NZ623292B2 - Guanidinyl-substituted polyamides useful for treating human papilloma virus - Google Patents
Guanidinyl-substituted polyamides useful for treating human papilloma virus Download PDFInfo
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- NZ623292B2 NZ623292B2 NZ623292A NZ62329212A NZ623292B2 NZ 623292 B2 NZ623292 B2 NZ 623292B2 NZ 623292 A NZ623292 A NZ 623292A NZ 62329212 A NZ62329212 A NZ 62329212A NZ 623292 B2 NZ623292 B2 NZ 623292B2
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- New Zealand
- Prior art keywords
- tmg
- hpv
- carcinoma
- polyamide
- compound
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- 239000007922 nasal spray Substances 0.000 description 1
- 235000001968 nicotinic acid Nutrition 0.000 description 1
- PVNIIMVLHYAWGP-UHFFFAOYSA-N nicotinic acid Chemical compound OC(=O)C1=CC=CN=C1 PVNIIMVLHYAWGP-UHFFFAOYSA-N 0.000 description 1
- 239000011664 nicotinic acid Substances 0.000 description 1
- 125000004971 nitroalkyl group Chemical group 0.000 description 1
- 150000002829 nitrogen Chemical group 0.000 description 1
- QJGQUHMNIGDVPM-UHFFFAOYSA-N nitrogen group Chemical group [N] QJGQUHMNIGDVPM-UHFFFAOYSA-N 0.000 description 1
- 231100000344 non-irritating Toxicity 0.000 description 1
- 238000010606 normalization Methods 0.000 description 1
- 101700006494 nucA Proteins 0.000 description 1
- ZQPPMHVWECSIRJ-KTKRTIGZSA-M oleate Chemical compound CCCCCCCC\C=C/CCCCCCCC([O-])=O ZQPPMHVWECSIRJ-KTKRTIGZSA-M 0.000 description 1
- 235000008390 olive oil Nutrition 0.000 description 1
- 231100000590 oncogenic Toxicity 0.000 description 1
- 230000002246 oncogenic Effects 0.000 description 1
- 102000025475 oncoproteins Human genes 0.000 description 1
- 108091008124 oncoproteins Proteins 0.000 description 1
- 239000000668 oral spray Substances 0.000 description 1
- 150000007524 organic acids Chemical class 0.000 description 1
- 235000005985 organic acids Nutrition 0.000 description 1
- 235000006408 oxalic acid Nutrition 0.000 description 1
- 230000036407 pain Effects 0.000 description 1
- IPCSVZSSVZVIGE-UHFFFAOYSA-M palmitate Chemical compound CCCCCCCCCCCCCCCC([O-])=O IPCSVZSSVZVIGE-UHFFFAOYSA-M 0.000 description 1
- 238000009595 pap smear Methods 0.000 description 1
- 201000010198 papillary carcinoma Diseases 0.000 description 1
- 239000006072 paste Substances 0.000 description 1
- 230000037361 pathway Effects 0.000 description 1
- 239000000312 peanut oil Substances 0.000 description 1
- 230000000149 penetrating Effects 0.000 description 1
- 239000002304 perfume Substances 0.000 description 1
- 230000000737 periodic Effects 0.000 description 1
- 230000002085 persistent Effects 0.000 description 1
- 239000000546 pharmaceutic aid Substances 0.000 description 1
- 230000036231 pharmacokinetics Effects 0.000 description 1
- 230000000144 pharmacologic effect Effects 0.000 description 1
- 239000008363 phosphate buffer Substances 0.000 description 1
- 150000003904 phospholipids Chemical class 0.000 description 1
- 150000003013 phosphoric acid derivatives Chemical class 0.000 description 1
- 238000002428 photodynamic therapy Methods 0.000 description 1
- 230000000704 physical effect Effects 0.000 description 1
- 229940075930 picrate Drugs 0.000 description 1
- OXNIZHLAWKMVMX-UHFFFAOYSA-M picrate anion Chemical compound [O-]C1=C([N+]([O-])=O)C=C([N+]([O-])=O)C=C1[N+]([O-])=O OXNIZHLAWKMVMX-UHFFFAOYSA-M 0.000 description 1
- 229920001200 poly(ethylene-vinyl acetate) Polymers 0.000 description 1
- 229920000747 poly(lactic acid) polymer Polymers 0.000 description 1
- 229920000058 polyacrylate Polymers 0.000 description 1
- 239000004632 polycaprolactone Substances 0.000 description 1
- 229920001610 polycaprolactone Polymers 0.000 description 1
- 239000004626 polylactic acid Substances 0.000 description 1
- 229920001282 polysaccharide Polymers 0.000 description 1
- 229920001296 polysiloxane Polymers 0.000 description 1
- 229920000136 polysorbate Polymers 0.000 description 1
- 229920002635 polyurethane Polymers 0.000 description 1
- 239000004814 polyurethane Substances 0.000 description 1
- 229920000036 polyvinylpyrrolidone Polymers 0.000 description 1
