped positive-strand RNA virus with a single oligoribonucleotide genomic sequence of about 9600 bases which encodes a polyprotein of about 3,010 amino acids.
• the protein products of the HCV gene consist of the structural proteins C, El, and E2, and the non-structural proteins NS2, NS3, NS4A and NS4B, and NS5A and NS5B.
• the nonstructural (NS) proteins are believed to provide the catalytic machinery for viral replication.
• the NS3 protease releases NS5B, the RNA-dependent RNA polymerase from the polyprotein chain.
• HCV NS5B polymerase is required for the synthesis of a double-stranded RNA from a single-stranded viral RNA that serves as a template in the replication cycle of HCV. Therefore, NS5B polymerase is considered to be an essential component in the HCV replication complex (K. Ishi, et al, Heptology, 1999, 29: 1227-1235; V. Lohmann, et al., Virology, 1998, 249: 108-118). Inhibition of HCV NS5B polymerase prevents formation of the double-stranded HCV RNA and therefore constitutes an attractive approach to the development of HCV-specific antiviral therapies.
• Flaviviridae Viruses The Flaviviridae family of viruses comprises at least three distinct genera: pestiviruses, which cause disease in cattle and pigs; flavivruses, which are the primary cause of diseases such as dengue fever and yellow fever; and hepaciviruses, whose sole member is HCV.
• the flavivirus genus includes more than 68 members separated into groups on the basis of serological relatedness (Calisher et al., J. Gen. Virol, 1993,70,37-43). Clinical symptoms vary and include fever, encephalitis and hemorrhagic fever ⁇ Fields Virology, Editors: Fields, B. N., Knipe, D.
• Flaviviruses of global concern that are associated with human disease include the Dengue Hemorrhagic Fever viruses (DHF), yellow fever virus, shock syndrome and Japanese encephalitis virus (Halstead, S. B., Rev. Infect. Dis., 1984, 6, 251-264;
• the pestivirus genus includes bovine viral diarrhea virus (BVDV), classical swine fever virus (CSFV, also called hog cholera virus) and border disease virus (BDV) of sheep (Moennig, V. et al. Adv. Vir. Res. 1992, 41, 53-98). Pestivirus infections of domesticated livestock (cattle, pigs and sheep) cause significant economic losses worldwide. BVDV causes mucosal disease in cattle and is of significant economic importance to the livestock industry (Meyers, G. and Thiel, HJ. , Advances in Virus Research, 1996, 47, 53-118; Moennig V., et al, Adv. Vir. Res. 1992, 41, 53-98). Human pestiviruses have not been as extensively characterized as the animal pestiviruses. However, serological surveys indicate considerable pestivirus exposure in humans.
• BVDV bovine viral diarrhea virus
• CSFV classical swine fever virus
• BDV border disease virus
• Pestiviruses and hepaciviruses are closely related virus groups within the Flaviviridae family.
• Other closely related viruses in this family include the GB virus A, GB virus A-like agents, GB virus-B and GB virus-C (also called hepatitis G virus, HGV).
• the hepacivirus group (hepatitis C virus; HCV) consists of a number of closely related but genotypically distinguishable viruses that infect humans. There are at least 6 HCV genotypes and more than 50 subtypes.
• bovine viral diarrhea virus Due to the similarities between pestiviruses and hepaciviruses, combined with the poor ability of hepaciviruses to grow efficiently in cell culture, bovine viral diarrhea virus (BVDV) is often used as a surrogate to study the HCV virus.
• BVDV bovine viral diarrhea virus
• RNA viruses possess a single large open reading frame (ORF) encoding all the viral proteins necessary for virus replication. These proteins are expressed as a polyprotein that is co- and post-translationally processed by both cellular and virus-encoded proteinases to yield the mature viral proteins.
• the viral proteins responsible for the replication of the viral genome RNA are located within approximately the carboxy-terminal. Two-thirds of the ORF are termed nonstructural (NS) proteins.
• NS nonstructural
• the mature nonstructural (NS) proteins in sequential order from the amino-terminus of the nonstructural protein coding region to the carboxy-terminus of the ORF, consist of p7, NS2, NS3, NS4A, NS4B, NS5A, and NS5B.
• the NS proteins of pestiviruses and hepaciviruses share sequence domains that are characteristic of specific protein functions.
• the NS3 proteins of viruses in both groups possess amino acid sequence motifs characteristic of serine proteinases and of helicases (Gorbalenya et al., Nature, 1988, 333, 22; Bazan and Fletterick Virology, 1989, 171, 637-639; Gorbalenya et al., Nucleic Acid Res., 1989, 17, 3889-3897).
• the NS5B proteins of pestiviruses and hepaciviruses have the motifs characteristic of RNA-directed RNA polymerases (Koonin, E.V. and Dolja, V.V., Crir.
• the NS4A protein acts as a cofactor with the NS3 serine protease (Bartenschlager et al., J. Virol. 1994, 68, 5045-5055; Failla et al., J. Virol. 1994, 68, 3753-3760; Xu et al., J.
• NS3 protein of both viruses also functions as a helicase (Kim et al., Biochem. Biophys. Res. Comm., 1995, 215, 160-166; Jin and Peterson, Arch. Biochem. Biophys., 1995, 323, 47-53; Warrener and Collett, J. Virol. 1995, 69,1720-1726).
• the NS5B proteins of pestiviruses and hepaciviruses have the predicted RNA-directed RNA polymerases activity (Behrens et al., EMBO, 1996, 15, 12-22; Lechmann et al., J.
• RNA-dependent RNA polymerase is absolutely essential for replication of the single-stranded, positive sense, RNA genome and this enzyme has elicited significant interest among medicinal chemists.
• Inhibitors of HCV NS5B as potential therapies for HCV infection have been reviewed: Tan, S.-L., et al., Nature Rev. DrugDiscov., 2002, 1, 867-881; Walker, M.P. et al., Exp. Opin. Investigational Drugs, 2003, 12, 1269-1280; Ni, Z-J., et al., Current Opinion in Drug Discovery and Development, 2004, 7, 446-459; Beaulieu, P.
• Nucleoside inhibitors of NS5B polymerase can act either as a non-natural substrate that results in chain termination or as a competitive inhibitor which competes with nucleotide binding to the polymerase.
• the nucleoside analog must be taken up by the cell and converted in vivo to a triphosphate to compete for the polymerase nucleotide binding site. This conversion to the triphosphate is commonly mediated by cellular kinases which imparts additional structural requirements on a potential nucleoside polymerase inhibitor. Unfortunately, this limits the direct evaluation of nucleosides as inhibitors of HCV replication to cell-based assays capable of in situ phosphorylation.
• nucleoside phosphoramidate prodrugs have been shown to be precursors of the active nucleoside triphosphate and to inhibit viral replication when administered to viral infected whole cells (McGuigan, C, et al., J. Med.
• nucleosides are also limiting the utility of nucleosides as viable therapeutic agents. These poor properties can limit the intestinal absorption of an agent and limit uptake into the target tissue or cell.
• prodrugs of nucleosides have been employed. It has been demonstrated that preparation of nucleoside phosphoramidates improves the systemic absorption of a nucleoside and furthermore, the phosphoramidate moiety of these "pronucleotides" is masked with neutral lipophilic groups to obtain a suitable partition coefficient to optimize uptake and transport into the cell dramatically enhancing the intracellular concentration of the nucleoside monophosphate analog relative to administering the parent nucleoside alone.
• Figure 2OA X-Ray Crystal Structure for 8 (Sp-isomer) (molecule no. 1 of the asymmetric unit).
• Figure 2OB X-Ray Crystal Structure for 8 (Sp-isomer) (molecule no. 2 of the asymmetric unit).
• a or “an” entity refers to one or more of that entity; for example, a compound refers to one or more compounds or at least one compound.
• a compound refers to one or more compounds or at least one compound.
• the terms “a” (or “an”), “one or more”, and “at least one” can be used interchangeably herein.
• P* means that the phosphorus atom is chiral and that it has a corresponding Cahn-Ingold-Prelog designation of "R” or “S” which have their accepted plain meanings.
• purified refers to the purity of a given compound. For example, a compound is “purified” when the given compound is a major component of the composition, i.e., at least 50% w/w pure.
• purified embraces at least 50% w/w purity, at least 60% w/w purity, at least 70% purity, at least 80% purity, at least 85% purity, at least 90% purity, at least 92% purity, at least 94% purity, at least 96% purity, at least 97% purity, at least 98% purity, at least 99% purity, at least 99.5% purity, and at least 99.9% purity, wherein “substantially pure” embraces at least 97% purity, at least 98% purity, at least 99% purity, at least 99.5% purity, and at least 99.9% purity
• metabolite refers to a compound produced in vivo after administration to a subject in need thereof.
• a specified XRPD pattern means that the peak positions shown in the XRPD pattern are substantially the same, within visual inspection or resort to selected peak listings ( ⁇ 0.2 °2 ⁇ ).
• the intensities can vary depending on the sample.
• substantially anhydrous means that a substance contains at most 10% by weight of water, preferably at most 1% by weight of water, more preferably at most 0.5% by weight of water, and most preferably at most 0.1% by weight of water.
• a solvent or anti-solvent (as used in reactions, crystallization, etc. or lattice and/or adsorbed solvents) includes at least one of a Ci to C 8 alcohol, a C 2 to C 8 ether, a C 3 to C 7 ketone, a C 3 to C 7 ester, a C 1 to C 2 chlorocarbon, a C 2 to C 7 nitrile, a miscellaneous solvent, a C 5 to Ci 2 saturated hydrocarbon, and a C 6 to C 12 aromatic hydrocarbon.
• the Ci to C 8 alcohol refers to a straight/branched and/or cyclic/acyclic alcohol having such number of carbons.
• the Ci to C 8 alcohol includes, but is not limited to, methanol, ethanol, n-propanol, isopropanol, isobutanol, hexanol, and cyclohexanol.
• the C 2 to C 8 ether refers to a straight/branched and/or cyclic/acyclic ether having such number of carbons.
• the C 2 to C 8 ether includes, but is not limited to, dimethyl ether, diethyl ether, di-isopropyl ether, di-n-butyl ether, methyl-t-butyl ether (MTBE), tetrahydrofuran, and dioxane
• the C 3 to C 7 ketone refers to a straight/branched and/or cyclic/acyclic ketone having such number of carbons.
• the C 3 to C 7 ketone includes, but is not limited to, acetone, methyl ethyl ketone, propanone, butanone, methyl isobutyl ketone, methyl butyl ketone, and cyclohexanone.
• the C 3 to C 7 ester refers to a straight/branched and/or cyclic/acyclic ester having such number of carbons.
• the C 3 to C 7 ester includes, but is not limited to, ethyl acetate, propyl acetate, n-butyl acetate, etc.
• the Ci to C 2 chlorocarbon refers to a chlorocarbon having such number of carbons.
• the Ci to C 2 chlorocarbon includes, but is not limited to, chloroform, methylene chloride (DCM), carbon tetrachloride, 1,2-dichloroethane, and tetrachloroethane.
• a C 2 to C 7 nitrile refers to a nitrile have such number of carbons.
• the C 2 to C 7 nitrile includes, but is not limited to, acetonitrile, propionitrile, etc.
• a miscellaneous solvent refers to a solvent commonly employed in organic chemistry, which includes, but is not limited to, diethylene glycol, diglyme (diethylene glycol dimethyl ether), 1,2-dimethoxy-ethane, dimethylformamide, dimethylsulfoxide, ethylene glycol, glycerin, hexamethylphsphoramide, hexamethylphosphorous triame, N-methyl-2-pyrrolidinone, nitromethane, pyridine, triethyl amine, and acetic acid.
• the term C 5 to C 12 saturated hydrocarbon refers to a straight/branched and/or cyclic/acyclic hydrocarbon.
• the C 5 to C 12 saturated hydrocarbon includes, but is not limited to, n-pentane, petroleum ether (ligroine), n-hexane, n-heptane, cyclohexane, and cycloheptane.
• C 6 to C 12 aromatic refers to substituted and unsubstituted hydrocarbons having a phenyl group as their backbone.
• Preferred hydrocarbons include benzene, xylene, toluene, chlorobenzene, o-xylene, m-xylene, p-xylene, xylenes, with toluene being more preferred.
• halo or halogen as used herein, includes chloro, bromo, iodo and fluoro.
• blocking group refers to a chemical group which exhibits the following characteristics.
• the “group” is derived from a "protecting compound.” Groups that are selective for primary hydroxyls over secondary hydroxyls that can be put on under conditions consistent with the stability of the phosphoramidate (pH 2-8) and impart on the resulting product substantially different physical properties allowing for an easier separation of the 3'-phosphoramidate-5'-new group product from the unreacted desired compound. The group must react selectively in good yield to give a protected substrate that is stable to the projected reactions (see Protective Groups in Organic Synthesis, 3 nd ed. T. W. Greene and P. G. M. Wuts, John Wiley & Sons, New York, N. Y., 1999).
• groups include, but are not limited to: benzoyl, acetyl, phenyl-substituted benzoyl, tetrahydropyranyl, trityl, DMT (4,4'- dimethoxytrityl), MMT (4-monomethoxytrityl), trimethoxytrityl, pixyl (9- phenylxanthen-9-yl) group, thiopixyl (9-phenylthioxanthen-9-yl) or 9-(p- methoxyphenyl)xanthine-9-yl (MOX), etc.; C(O)-alkyl, C(O)Ph, C(O)aryl, CH 2 O- alkyl, CH 2 O-aryl, SO 2 -alkyl, SO 2 -aryl, tert-butyldimethylsilyl, tert-butyldiphenylsilyl.
• Acetals such as MOM or THP and the like are considered possible groups. Fluorinated compounds are also contemplated in so far that they can be attached to the compound and can be selectively removed by passing through a fluorous solid phase extraction media (FluoroFlash ® ).
• a specific example includes a fluorinated trityl analog, trityl analog l-[4-(lH,lH,2H,2H-perfluorodecyl)phenyl)-l,l- diphenylmethanol.
• fluorinated analogs of trityl, BOC, FMOC, CBz, etc. are also contemplated.
• Sulfonyl chlorides like p-toluenesulfonyl chloride can react selectively on the 5' position.
• Esters could be formed selectively such as acetates and benzoates.
• Dicarboxylic anhydrides such as succinic anhydride and its derivatives can be used to generate an ester linkage with a free carboxylic acid, such examples include, but are not limited to oxalyl, malonyl, succinyl, glutaryl, adipyl, pimelyl, superyl, azelayl, sebacyl, phthalyl, isophthalyl, terephthalyl, etc.
• the free carboxylic acid increases the polarity dramatically and can also be used as a handle to extract the reaction product into mildy basic aqueous phases such as sodium bicarbonate solutions.
• the phosphoramidate group is relatively stable in acidic media, so groups requiring acidic reaction conditions, such as, tetrahydropyranyl, could also be used.
• protecting group which is derived from a “protecting compound,” has its plain and ordinary meaning, i.e., at least one protecting or blocking group is bound to at least one functional group (e.g., -OH, -NH 2 , etc.) that allows chemical modification of at least one other functional group.
• at least one protecting or blocking group is bound to at least one functional group (e.g., -OH, -NH 2 , etc.) that allows chemical modification of at least one other functional group.
• protecting groups include, but are not limited to, benzoyl, acetyl, phenyl-substituted benzoyl, tetrahydropyranyl, trityl, DMT (4,4'-dimethoxytrityl), MMT (4-monomethoxytrityl), trimethoxytrityl, pixyl (9-phenylxanthen-9-yl) group, thiopixyl (9-phenylthioxanthen- 9-yl) or 9-(p-methoxyphenyl)xanthine-9-yl (MOX), etc. ; C(O)-alkyl, C(O)Ph,
• C(O)aryl, C(O)O(lower alkyl), C(O)O(lower alkylene)aryl e.g., -C(O)OCH 2 Ph
• protecting compound refers to a compound that contains a “protecting group” and that is capable of reacting with a compound that contains functional groups that are capable of being protected.
• protecting group has the same meaning to the skilled artisan (Advanced Organic Chemistry: reactions, mechanisms and structure-Fourth Edition by Jerry March, John Wiley and Sons Ed.; 1992 pages 351-357) and represents a group which is part of and attached to a substrate molecule; in a reaction where the substrate molecule undergoes a displacement reaction (with for example a nucleophile), the leaving group is then displaced.
• leaving groups include, but are not limited to: halogen (F, Cl, Br, and I), preferably Cl, Br, or I; tosylate, mesylate, trifiate, acetate, camphorsulfonate, aryloxide, and aryloxide substituted with at least one electron withdrawing group (e.g., p-nitrophenoxide, 2- chlorophenoxide, 4-chlorophenoxide, 2,4-dinitrophenoxide, pentafluorophenoxide, etc.), etc.
• electron withdrawing group is accorded its plain meaning here.
• electron withdrawing groups include, but are not limited to, a halogen, - NO2, -C(O)(lower alkyl), -C(O)(aryl), -C(O)O(lower alkyl), -C(O)O(aryl), etc.
• basic reagent means a compound that is capable of deprotonating a hydroxyl group.
• Examples of basic reagents include, but are not limited to, a (lower alk)oxide ((lower alkyl)OM) in combination with an alcoholic solvent, where (lower alk)oxides include, but are not limited to, MeO “ , EtO “ , “PrO “ , 1 PrO “ , 'BuO " , ! Am0- (iso-amyloxide), etc., and where M is an alkali metal cation, such as Li + , Na + , K + , etc.
• Alcoholic solvents include (lower alkyl)OH, such as, for example, MeOH, EtOH, "PrOH, 'PrOH, 'BuOH, 1 AmOH, etc.
• Non-alkoxy bases can also be used such as sodium hydride, sodium hexamethyldisilazane, lithium hexamethyldisilazane, lithium diisopropylamide, calcium hydride, sodium carbonate, potassium carbonate, cesium carbonate, DBU, DBN, Grignard reagents, such as (lower alkyl)Mg(halogen), which include but are not limited to MeMgCl, MeMgBr, 'BuMgCl, 'BuMgBr, etc.
• base embraces the term “basic reagent” and is meant to be a compound that is capable of deprotonating a proton containing compound, i.e., a Bronsted base, hi addition to the examples recited above, further examples of a base include, but are not limited to pyridine, collidine, 2,6-(loweralkyl)-pyridine, dimethyl- aniline, imidazole, N-methyl-imidazole, pyrazole, N-methyl-pyrazole, triethylamine, di-isopropylethylamine, etc.
• electron withdrawing group is accorded its plain meaning.
• electron withdrawing groups include, but are not limited to, a halogen (F, Cl, Br, or I), -NO 2 , -C(O)(lower alkyl), -C(O)(aryl), -C(O)O(lower alkyl), - C(O)O(aryl), etc.
• co-crystallates include co-crystallates of 4, i?p-4, or S ⁇ -4 in combination with salts, which embraces pharmaceutically acceptable salts.
• salts refers to a compound comprising a cation and an anion, which can produced by the protonation of a proton-accepting moiety and/or deprotonation of a proton-donating moiety. It should be noted that protonation of the proton-accepting moiety results in the formation of a cationic species in which the charge is balanced by the presence of a physiological anion, whereas deprotonation of the proton-donating moiety results in the formation of an anionic species in which the charge is balanced by the presence of a physiological cation.
• pharmaceutically acceptable salt means a salt that is pharmaceutically acceptable.
• Examples of pharmaceutically acceptable salts include, but are not limited to: (1) acid addition salts, formed with inorganic acids such as hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, phosphoric acid, and the like; or formed with organic acids such as glycolic acid, pyruvic acid, lactic acid, malonic acid, malic acid, maleic acid, fumaric acid, tartaric acid, citric acid, 3-(4- hydroxybenzoyl)benzoic acid, cinnamic acid, mandelic acid, methanesulfonic acid, ethanesulfonic acid, 1,2-ethane-disulfonic acid, 2-hydroxyethanesulfonic acid, benzenesulfonic acid, 4-chlorobenzenesulfonic acid, 2-naphthalenesulfonic acid, 4- toluenesulfonic acid, camphorsulfonic acid, lauryl sulfuric acid, gluconic acid, glutamic acid, salicylic
• alkyl refers to an unbranched or branched chain, saturated, monovalent hydrocarbon residue containing 1 to 30 carbon atoms.
• C 1-M alkyl refers to an alkyl comprising 1 to M carbon atoms, where M is an integer having the following values: 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, or 30.
• C 1-4 alkyl refers to an alkyl containing 1 to 4 carbon atoms.
• lower alkyl denotes a straight or branched chain hydrocarbon residue comprising 1 to 6 carbon atoms.
• C 1-20 alkyl refers to an alkyl comprising 1 to 20 carbon atoms.
• Cr 10 alkyl refers to an alkyl comprising 1 to 10 carbons.
• alkyl groups include, but are not limited to, lower alkyl groups include methyl, ethyl, propyl, i- propyl, n-butyl, z-butyl, t-butyl or pentyl, isopentyl, neopentyl, hexyl, heptyl, and octyl.
• the term (ar)alkyl or (heteroaryl)alkyl indicate the alkyl group is optionally substituted by an aryl or a heteroaryl group respectively.
• alkenyl refers to an unsubstituted hydrocarbon chain radical having from 2 to 10 carbon atoms having one or two olefinic double bonds, preferably one olefinic double bond.
• C 2-N alkenyl refers to an alkenyl comprising 2 to N carbon atoms, where N is an integer having the following values: 3, 4, 5, 6, 7, 8, 9, or 10.
• C 2 - 10 alkenyl refers to an alkenyl comprising 2 to 10 carbon atoms.
• C 2-4 alkenyl refers to an alkenyl comprising 2 to 4 carbon atoms.
• aryl refers to substituted or unsubstituted phenyl (Ph), biphenyl, or naphthyl, preferably the term aryl refers to substituted or unsubstituted phenyl.
• the aryl group can be substituted with one or more moieties selected from among hydroxyl, F, Cl, Br, I, amino, alkylamino, arylamino, alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid, phosphate, and phosphonate, either unprotected, or protected as necessary, as known to those skilled in the art, for example, as taught in T.W. Greene and P. G. M. Wuts, "Protective Groups in Organic Synthesis," 3rd ed., John Wiley & Sons, 1999.
• aryloxide refers to substituted or unsubstituted phenoxide (PhO-), p-phenyl-phenoxide (p-Ph-PhO-), or naphthoxide, preferably the term aryloxide refers to substituted or unsubstituted phenoxide.
• the aryloxide group can be substituted with one or more moieties selected from among hydroxyl, F, Cl, Br, I, -C(O)(lower alkyl), -C(O)O(lower alkyl), amino, alkylamino, arylamino, alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid, phosphate, and phosphonate, either unprotected, or protected as necessary, as known to those skilled in the art, for example, as taught in T.W. Greene and P. G. M. Wuts, "Protective Groups in Organic Synthesis," 3rd ed., John Wiley & Sons, 1999.
• preparation or “dosage form” is intended to include both solid and liquid formulations of the active compound and one skilled in the art will appreciate that an active ingredient can exist in different preparations depending on the desired dose and pharmacokinetic parameters.
• excipient refers to a compound that is used to prepare a pharmaceutical composition, and is generally safe, non-toxic and neither biologically nor otherwise undesirable, and includes excipients that are acceptable for veterinary use as well as human pharmaceutical use.
• crystalline refers to a situation where a solid sample of either Sp-4 or i?p-4 has crystalline characteristics when determined by X-ray powder diffraction or a single crystal X-ray technique.
• crystal-like refers to a situation where a solid sample of either Sp-4 or i?p-4 has crystalline characteristics when determined by one means, e.g., visually or by optical or polarizing microscopy, but does not have crystalline characteristics when determined by another means, e.g., x-ray powder diffraction.
• a first embodiment is directed to a compound represented by formula 4:
• the compound represented by formula 4 comprises two diastereomers designated as i?p-4 and 5p-4.
• the compound represented by formula 4 can also be part of a solvate, a hydrate, or a mixed solvate/hydrate.
• the solvate is designated as 4-nS, while the hydrate is designated as 4-mH 2 O, where S is a lattice solvent, n varies by an integer or non-integer amount from about 0 to about 3 and m varies by an integer or non-integer amount from about 0 to about 5.
• the compound represented by formula 4 might not exist as a solvate or hydrate, but have a certain advantageous amount of adsorbed solvent (S) or water, hi which case, the amount of S or water can vary from about 0 wt. % to about 10 wt.% based on the weight of the compound represented by formula 4.
• S adsorbed solvent
• the compound represented by formula 4 and its solvates and hydrates thereof is crystalline, crystal-like, or amorphous.
• a second embodiment is directed to a compound represented by formula i?p-4: i?p-4
• the compound represented by formula i?p-4 can also be part of a solvate, a hydrate, or a mixed solvate/hydrate.
• the solvate is designated as Rp-4- ⁇ S
• the hydrate is designated as ⁇ Sp-4-mH 2 O, where S is a lattice solvent
• n varies by an integer or non-integer amount from about O to about 3
• m varies by an integer or non- integer amount from about O to about 5.
• the compound represented by formula Rp-4 might not exist as a solvate, hydrate, or mixed solvate/hydrate, but have a certain advantageous amount of adsorbed solvent (S), water, or both S and water, hi which case, the amount of S or water can vary from about O wt. % to about 10 wt.% based on the weight of the compound represented by formula Rp-4.
• the compound represented by formula Rp-4 and its solvates and hydrates thereof is crystalline, crystal-like, or amorphous.
• a first aspect of the second embodiment is directed to crystalline Rp-4.
• a second aspect of the second embodiment is directed to crystalline Rp-4 having XRPD 20-reflections (°) at about: 6.6, 7.1, 9.0, 11.6, 17.9, 20.7, 24.1, 24.4, and 26.2.
• a third aspect of the second embodiment is directed to a crystalline Rp-4 having XRPD 20-reflections (°) at about: 6.6, 7.1, 9.0, 11.0, 11.6, 12.0, 16.0, 17.9, 19.6, 20.7, 21.0, 21.7, 21.9, 22.2, 23.1, 24.1, 24.4, 26.1, 27.3, 27.7, and 28.2.
• a fourth aspect of the second embodiment is directed to crystalline Rp-4 having an XRPD diffraction pattern substantially as that shown in Fig. 2.
• a fifth aspect of the second embodiment is directed to Rp-4 having the following FT-IR peaks (cm "1 ): 1742, 1713, 1679, 1460, 1377, 1259, 1157, and 1079.
• a sixth aspect of the second embodiment is directed to Rp-4 having an FT-IR spectrum substantially as that shown in Fig. 15.
• a seventh aspect of the second embodiment is directed to substantially pure RP-4.
• An eighth aspect of the second embodiment is directed to substantially pure crystalline Rp-4.
• a ninth aspect of the second embodiment is directed to substantially pure amorphous Rp-4.
• a third embodiment is directed to a compound represented by formula Sp-4:
• the compound represented by formula 5p-4 can also be part of a solvate, a hydrate, or a mixed solvate/hydrate.
• the solvate is designated as S P -4- ⁇ S
• the hydrate is designated as 5p-4 -HiH 2 O, where S is a lattice solvent, n varies in an integer or non-integer amount from about O to about 3 and m varies in an integer or non- integer amount from about O to about 5.
• the compound represented by formula Sp-4 might not exist as a solvate or hydrate, but have a certain advantageous amount of adsorbed solvent (S) or water. In which case, the amount of S or water can vary from about O wt.
• a first aspect of the third embodiment is directed to crystalline Sp-4.
• a second aspect of the third embodiment is directed to a monoclinic crystalline Sp-4, preferably having the following unit cell parameters a ⁇ 12.88 A, b ⁇ 6.17 A, c ⁇ 17.73 A, and ⁇ ⁇ 92.05°.
• a third aspect of the third embodiment is directed to a monoclinic crystalline Sp-4, preferably having the following unit cell parameters a ⁇ 20.09 A, b ⁇ 6.10 A, c ⁇ 23.01 A, and ⁇ ⁇ 112.29°.
• a fourth aspect of the third embodiment is directed to a monoclinic crystalline 5p-4, preferably having the following unit cell parameters a ⁇ 12.83 A, b ⁇ 6.15 A, c ⁇ 17.63 A, and ⁇ ⁇ 91.75°.
• a fifth aspect of the third embodiment is directed to a monoclinic crystalline 5p-4, preferably having the following unit cell parameters a ⁇ 12.83 A, b ⁇ 6.15 A, c ⁇ 17.63 A, and ⁇ ⁇ 91.75°.
• a fifth aspect of the third embodiment is directed to a monoclinic crystalline
• a sixth aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 5.2, 7.5, 9.6, 16.7, 18.3, 22.2.
• a seventh aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 5.0, 7.3, 9.4, and 18.1.
• An eighth aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 4.9, 6.9, 9.8, 19.8, 20.6, 24.7, and 26.1.
• a ninth aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 6.9, 9.8, 19.7, 20.6, and 24.6.
• a ninth aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 5.0, 6.8, 19.9, 20.6, 20.9, and 24.9.
• a tenth aspect of the third embodiment is directed to a crystalline Sp-4 having XRPD 20-reflections (°) at about: 5.2, 6.6, 7.1, 15.7, 19.1, and 25.0.
• An eleventh aspect of the third embodiment is directed to crystalline Sp-4 having an XRPD diffraction pattern substantially as that shown in any one of Fig. 3, Fig. 4, Fig. 5, Fig. 6, Fig. 7, and Fig. 8.
• a twelfth aspect of the third embodiment is directed to Sp-4 having the following FT-IR peaks (cm "1 ) at about: 1743, 1713, 1688, 1454, 1378, 1208, and 1082.
• a thirteenth aspect of the third embodiment is directed to Sp-4 having an FT- IR spectrum substantially as that shown in Fig. 7.
• a fourteenth aspect of the third embodiment is directed to substantially pure Sp-4.
• a fifteenth aspect of the third embodiment is directed to substantially pure crystalline Sp-4.
• a sixteenth aspect of the third embodiment is directed to substantially pure amorphous Sp-4.
• a fourth embodiment is directed to a composition for the treatment and/or prophylaxis of any of the viral agents using any of compounds 4, Rp-4, or Sp-4.
• Possible viral agents include, but are not limited to: hepatitis C virus, hepatitis B virus, Hepatitis A virus, West Nile virus, yellow fever virus, dengue virus, rhinovirus, polio virus, bovine viral diarrhea virus, Japanese encephalitis virus, or those viruses belonging to the groups of Pestiviruses, hepaciviruses, or flavaviruses.
• An aspect of this embodiment is directed to a composition for the treatment of any of the viral agents disclosed herein said composition comprising a pharmaceutically acceptable medium selected from among an excipient, carrier, diluent, and equivalent medium and any of compounds 4, i?p-4, or 5p-4, that is intended to include its hydrates, solvates, and any crystalline forms of any of compounds 4, i?p-4, or Sp-4 or its hydrates and solvates thereof.
• a pharmaceutically acceptable medium selected from among an excipient, carrier, diluent, and equivalent medium and any of compounds 4, i?p-4, or 5p-4, that is intended to include its hydrates, solvates, and any crystalline forms of any of compounds 4, i?p-4, or Sp-4 or its hydrates and solvates thereof.
• the compounds 4, i?p-4, or ⁇ Sp-4 may be independently formulated in a wide variety of oral administration dosage forms and carriers.
• Oral administration can be in the form of tablets, coated tablets, hard and soft gelatin capsules, solutions, emulsions, syrups, or suspensions.
• the compounds 4, i?p-4, or Sp-4 are efficacious when administered by suppository administration, among other routes of administration.
• the most convenient manner of administration is generally oral using a convenient daily dosing regimen which can be adjusted according to the severity of the disease and the patient's response to the antiviral medication.
• the compounds 4, i?p-4, or Sp-4 together with one or more conventional excipients, carriers, or diluents, may be placed into the form of pharmaceutical compositions and unit dosages.
• the pharmaceutical compositions and unit dosage forms maybe comprised of conventional ingredients in conventional proportions, with or without additional active compounds and the unit dosage forms may contain any suitable effective amount of the active ingredient commensurate with the intended daily dosage range to be employed.
• the pharmaceutical compositions may be employed as solids, such as tablets or filled capsules, semisolids, powders, sustained release formulations, or liquids such as suspensions, emulsions, or filled capsules for oral use; or in the form of suppositories for rectal or vaginal administration.
• a typical preparation will contain from about 5% to about 95% active compound or compounds (w/w).
• the compounds 4, R ? -4, or Sp-4 can be administered alone but will generally be administered in admixture with one or more suitable pharmaceutical excipients, diluents or carriers selected with regard to the intended route of administration and standard pharmaceutical practice.
• Solid form preparations include, for example, powders, tablets, pills, capsules, suppositories, and dispersible granules.
• a solid carrier may be one or more substances which may also act as diluents, flavoring agents, solubilizers, lubricants, suspending agents, binders, preservatives, tablet disintegrating agents, or an encapsulating material.
• the carrier In powders, the carrier generally is a finely divided solid which is a mixture with the finely divided active component, hi tablets, the active component generally is mixed with the carrier having the necessary binding capacity in suitable proportions and compacted in the shape and size desired.
• Suitable carriers include but are not limited to magnesium carbonate, magnesium stearate, talc, sugar, lactose, pectin, dextrin, starch, gelatin, tragacanth, methylcellulose, sodium carboxymethylcellulose, a low melting wax, cocoa butter, and the like.
• Solid form preparations may contain, in addition to the active component, colorants, flavors, stabilizers, buffers, artificial and natural sweeteners, dispersants, thickeners, solubilizing agents, and the like.
• Liquid formulations also are suitable for oral administration include liquid formulation including emulsions, syrups, elixirs and aqueous suspensions. These include solid form preparations which are intended to be converted to liquid form preparations shortly before use. Examples of liquid formulation are exemplified in U.S. Patent Nos. 3,994,974; 5,695,784; and 6,977,257.
• Emulsions may be prepared in solutions, for example, in aqueous propylene glycol solutions or may contain emulsifying agents such as lecithin, sorbitan monooleate, or acacia.
• Aqueous suspensions can be prepared by dispersing the finely divided active component in water with viscous material, such as natural or synthetic gums, resins, methylcellulose, sodium carboxymethylcellulose, and other well known suspending agents.
• the compounds 4, i?p-4, or S ? -4 may be independently formulated for administration as suppositories.
• a low melting wax such as a mixture of fatty acid glycerides or cocoa butter is first melted and the active component is dispersed homogeneously, for example, by stirring. The molten homogeneous mixture is then poured into convenient sized molds, allowed to cool, and to solidify.
• the compounds 4, i?p-4, or Sp-4 may be independently formulated for vaginal administration. Pessaries, tampons, creams, gels, pastes, foams or sprays containing in addition to the active ingredient such carriers as are known in the art to be appropriate. Certain of these formulations may also be used in conjunction with a condom with or without a spermicidal agent.
• the purified compounds 4, Rp-4, or 5p-4 may be independently formulated in conjunction with liposomes or micelles.
• liposomes it is contemplated that the purified compounds can be formulated in a manner as disclosed in U.S. Patent Nos. 4,797,285; 5,013,556; 5,077,056; 5,077,057; 5,154,930;
• the fifth embodiment is directed to a use of any of compounds 4, Rp-4, or ⁇ Sp-4 in the manufacture of a medicament for the treatment of any condition the result of an infection by any one of the following viral agents: hepatitis C virus, West Nile virus, yellow fever virus, degue virus, rhinovirus, polio virus, hepatitis A virus, bovine viral diarrhea virus and Japanese encephalitis virus.
• the term "medicament” means a substance used in a method of treatment and/or prophylaxis of a subject in need thereof, wherein the substance includes, but is not limited to, a composition, a formulation, a dosage form, and the like, comprising any of compounds 4, i?p-4, or £p-4. It is contemplated that the use of any of compounds 4, i?p-4, or ⁇ Sp-4 in the manufacture of a medicament, for the treatment of any of the antiviral conditions disclosed herein, either alone or in combination with another compound disclosed herein.
• a medicament includes, but is not limited to, any one of the compositions contemplated by the fourth embodiment disclosed herein.
• a sixth embodiment is directed to a method of treatment and/or prophylaxis in a subject in need thereof said method comprises administering a therapeutically effective amount of any of compounds 4, i?p-4, or Sp-4 to the subject.
• a subject in need thereof is one that has any condition the result of an infection by any of the viral agents disclosed herein, which includes, but is not limited to, hepatitis C virus, West Nile virus, yellow fever virus, degue virus, rhinovirus, polio virus, hepatitis A virus, bovine viral diarrhea virus or Japanese encephalitis virus, flaviviridae viruses or pestiviruses or hepaciviruses or a viral agent causing symptoms equivalent or comparable to any of the above-listed viruses.
• the viral agents disclosed herein includes, but is not limited to, hepatitis C virus, West Nile virus, yellow fever virus, degue virus, rhinovirus, polio virus, hepatitis A virus, bovine viral diarrhea virus or Japanese encephalitis virus, flaviviridae viruses or pestiviruses or hepaciviruses or a viral agent causing symptoms equivalent or comparable to any of the above-listed viruses.
• subject means a mammal, which includes, but is not limited to, cattle, pigs, sheep, chicken, turkey, buffalo, llama, ostrich, dogs, cats, and humans, preferably the subject is a human. It is contemplated that in the method of treating a subj ect thereof of the ninth embodiment can be any of the compounds contemplated herein, either alone or in combination with another compound disclosed herein.
• terapéuticaally effective amount means an amount required to reduce symptoms of the disease in an individual.
• the dose will be adjusted to the individual requirements in each particular case. That dosage can vary within wide limits depending upon numerous factors such as the severity of the disease to be treated, the age and general health condition of the patient, other medicaments with which the patient is being treated, the route and form of administration and the preferences and experience of the medical practitioner involved.
• a daily dosage of between about 0.001 and about 10 g, including all values in between, such as 0.001, 0.0025, 0.005, 0.0075, 0.01,
• a particular daily dosage is between about 0.01 and about 1 g per day, including all incremental values of 0.01 g (i.e., 10 mg) in between, a preferred daily dosage about 0.01 and about 0.8 g per day, more preferably about 0.01 and about 0.6 g per day, and most preferably about 0.01 and about 0.25 g per day, each of which including all incremental values of 0.01 g in between.
• treatment is initiated with a large initial "loading dose” to rapidly reduce or eliminate the virus following by a decreasing the dose to a level sufficient to prevent resurgence of the infection.
• Therapeutic efficacy can be ascertained from tests of liver function including, but not limited to protein levels such as serum proteins (e.g., albumin, clotting factors, alkaline phosphatase, aminotransferases (e.g., alanine transaminase, aspartate transaminase), 5'-nucleosidase, ⁇ -glutaminyltranspeptidase, etc.), synthesis of bilirubin, synthesis of cholesterol, and synthesis of bile acids; a liver metabolic function, including, but not limited to, carbohydrate metabolism, amino acid and ammonia metabolism. Alternatively the therapeutic effectiveness may be monitored by measuring HCV-RNA. The results of these tests will allow the dose to be optimized.
• serum proteins e.g., albumin, clotting factors, alkaline phosphatase, aminotransferases (e.g., alanine transaminase, aspartate transaminase), 5'-nucleos
• a first aspect of the sixth embodiment is directed to a method of treatment and/or prophylaxis in a subject in need thereof said method comprises administering to the subject a therapeutically effective amount of a compound represented by any of compounds 4, Rp-4, or Sp-4 and a therapeutically effective amount of another antiviral agent; wherein the administration is concurrent or alternative.
• the time between alternative administration can range between 1-24 hours, which includes any sub-range in between including, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, and 23 hours.
• HCV NS3 protease inhibitors see EP 1881001, US 2003187018, US 2005267018, WO 2003006490, WO 200364456, WO 2004094452, WO 2005028502, WO 2005037214, WO 2005095403, WO 2007014920, WO 2007014921, WO 2007014922, WO 2007014925, WO 2007014926, WO 2007015824, WO 2008010921, and WO 2008010921); HCV NS5B Inhibitors (see US 2004229840, US 2005154056, US 2005-98125, US 20060194749, US 20060241064, US 20060293306, US 2006040890, US 2006040927, US 2006166964, US 2007275947, US 6784166, US20072759300, WO 2002057287, WO 2002057425, WO 2003010141, WO 2003037895,
• Concurrent administration thus includes administration of the agents at the same time or at different times. Administration of two or more agents at the same time can be achieved by a single formulation containing two or more active ingredients or by substantially simultaneous administration of two or more dosage forms with a single active agent.
• references herein to treatment extend to prophylaxis as well as to the treatment of existing conditions.
• treatment also includes treatment or prophylaxis of a disease or a condition associated with or mediated by HCV infection, or the clinical symptoms thereof.
• a seventh embodiment is directed to a process for preparing any one of compounds 4, Rp-4, or Sp-4, which comprises: a) reacting an isopropyl-alanate, A, a di-LG-phenylphosphate, B, 2'-deoxy-2'-fluoro-2'-C-methyluridine, 3, and a base to obtain a first mixture comprising at least one of Sp-4 and i?p-4 wherein X is a conjugate base of an acid, n is 0 or 1, and LG is a leaving group; b) reacting the first mixture with a protecting compound to obtain a second mixture comprising at least one of protected S ? -4 and protected R ? -4; and c) optionally subjecting the second mixture to crystallization, chromatography, or extraction in order to obtain 4, ⁇ Sp-4, or i?p-4.
• the isopropyl alanate is present as its hydrochloric acid salt, which is preferably, substantially anhydrous.
• the base is N-methylimidazole.
• the mole ratio of A-to-B-to-3 is about 1.6-to-1.3-to-l.
• the protecting compound is t- butyl-dimethyl-silyl-chloride.
• An eighth embodiment is directed to a process for preparing 5i>-4 or R ⁇ -4, which comprises: a) reacting an isopropyl-alanate, A, a di-LG-phenylphosphate, B, 2'-deoxy-2'-fluoro-2'-C-methyluridine, 3, and a base to obtain a first mixture comprising at least one of 5p-4 and i?p-4
• X is a conjugate base of an acid, n is 0 or 1, and LG is a leaving group; and b) optionally subjecting the second mixture to crystallization, chromatography, or extraction in order to obtain purified 5p-4 or i?p-4.
• a first aspect of the eighth embodiment for preparing i?p-4 additionally includes further purifying the second mixture or the purified Rp-4 by dissolving or suspending the second mixture or the purified i?p-4 mixture in a solvent; optionally followed by seeding with crystalline Rp-4; and adding sufficient anti-solvent to obtain crystalline Rp-4.
• a second aspect of the eighth embodiment for preparing Sp-4 additionally includes further purifying the second mixture or the purified Sp-4 by d) dissolving or suspending the second mixture or the purified Sp-4 in a solvent followed by seeding with crystalline Sp-4 at about room temperature; collecting a first solid the majority of which comprises Sp-4; dissolving the first solid in a solvent at its reflux temperature; and cooling or adding an anti-solvent to obtain a second solid.
• a third aspect of the eighth embodiment for the preparation of Sp-4 additionally includes further purifying Sp-4 by d) dissolving or suspending the second mixture or the purified Sp-4 mixture in a first solvent followed by adding an anti- solvent so as to obtain a first composition in which the residual solvent/anti-solvent is removed by decanting to obtain a residue; treating the residue with a solution containing the first solvent and anti-solvent to yield a second composition whereby upon reducing the pressure affords a first solid; dissolving or suspending the first solid using a second solvent so as to obtain a third composition; adding seed crystals of Sp-4 to the third composition; collecting a second solid; dissolving or suspending the second solid in a third solvent, optionally heated to the reflux temperature of the third solvent to obtain a fourth composition, and , if necessary, cooling the fourth composition to obtain a third solid comprising Sp-4 which is collected by filtration.
• Sp-4 is further purified by the second mixture or the purified Sp-4 by d) adding silica gel to the second mixture or the purified Sp-4 followed by solvent evaporation to afford a dry slurry; stirring the dry slurry in a first solvent/anti-solvent combination to obtain a first wet slurry; decanting the first solvent/anti-solvent combination from the first wet slurry to obtain a second wet slurry and a first composition; adding to the second wet slurry a second solvent/anti-solvent combination followed by stirring; decanting the second solvent/anti-solvent combination from the second wet slurry to obtain a third wet slurry and a second composition; optionally repeating steps g)-h) on the third wet slurry or additional wet slurries; evaporating the solvent from the second composition, and optionally any additional composition obtained from optional step i) to obtain a first solid; dissolving or suspend
• the compounds can be separated by traditional extraction, traditional crystallization or traditional chromatographic techniques.
• Traditional chromatographic techniques include, but are not limited to, chromatography on silica gel (using, e.g., 3-5% methanol in DCM or 4-6% isopropanol in DCM) to produce enhanced levels of one isomer (50-100%) and then crystallize it.
• chromatography on silica gel using, e.g., 3-5% methanol in DCM or 4-6% isopropanol in DCM
• reversed phase chromatography using, e.g., 1-30% acetonitrile-aqueous mobile phase.
• the compounds can be isolated by supercritical fluid chromatography SFC with carbon dioxide as the main solvent and alcohols such as methanol as a modifier, preferably using the appropriate chiral media, such as, Daicel Chiralpack IA.
• SMB chromatography may be employed using the appropriate chiral media, such as, Daicel ChiralPack IA, using a mixture of solvents such as hexanes/isopropanol or single solvents such as ethyl acetate.
• a ninth embodiment is directed to a process for preparing ⁇ Sp-4, which comprises: a) reacting an isopropyl-alanyl-phosphoramidatewith a 3'-O-protected or unprotected 3, and a basic reagent to obtain a composition comprising protected or unprotected Sp-4
• the basic reagent is t-butylmagnesium chloride and the ratio of C:C is greater than or equal to about 1:1.
• the basic reagent is t-butylmagnesium chloride and the ratio of C:C; is greater than about 1:1.
• the basic reagent is t-butylmagnesium chloride and the ratio of C:C is at least about 1.5:1, about 2.3:1, about 4:1, about 5.7:1, about 9:1, about 19:1, about 32.3:1, about 49:1, or about 99:1.
• LG 1 is p-nitrophenoxide
• the basic reagent is t- butylmagnesium chloride
• the ratio of C:C is at least about 1.5:1, about 2.3:1, about 4:1, about 5.7:1, about 9:1, about 19:1, about 32.3:1, about 49:1, or about 99:1.
• a fifth aspect for preparing 5p-4 comprises: a) reacting an isopropyl-alanyl- phosphoramidate (C) with a 3'-O-protected or unprotected 3, and a basic reagent to obtain a composition comprising protected or unprotected Sp-4
• LG' is tosylate, camphorsulfonate, or an aryloxide substituted with at least one electron withdrawing group; more preferably, LG' is selected from among p- nitrophenoxide, 2,4-dinitrophenoxide, and pentafluorophenoxide.
• the process of the ninth embodiment is further directed to deprotecting protected ⁇ Sp-4.
• the reaction is conducted in a polar aprotic solvent, such as, tetrahydrofuran or another etheral solvent either one being alone or in combination with each other or with a C 2 to C 7 nitrile, such as acetonitrile.
• the process of the ninth embodiment further comprises 1) reacting (LG)P(O)(LG) 2 , wherein LG, independent of LG', is a leaving group, with (i) isopropyl-alanate and a first base to obtain (LG')P(O)(LG)(Ala-'Pr) followed by reacting (LG')P(O)(LG)(Ala-'Pr) with phenol and a second base to obtain a mixture comprising C and C, (ii) phenol and a first base to obtain (LC)P(O)(LG)(OPh) followed by reacting (LC)P(O)(LG)(OPh) with isopropyl-alanate and a second base to obtain a mixture comprising C and C, or (iii) combining isopropyl-alanate, phenol, and at least one base to obtain a mixture comprising C and C; or 2) reacting (PhO)P(O)(LG) 2 , wherein LG', independent of
• the isopropyl alanate is present as its hydrochloric acid salt, which is preferably, substantially anhydrous.
• a tenth embodiment is directed to a process for preparing i?p-4, which comprises: a) reacting an isopropyl-alanyl-phosphoramidate with a 3'-O-protected or unprotected 3, and a basic reagent to obtain a composition comprising protected or unprotected Rp-4
• the basic reagent is t-butylmagnesium chloride and the ratio of C :C is greater than or equal to about 1:1.
• the basic reagent is t-butylmagnesium chloride and the ratio of C':C; is greater than about 1:1.
• the basic reagent is t-butylmagnesium chloride and the ratio of C':C is at least about 1.5:1, about 2.3:1, about 4:1, about 5.7:1, about 9:1, about 19:1, about 32.3 : 1 , about 49: 1 , or about 99: 1.
• a fourth aspect the LG' is p-nitrophenoxide, the basic reagent is t- butylmagnesium chloride, and the ratio of C':C is at least about 1.5:1, about 23:1, about 4:1, about 5.7:1, about 9:1, about 19:1, about 32.3:1, about 49:1, or about 99:1.
• a fifth aspect for preparing Rp-4 comprises: a) reacting an isopropyl-alanyl- phosphoramidate (C) with a 3'-O-protected or unprotected 3, and a basic reagent to obtain a composition comprising protected or unprotected i?p-4
• LG 1 is a leaving group; and b) optionally subjecting the obtained protected or unprotected Rp-4 to chromatography, extraction, or crystallization in order to obtain purified protected or unprotected i?p-4.
• LG' is tosylate, camphorsulfonate, or an aryloxide substituted with at least one electron withdrawing group; more preferably, LG 1 is selected from among p- nitrophenoxide, 2,4-dinitrophenoxide, and pentafiuorophenoxide.
• the process of the ninth embodiment is further directed to deprotecting protected Rp-4.
• the reaction is conducted in a polar aprotic solvent, such as, tetrahydrofuran or another etheral solvent either one being alone or in combination with each other or with a C 2 to C 7 nitrile, such as acetonitrile.
• the process of the tenth embodiment further comprises 1) reacting
• LG'P(O)(LG) 2 wherein LG, independent of LG', is a leaving group, with (i) isopropyl-alanate and a first base to obtain (LG')P(O)(LG)(Ala- !
• the isopropyl alanate is present as its hydrochloric acid salt, which is preferably, substantially anhydrous.
• An eleventh embodiment is directed to a composition obtained by the processes recited in the seventh embodiment, the eighth embodiment, the ninth embodiment or the tenth embodiment as well as their respective aspects.
• An aspect of the eleventh embodiment is directed to a composition obtained by any one of the exemplified embodiments disclosed below.
• the so obtained composition can be crystalline, crystal-like, amorphous, or a combination thereof.
• a twelfth embodiment is directed to a compound 3
• Z is a protecting group or hydrogen; which is useful for the preparation of Rp-
• a first aspect of the twelfth embodiment is selected from among a compound having the following structure zo * * F
• a thirteenth embodiment is directed to a compound, its salt, hydrate, solvate, or combination thereof, represented by the following structures
• LG' is tosylate, camphorsulfonate, an aryloxide, or an aryloxide substituted with at least one electron withdrawing group.
• LG' is selected from among p-nitrophenoxide, 2,4-dinitrophenoxide, and pentafluorophenoxide.
• a fourteenth embodiment is directed to an isotopically-labeled analog of Rp-4 or Sp-4.
• isotopically-labled analog refers to an analog of Rp-4 or ⁇ Sp-4 that is a "deuterated analog", a " 13 C-labeled analog,” or a "deuterated/ 13 -C-labeled analog.”
• deuterated analog means a compound described herein, whereby a 1 H- isotope, i.e., hydrogen (H), is substituted by a 2 H-isotope, i.e., deuterium (D).
• Deuterium substitution can be partial or complete. Partial deuterium substitution means that at least one hydrogen is substituted by at least one deuterium.
• methyl groups depicted above are shown as being completely deuterated, one will recognize that partial-deuterated variations are also possible, such as, -CDH 2 and -CD 2 H. Isotopic labels on the furanose and base are also contemplated.
• 13 C-labeled analog and “deuterated/ 13 -C-labeled analog” refers to a compound described herein, whereby carbon atom is enriched with a 13 C-isotope meaning that the extent of enrichment exceeds the usual natural abundance of about 1.1%.
• 3',5 t -O-dibenozyl-2'-deoxy-2'-fluoro-2'-C-methyl-N 4 -benzoylcytidine (l) is obtained by a method disclosed in WO 2006/031725 and WO 2008/045419 both of which are hereby incorporated by reference in its entirety. 1 is treated with 70% aqueous acetic acid to form 3',5'-O-dibenozyl-2'-deoxy-2'-fluoro-2'-C-methyl-uridme (2).
• the benzoyl esters can be hydrolyzed by a number of methods as well, e.g., alkoxides in alcoholic solvent, such as sodium methoxide in methanol, potassium carbonate in methanol, or ethanol analogs, alkylamines such as methylamine in methanol, butylamine etc. Methanolic ammonia was chosen for the larger scale work.
• the undine product (3) can be purified by crystallization to afford a 70% yield from the tribenzoylated cytidine (1).
• reaction conditions which use lesser amounts of reagents and a method to selectively remove the impurity 3'-O-phosphoramidate diastereomers (5) with an easier chromatographic separation thereby affording the desired 5'-O- phosphoramidate diastereomers in much higher purity (4).
• reagent stoichiometry a study was made in which the stoichiometry of the reagents was systematically changed and the results were monitored by phosphorus NMR of the crude reaction as Lehsten had reported. In the more successful runs, the isolated yield and purity of the desired product were compared. It was observed that the primary 5'-hydroxyl reacts at a faster rate than the secondary 3'- hydroxyl.
• the reaction can be optimized to produce more of the desired 5'-diastereomer without having to sacrifice as much of the 5'-diastereomer being converted to the bis-substituted (6).
• the amino acid hydrochloride is very hygroscopic. As any water present would consume an equivalent amount of the phenyl dichlorophosphate reagent, care must be taken to keep the amino acid substantially anhydrous or it should be made substantially anhydrous prior to use. In short, Lehsten had reported that the optimum ratio of amino acid to phenyl dichlorophosphate to nucleoside was 3.5:2.5:1 respectively.
• Another alternative approach was to use the direct synthesis and then use chemistry to help differentiate the 3'-diastereomer impurities 5 from the desired 5'- diastereomers 4 to help the separation.
• a group was desired that would selectively react with the free primary hydroxyl of the 3'-O-phosphoramidate impurity 5 over the free secondary hydroxyl of the desired 5'-O-phosphoramidate 4.
• the blocking group significantly change the polarity of the resulting 5'-O-blocked 3'-O-phoshoramidate product from the desired 5'-O-phosphoramidate 4. There would be no extra step needed to remove the blocking group as the desired 5 '-diastereomers 4 would not be changed.
• the chemically altered 3 '-diastereomers would then allow easier chromatographic separation or separation by special scavenging supports or by extractions.
• the blocking group tert-butyldimethylsilyl met these criteria and was the first one to be demonstrated and subsequently used on a multi- kilogram scale.
• the tBDMS group reacts with high selectively at the primary hydroxyl position over the 3' secondary hydroxyl position.
• the phosphoramidate reaction uses N-methylimidazole (NMI) as a base.
• NMI N-methylimidazole
• the silylation is less selective.
• the amount of NMI should be reduced. This can be accomplished easily after the phosphoramidate reaction by washing the reaction solution with 1 N hydrochloric acid.
• the NMI and the remaining starting nucleoside are removed, leaving a crude mixture of mono and bis substituted products and reagent by-products. This is then dissolved in pyridine and treated with tert-butyldimethylsilyl chloride. The 3'- monosubstituted product 5 is converted in a few hours or less to the 5'-O-tBDMS-3'- O-phosphoramidate 7. The reaction progress can be monitored by HPLC. The polarity of this silylated product 7 is less than the bis-phosphoramidate 6 and is readily removed by chromatography.
• the reaction conditions and the scavenging of the 3 '-impurity are general methods and could be applied to most nucleoside phosphoramidates with a free 3' hydroxyl.
• the phosphoramidate moiety could be any combination of amino acid ester and aromatic alcohol.
• the nucleoside moiety could be any nucleoside in which a 5' phosphoramidate would lead to a 5 '-monophosphate and could be further metabolized to the 5 '-triphosphate form.
• the following scheme is the main reaction scheme illustrated for making isopropyl L-alanate phenyl phosphoramidate of 2'-deoxy-2'-fluoro-2'-C-methyluridine with the major product as the desired 5'-O-phosphoramidate (4, two diastereomers) and the minor product as the 3'-O-phosphoramidate (5, two diastereomers) and the 3',5' -bis-O-phosphoramidate (6, four diastereomers).
• the reagents are added in the stoichiometric ratios as described in the method of preparation section.
• the reaction is allowed to proceed until about 5% of the starting material remains as judged by UV visualization on thin layer chromatography (TLC).
• the desired product is subjected to chromatography on silica gel and is eluted with a gradient of methanol in dichloromethane (1-4%).
• the desired 5'-monophosphoramidate 4 elutes last.
• N4-benzoylcytidine 500 g, 0.874 mol
• 70% aqueous acetic acid 7.5 L
• the solution was heated to reflux (110°C) for 20 h.
• TLC indicated a complete reaction (Rf 0.6 in 5% methanol in dichloromethane (DCM)).
• the mixture was cooled to ambient temperature and diluted with water (2 L). After stirring for 2 h, the resulting precipitate was collected by filtration and the solid was rinsed with water (5 L) and dried in the atmosphere at ambient temperature for 12 h to afford 360 g (88%).
• This dibenzoyluridine intermediate was used directly in the next step by adding it all to freshly prepared methanolic ammonia (5.4 L, ca 25%) at 0°C.
• the first set of fractions contained small amounts of less polar impurities (upper impurities) such as the 3 ? ,5'-bis phosphoramidate and the di- alanylphenyl phosphate and a mostly the Rp diastereomer and required a second column purification.
• upper impurities such as the 3 ? ,5'-bis phosphoramidate and the di- alanylphenyl phosphate
• Rp diastereomer required a second column purification.
• the relative terminology, upper vs. lower refers to the elution on normal-phase silica-gel chromatography, where the "upper isomer” means the first eluting isomer.
• the second set of fractions did not have a significant amount of impurities -just the remaining Rp and mostly the Sp diasterereomers. It was later recombined with the twice-columned fractions.
• the solvent was evaporated under reduced pressure and the resulting white foam was further dried (0.20 mmHg) for 1 h to give 42 g of the impure lot (4:1 upper vs lower isomer based Of 31 P-NMR) and 38 g of the pure lot (1:3 upper vs lower isomer).
• the impure lot was recolumned in a similar manner to give 3.8 g of 97% pure upper isomer (fraction set aside) and 36 g of pure product in a 4: 1 ratio.
• Compound 4 due to the chirality at phosphorus is comprised of two diastereomers, which are designated as S p -4 and R P -4.
• the stereochemical assignment was made based on single crystal X-ray analysis of S p -4. Both R P -4 andSp-4 gave crystalline product.
• Example 3 Crystallization of the i?p-4 isomer.
• the chromatographed fraction of containing the first eluting, less polar i?p-4 isomer (3.8 g, 97% pure) was dissolved in isopropanol (36 g) and diluted with heptanes until cloudy (72 g). The solution was seeded and stirred at ambient temperature for 5 h. The resulting solid was collected by vacuum filtration, washed with heptanes (2x20 mL) and dried (50°C, 0.2 mm, 24 h) to 2.3 g of very small white needles mp 136.2-137.8°C. HPLC purity of the resultant material was found to be 99.02%.
• Rp-4 1 H-NMR (CDCl 3 ) ⁇ 9.10 (br s, IH, NH), 7.36 (m, 2H, o-aromatic),
• Method 1 Direct precipitation from crude 4: To a stirred solution of L- alanine isopropyl ester hydrochloride (10.5g, 61.5mmol, azeotropically dried, two times, with 50 mL of toluene each time) in dichloromethane (100 mL) was added phenydichlorophosphate (7.5 mL, 50 mmol) at room temperature. The mixture was cooled to -10 0 C and then was added a solution of NMI (30.5 mL, 384.3mmol) in 30 mL of dichloromethane over a period of 30 min. After completion of the addition, the mixture was stirred between -10 and -15 0 C for Ih.
• L- alanine isopropyl ester hydrochloride 10.5g, 61.5mmol, azeotropically dried, two times, with 50 mL of toluene each time
• dichloromethane 100 mL
• phenydichlorophosphate
• the above foam was dissolved in 33 mL of DCM and then was added 65 mL of IPE (isopropyl ether) to give a saturated solution.
• the solution was filtered though a small pad of Celite and the filtrate was stirred with Sp-4 seeds for 72h at ambient temperature (about 22°C -note that cooling the suspension to 0°C led to oiling out the crude product).
• the white solid was filtered, washed with IPE (2OmL) and dried to give 4.58g (-85:15 mixture of Sp-4:R P -4 respectively as determined by 31 P NMR) of a white powder.
• the above solid was suspended in 23 mL of DCM and then refluxed for 3h. The mixture was cooled to room temperature and stirred for 15h.
• Method 2 Oiling out from crude 4: To a stirred solution of L-alanine isopropyl ester hydrochloride (20.6g, 123mmol, azeotropically dried, two times, with 75 mL of toluene each time) in dichloromethane (200 mL) was added phenydichlorophosphate (14.9 mL, lOOmmol) at room temperature. The mixture was cooled to -10°C and then was added a solution of NMI (61.3 mL, 769mmol) in 60 mL of dichloromethane over a period of 30 min. After completion of the addition, the mixture was stirred between
• the above foam was dissolved in 46 mL of DCM and then was added 95 mL of IPE to give a saturated solution. The solution was filtered though a small pad of Celite and the filtrate was stirred with S P -4 seeds for 72h at ambient temperature. The white solid was filtered, washed with IPE (3OmL) and dried to give 7.33g (-85:15 mixture of Sp-4 : i?p-4 respectively as determined by 31 P NMR) of white powder. The above solid was suspended in 36 mL of DCM and then refluxed for 3h. The mixture was cooled to room temperature and stirred for 15h.
• Method 4 40.0 g of 1 : 1 mixture of 4 was dissolved in 90 mL of dichloromethane. Diisopropylether (70 mL) was added to the above solution to give a saturated solution. (The quantity of diisopropyl ether may vary based on the purity of the product.) The solution was seeded with pure S ? -4 (> 99%) and the mixture was gently stirred with a stir bar at room temperature for 2Oh (formation of solid was observed after 2h). The solid was filtered, washed with 40 mL of the mixture of diisopropylether/dichloromethane (1:1) and dried to give white solid ( 16.6 g, 89.35 % pure 5p-4 by NMR).
• This solid was suspended in 83 mL dichloromethane and refluxed for 3h. The suspension was cooled to room temperature and stirred over night. The solid was filtered and washed with 1OmL of cold DCM. The solid was dried under vacuum to give S ? -4 (13.1 g, 99.48 % pure by HPLC). 1 Ig of this solid was redissolved in 330 mL of DCM under hot conditions. The solution was cooled to room temperature and left at this temperature over night. The crystalline product was filtered and dried to give 10.5 g of S ? -4 (99.74 % by HPLC).
• L-alanine isopropyl ester hydrochloride (330 g, 1.97 mol) was pre-dried by co- evaporation with toluene (2 x 400 mL) under reduced pressure and then dried in a vacuum oven (50°C, 0.2 mmHg, 17 h).
• 4-nitrophenyl phosphorodichloridate 500.0 g, 1.953 mol
• anhydrous dichloromethane 3.0 L
• phenol 18.3.8 g, 1.953 mol
• triethylamine 300 mL, 2.15 mol
• the mixture was stirred at this temperature for additional 30 min and then allowed to warm up to -5 0 C over 2.5 hours.
• the pre-dried amino acid ester was added at -5 ⁇ 0°C under an atmosphere of nitrogen over 10 mins.
• the residue of aminoester salt in the addition flask was transferred to the reaction mixture via rinsing with dichloromethane (2 x 100 mL).
• the mixture was stirred at 0°C for 40 mins and a second portion of triethylamine (571 mL, 4.10 mol) was added over a period of 40 mins at 0°C.
• the dry residue was mixed with diisopropyl ether (IPE, 1.1 L) and stirred at 5 °C in an ice-water bath. Small amount of crystal seeds of the desired Sp-isomer of the product was added to the solution and the mixture was stirred at 5°C for over 22 h to form a medium thick slurry. This was allowed to stand in a freezer (-10 0 C) for 44 h. The precipitated product was collected via filtration and rinsed with pre-cooled mixed solvents of IPE and hexanes (1 : 1 , 3 x 190 mL).
• Example 8-1 Preparation of racemic 2-[(4-chloro-phenoxy)-phenoxy- phosphorylamino] propionic acid isopropyl ester ( ⁇ ):
• Example 8-2 Preparation of (S)-Isopropyl 2-((2R,3R,4R,5R)-5-(2,4-dioxo-3,4- dihydropyrimidin-l(2H)-yl)-4-fluoro-3-hydroxy-4-methyltetrahydrofuraii-2 yl)methoxy)(phenoxy)-phosphorylamino)propanoate (4).
• Example 9-1 Preparation of racemic 2-[(2-chloro-phenoxy)-phenoxy- phosphorylamino] propionic acid isopropyl ester ( ⁇ ).
• Example 9-2 Preparation of (S)-isopropyl 2-((2R,3R,4R,5R)-5-(2,4-dioxo-3,4- dihydropyrimidin-l(2H)-yl)-4-fluoro-3-hydroxy-4-methyltetrahydrofuran-2 yl)methoxy)(phenoxy)- phosphorylamino)propanoate.
• Example 10-1 Preparation of racemic 2-[(2,3,4,5,6-pentafluoro-phenoxy)- phenoxy-phosphorylamino] propionic acid isopropyl ester ( ⁇ ).
• Example 10-2 Preparation of (S)-isopropyl 2-((2R,3R,4R,5R)-5-(2,4-dioxo-3,4- dihydropyrimidin-l(2H)-yl)-4-fluoro-3-hydroxy-4-methyltetrahydrofuran-2 yL)methoxy)(phenoxy)- phosphorylamino)propanoate.
• Example 11 Preparation of ⁇ Sp-4 (32 mg-scale): To a stirred solution of 1- ((2R,3R,4R,5R)-3-Fluoro-4-hydroxy-5-hydroxymethyl-3-methyl-tetrahydro-furan-2- yl) -lH-pyrimidine-2,4-dione 3 (32 mg, 0.12 mmol) in dry THF (ImL) was added a IM solution of tButylmagnesium chloride (0.26 mL, 0.26 mmol, 2.1 equiv)) at room temperature over a period of 3 min.
• Example 13 Preparation of S ? -4 using NaHMDS: To a stirred solution of 1- ((2R,3R,4R,5R)-3-Fluoro-4-hydroxy-5-hydroxymethyl-3-methyl-tetrahydro-furan-2- yl) -lH-pyrimidine-2,4-dione (71 mg, 0.27 mmol) in dry THF (2.0 mL) was added a 2.0 M solution of sodium bis(trimethylsilyl)amide (NaHMDS) in THF (270 ⁇ L, 0.54 mmol) at
• the preparation of Sp-4 or i?p-4 may also be achieved by reacting 3 '-protected 3 with the appropriate reagent C or C or a mixture containing C and C, as illustrated in the following examples.
• Example 15 Preparation of S P -4 with 3a as a Synthetic Intermediate
• Example 15-4 Stereoselective synthesis of (S)-2- ⁇ [(lR,4R,5R)-5-(2,4-Dioxo-3,4- dihydro-2H-pyrimidin-l-yI)-4-(R)-fluoro-3-(4-oxopentanoyl)-4-methyl- tetrahydro-furan-2-ylmethoxy]-phenoxy-phosphorylamino ⁇ -propionic acid (S)- isopropyl ester (11):
• Example 16 Alternative procedure for preparing Sp-4 from 3a.
• 4-oxo-pentanoic acid (2R,3R,4R,5R)-5-(2,4-dioxo-3,4- dihydro-2H-pyrimidin-l-yl)-4-fluoro-2-hydroxymethyl-4-methyl-tetrahydro-furan-3- yl ester (3a, 210 mg, 0.59 mmol) in dry THF (1.5 mL) was added a 1.7 M solution of tert-butylmagnesium chloride (1.07 mL, 1.82 mmol) at room temperature over a period of 2 min. Initially, a white precipitate was observed and after 10 min the reaction mixture turned to dark yellow solution.
• Example 17-1 Preparation of of l-[(2R,3R,4R,5R)-4-(tert- butyldimethylsilanyloxy)-3-fluoro-5-hydroxymethyl-3-methyl-tetrahydro-furan- 2-yl]-lH-pyrimidine-2,4-dione, 12.
• Uridine (15, 100.0 g, 409.5 mmol) was co-evaporated to dryness with anhydrous pyridine (600 mL) and re-suspended in anhydrous pyridine (700 mL). To this stirred fine suspension was added l,3-dichloro-l,l,3,3-tetraisopropyldisiloxane (135.7 g, 482.5 mmol) over 60 min at ambient temperature. After stirring the fine suspension for 17 h at ambient temperature, the reaction was quenched by adding methanol (20 mL) and then concentrated under reduced pressure. The residue was partitioned between ethyl acetate (1.5 L) and water (2 L).
• the organic layer was further washed with 5% hydrochloric acid (2 x 1 L), brine (500 mL), dried over solid sodium sulfate (50 g), filtered and concentrated under reduced pressure to the crude product, ca 250 g.
• the residue was subjected to a filtration column using silica gel (1.75 kg) and a gradient of ethyl acetate in hexanes 20-65%.
• the pure product fractions as judged by a homogenous TLC (Rf 0.55 in 1 : 1 hexanes-ethyl acetate) were combined and concentrated under reduced pressure and dried (40°C, 0.2 mm Hg, 24 h) to afford 145.5 g (76%) of 16 as a white foam solid.
• Example 19-2 Preparation of l-((6aR,8R,9aR)-2,2,4,4-tetraisopropyl-9- oxotetrahydro-6 ⁇ -furo[3,2-f][l,3,5,2,4]trioxadisilocin-8-yl)pyrimidine- 2,4(lH,3H)-dione, 17
• the crude oil residue (contained trace of DCM) was stored overnight in the freezer. After overnight, some crystal solid was observed in the oil.
• the oil was dissolved in 500 ml hexanes at ambient temperature. The solution was stored in the freezer for 24 hours and more solid was formed. Solid was collected via filtration and rinsed with cold 10% DCM in hexanes (1 L) to remove most of the orange color.
• the solid (17) was dried under vacuum for 2 h and then air dried for 24 h. The solid weighed 21 g after dried at 50 0 C under vacuum. The filtrate was concentrated and the residue was purified via column chromatography (10-70% ethyl acetate in hexanes) to afford an additional 37 g (combined yield of 97%) of 17 as a light orange solid.
• XRPD X-Ray Powder Diffraction
• NMR Nuclear Magnetic Resonance
• FT-IR Fourier Transform Infrared
• DSC Differential Scanning Calorimetry
• TGA Thermal Gravimetric Analysis
• GGS Gravimetric Vapor Sorption
• HPLC High Performance Liquid Chromatography
• X-Ray Powder Diffraction patterns were collected on a Siemens D5000 diffractometer using Cu Ka radiation (4OkV, 4OmA), ⁇ - ⁇ goniometer, divergence of V20 and receiving slits, a graphite secondary monochromator and a scintillation counter.
• the instrument is performance checked using a certified Corundum standard (NIST 1976).
• the software used for data collection was Diffrac Plus XRPD Commander v2.3.1 and the data were analyzed and presented using Diffrac Plus EVA v 11.0.0.2 or v 13.0.0.2.
• Samples run under ambient conditions were prepared as flat plate specimens using powder as received. Approximately 35 mg of the sample was gently packed into a cavity cut into polished, zero-background (510) silicon wafer. The sample was rotated in its own plane during analysis. The details of the data collection are: angular range: 2 to 42°20; step size: 0.05°20; and collection time: 4 s.step "1 .
• X-Ray Powder Diffraction patterns were collected on a Bruker AXS C2 GADDS diffractometer using Cu Ka radiation (40 kV, 40 mA), automated XYZ stage, laser video microscope for auto-sample positioning and a HiStar 2-dimensional area detector.
• X-ray optics consists of a single G ⁇ bel multilayer mirror coupled with a pinhole collimator of 0.3 mm.
• the beam divergence i.e. the effective size of the X-ray beam on the sample, was approximately 4 mm.
• a ⁇ - ⁇ continuous scan mode was employed with a sample - detector distance of 20 cm which gives an effective 2 ⁇ range of 3.2°- 29.7°.
• the sample would be exposed to the X-ray beam for 120 seconds.
• the software used for data collection was GADDS for WNT 4.1.16 and the data were analyzed and presented using Diffrac Plus EVA v 9.0.0.2 or v 13.0.0.2.
• Samples run under ambient conditions were prepared as flat plate specimens using powder as received without grinding. Approximately 1-2 mg of the sample was lightly pressed on a glass slide to obtain a flat surface.
• a sample of Sp-4 was ground with a pestle and mortar, and then successively passed through 500 and 250 ⁇ m sieves to yield the sample as a fine powder. This sample was reanalyzed by high resolution XRPD, confirming no form change had occurred.
• Crystalline Sp-4 exhibits polymorphism.
• an aspect is directed to crystalline Sp-4 and its individual polymorphic forms.
• Sp-4 can exist in at least five polymorphic forms, designated as Forms 1-5.
• amorphous Sp-4 can also be prepared.
• a typical crystallization provides for dissolving about 100 mg of Sp-4 in an appropriate volume of crystallization solvent (acetonitrile (5 vol), chloroform (5 vol), n-butyl acetate (7 vol), dichloromethane (50 vol), anisole (7 vol), and 1:1 MTBE/heptane (50 vol)) and then allowing for evaporation of the solution at 5 °C.
• crystallization solvent acetonitrile (5 vol), chloroform (5 vol), n-butyl acetate (7 vol), dichloromethane (50 vol), anisole (7 vol), and 1:1 MTBE/heptane (50 vol)
• Forms 1, 2 and 3 are a non-solvated form, 1:1 DCM solvate and 1:1 chloroform solvate, respectively, as was confirmed by singe crystal X-ray and XRPD analysis.
• Forms 4 and 5 were obtained from crystallization of Sp-4 from solutions of acetonitrile and anisole, respectively. Sufficient data could not be collected to determine whether Forms 4 and 5 are unsolvated, hydrated or solvated since single crystals of sufficient quality were not obtained.
• Forms 4 and 5 transform to Form 1 on filtration.
• Example 22-1 Single Crystal X-Ray Crystallography of S P -4 (Form 1)
• Figure 10 shows an X-ray crystal structure for Sp-4 Form 1.
• the figure shows a view of molecules of Form 1 from the crystal structure showing the numbering scheme employed.
• Anisotropic atomic displacement ellipsoids for the non- hydrogen atoms are shown at the 50% probability level. Hydrogen atoms are displayed with an arbitrarily small radius.
• Figure 11 shows an X-ray crystal structure for 5p-4 Form 2. There, this figure shows a view of molecules of Form 2 from the crystal structure showing the numbering scheme employed. The heteroatoms were resolved isotropically due to very weak data. Hydrogen atoms are not displayed.
• Figure 12 depicts an X-ray Crystal Structure (ORTEP - anisotropic) S ? -4 (Form 2).
• X-ray intensity data were collected on a
• the maximum ⁇ / ⁇ in the final cycle of least squares was 0.000 and the two most prominent peaks in the final difference Fourier were +0.312 and -0.389 e/A .
• the Flack absolute structure parameter refined to -0.06(6) thus corroborating the stereochemistry of the title compound.
• Table 1 lists cell information, data collection parameters, and refinement data. Final positional and equivalent isotropic thermal parameters are given in Table 2. Anisotropic thermal parameters are in Table 3. ("ORTEP-II: A Fortran Thermal Ellipsoid Plot Program for Crystal Structure Illustrations". CK. Johnson (1976) ORNL-5138.) representation of the molecule with 30% probability thermal ellipsoids displayed.
• Example 22-4 Single Crystal X-Ray Crystallography of S P -4 (Form 3)
• Figure 13 shows an X-ray crystal structure for S ? -4 Form 3. There, this figure shows a view of molecules of Form 3 from the crystal structure showing the numbering scheme employed. Anisotropic atomic displacement ellipsoids for the non- hydrogen atoms are shown at the 50% probability level. Hydrogen atoms are displayed with an arbitrarily small radius.
• Example 23 Stability at elevated temperatures and relative humidity
• a sample of _Sp-4 deliquesced inside 16 hours. For instance, a sample of S ⁇ -4 was ground with a pestle and mortar, and then successively passed through 500 and 250 ⁇ m sieves to yield the sample as a fine powder. Samples of this material were stored at 40°C and 75% relative humidity and 25°C and 53 % RH and visual observations were taken at regular intervals. The results are given in Table 5.
• Example 25 Differential Scanning Calorimetry (DSC) Thermo-Gravimetric Analysis (TGA) DSC data were collected on a TA Instruments Q2000 equipped with a 50 position auto-sampler. The calibration for thermal capacity was carried out using sapphire and the calibration for energy and temperature was carried out using certified indium.
• DSC Differential Scanning Calorimetry
• TGA Thermo-Gravimetric Analysis
• Modulated temperature DSC was carried out on typically 0.8-1.2 mg of each sample, in a pin-holed aluminum pan, using an underlying heating rate of 2 0 CnUn "1 and temperature modulation parameters of ⁇ 0.2 0 CmUi "1 and 40 seconds. A purge of dry nitrogen at 50 ml.min "1 was maintained over the sample.
• the instrument control software was Advantage for Q Series v2.8.0.392 and Thermal Advantage v4.8.3 and the data were analyzed using Universal Analysis v4.3A.
• DSC data were collected on a Mettler DSC 823e equipped with a 34 position auto-sampler.
• the instrument was calibrated for energy and temperature using certified indium. Typically 0.8-1.2 mg of each sample, in a pin-holed aluminum pan, was heated at 10 0 CmUi '1 from 25°C to 250 0 C A nitrogen purge at 50 ml.min "1 was maintained over the sample.
• the instrument control and data analysis software was STARe v9.20.
• TGA data were collected on a Mettler TGA/SDTA 85 Ie equipped with a 34 position auto-sampler.
• the instrument was temperature calibrated using certified indium. Typically 8-12 mg of each sample was loaded onto a pre-weighed aluminum crucible and was heated at 10 0 CnMi "1 from ambient temperature to 350 0 C A nitrogen purge at 50 ml.min "1 was maintained over the sample.
• the instrument control and data analysis software was STARe v9.20.
• DSC analysis of 4 showed a single broad endotherm with an onset of 58.7°C ( ⁇ H 14 J.g "1 ) confirmed to be due to molecular relaxation during the glass transition by further modulated DSC analysis (Fig. 17).
• TGA analysis of 4 showed no weight loss before decomposition above 240°C, confirming the material to be non-solvated.
• modulated DSC analysis was undertaken in an attempt to calculate the glass transition temperature, which was found to be 57°C.
• DSC analysis showed a single sharp endotherm with an onset of 136.2 0 C ( ⁇ H 76 J.g "1 ) confirmed to be a melt by hot stage microscopy. See Fig. 18.
• TGA analysis of i?p-4 showed no weight loss before decomposition above 240 °C, confirming the material to be non-solvated.
• DSC analysis of S ? -4 showed a single broad endotherm with an onset of
• Sorption isotherms were obtained using a SMS DVS Intrinsic moisture sorption analyzer, controlled by SMS Analysis Suite software.
• the sample temperature was maintained at 25 °C by the instrument controls.
• the humidity was controlled by mixing streams of dry and wet nitrogen, with a total flow rate of 200 ml.min "1 .
• the relative humidity was measured by a calibrated Rotronic probe (dynamic range of 1.0-100 %RH), located near the sample.
• the weight change, (mass relaxation) of the sample as a function of %RH was constantly monitored by the microbalance (accuracy ⁇ 0.005 mg).
• the sample was recovered after completion of the isotherm and re-analyzed by XRPD.
• a sample of S ? -4 was ground with a pestle and mortar, and then successively passed through 500 and 250 ⁇ m sieves to yield the sample as a fine powder that was then analyzed using a modified single cycle method.
• the sample was taken from 40 % RH (approximately ambient) to 60 % RH, instead of 90 % for the standard method, and then cycled to 0 % and back to 40 % RH.
• This analysis showed «Sp-4 to be non- hygroscopic up to 60 % RH, with reversible uptake of -0.2 % by weight of water from O to 60 % RH.
• Aqueous solubility was determined by suspending a sufficient amount of compound in water to give a maximum final concentration of ⁇ .0 mg.ml " of the parent free-form of the compound. The suspension was equilibrated at 25 °C for 24 hours then the pH was measured. The suspension was then filtered through a glass fiber C filter into a 96 well plate. The filtrate was then diluted by a factor of 101. Quantitation was by HPLC with reference to a standard solution of approximately 0.1 mg.ml "1 in DMSO. Different volumes of the standard, diluted and undiluted sample solutions were injected. The solubility was calculated using the peak areas determined by integration of the peak found at the same retention time as the principal peak in the standard injection. Table 14. HPLC Method Parameters for Solubility Measurements
• the purity of 4, i?p-4, and Sp-4 was determined to be -99.6, -99%, and -99.5%, respectively. It is noted that higher purities can be realized by optimizing the methods disclosed above.
• Figures 2OA and 2OB show molecules numbered 1 and 2, respectively, of the asymmetric unit.
• Preliminary indexing was performed from a series of thirty-six 0.5° rotation frames with exposures of 30 seconds. A total of 3608 frames were collected with a crystal to detector distance of 70.00 mm, rotation widths of 0.5° and exposures of 20 seconds:
• Rotation frames were integrated using SAINT (Bruker (2009) SAINT. Bruker AXS Inc., Madison, Wisconsin, USA.) producing a listing of unaveraged F 2 and ⁇ (F 2 ) values which were then passed to the SHELXTL (Bruker (2009) SHELXTL. Bruker AXS Inc., Madison, Wisconsin, USA.) program package for further processing and structure solution on a Dell Pentium 4 computer.
• Replicon containing cells were seeded at either 3,000 cells/well (50 ⁇ L) in 96- well white/opaque plates, or 1,500 cells/well (25 ⁇ L) in 384-well white/opaque plates. 50 ⁇ L of 2X compound were added in the 96 well plate or 25 ⁇ L of 2X compound were added in the 384 well plate. The plates were incubated at 37°C in a humidified 5% CO 2 atmosphere for 4 days. After incubation, Bright-Glo reagent (50 ⁇ L for 96- well plate, or 25 ⁇ L for 384-well plate) was added to measure the firefly luciferase reporter for HCV replication. Percent inhibition was calculated against the no drug control. Compound HCV Replicon Activity ( ⁇ M)
• P -4 and S-p-4 have been demonstrated to have broad genotype coverage. For example, both have been shown to be active against hepatitis C virus, genotypes 1-4.

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