- 239000001267 polyvinylpyrrolidone Substances 0.000 description 1
- 235000013855 polyvinylpyrrolidone Nutrition 0.000 description 1
- ZLMJMSJWJFRBEC-UHFFFAOYSA-N potassium Chemical compound [K] ZLMJMSJWJFRBEC-UHFFFAOYSA-N 0.000 description 1
- 229910052700 potassium Inorganic materials 0.000 description 1
- 239000011591 potassium Substances 0.000 description 1
- 235000010241 potassium sorbate Nutrition 0.000 description 1
- 239000004302 potassium sorbate Substances 0.000 description 1
- 229920001592 potato starch Polymers 0.000 description 1
- 239000000843 powder Substances 0.000 description 1
- OZAIFHULBGXAKX-UHFFFAOYSA-N precursor Substances N#CC(C)(C)N=NC(C)(C)C#N OZAIFHULBGXAKX-UHFFFAOYSA-N 0.000 description 1
- 108090000765 processed proteins & peptides Proteins 0.000 description 1
- 102000004196 processed proteins & peptides Human genes 0.000 description 1
- 239000000047 product Substances 0.000 description 1
- OFOBLEOULBTSOW-UHFFFAOYSA-L propanedioate Chemical compound [O-]C(=O)CC([O-])=O OFOBLEOULBTSOW-UHFFFAOYSA-L 0.000 description 1
- XBDQKXXYIPTUBI-UHFFFAOYSA-M propionate Chemical compound CCC([O-])=O XBDQKXXYIPTUBI-UHFFFAOYSA-M 0.000 description 1
- 125000004076 pyridyl group Chemical group 0.000 description 1
- 150000003233 pyrroles Chemical class 0.000 description 1
- 125000000168 pyrrolyl group Chemical group 0.000 description 1
- 238000005956 quaternization reaction Methods 0.000 description 1
- 238000001959 radiotherapy Methods 0.000 description 1
- 230000000306 recurrent Effects 0.000 description 1
- 230000003252 repetitive Effects 0.000 description 1
- 230000004044 response Effects 0.000 description 1
- 239000003340 retarding agent Substances 0.000 description 1
- 239000003813 safflower oil Substances 0.000 description 1
- 235000005713 safflower oil Nutrition 0.000 description 1
- 201000007416 salivary gland adenoid cystic carcinoma Diseases 0.000 description 1
- 125000002914 sec-butyl group Chemical group [H]C([H])([H])C([H])([H])C([H])(*)C([H])([H])[H] 0.000 description 1
- 238000005204 segregation Methods 0.000 description 1
- 201000008123 signet ring cell adenocarcinoma Diseases 0.000 description 1
- 150000004760 silicates Chemical class 0.000 description 1
- VYPSYNLAJGMNEJ-UHFFFAOYSA-N silicium dioxide Chemical compound O=[Si]=O VYPSYNLAJGMNEJ-UHFFFAOYSA-N 0.000 description 1
- 235000012239 silicon dioxide Nutrition 0.000 description 1
- 239000001187 sodium carbonate Substances 0.000 description 1
- 229910000029 sodium carbonate Inorganic materials 0.000 description 1
- 235000019812 sodium carboxymethyl cellulose Nutrition 0.000 description 1
- 229920001027 sodium carboxymethylcellulose Polymers 0.000 description 1
- 239000001509 sodium citrate Substances 0.000 description 1
- VQOIVBPFDDLTSX-UHFFFAOYSA-M sodium;3-dodecylbenzenesulfonate Chemical compound [Na+].CCCCCCCCCCCCC1=CC=CC(S([O-])(=O)=O)=C1 VQOIVBPFDDLTSX-UHFFFAOYSA-M 0.000 description 1
- WSWCOQWTEOXDQX-UHFFFAOYSA-N sorbic acid Chemical compound CC=CC=CC(O)=O WSWCOQWTEOXDQX-UHFFFAOYSA-N 0.000 description 1
- 235000010199 sorbic acid Nutrition 0.000 description 1
- 239000004334 sorbic acid Substances 0.000 description 1
- 239000003549 soybean oil Substances 0.000 description 1
- 235000012424 soybean oil Nutrition 0.000 description 1
- 238000001228 spectrum Methods 0.000 description 1
- 201000001480 spindle cell carcinoma Diseases 0.000 description 1
- 239000007921 spray Substances 0.000 description 1
- 239000003381 stabilizer Substances 0.000 description 1
- 239000008107 starch Substances 0.000 description 1
- 239000007858 starting material Substances 0.000 description 1
- QIQXTHQIDYTFRH-UHFFFAOYSA-M stearate Chemical compound CCCCCCCCCCCCCCCCCC([O-])=O QIQXTHQIDYTFRH-UHFFFAOYSA-M 0.000 description 1
- 239000008223 sterile water Substances 0.000 description 1
- 239000003206 sterilizing agent Substances 0.000 description 1
- 230000035882 stress Effects 0.000 description 1
- 238000010254 subcutaneous injection Methods 0.000 description 1
- 239000007929 subcutaneous injection Substances 0.000 description 1
- 125000000547 substituted alkyl group Chemical group 0.000 description 1
- 125000003107 substituted aryl group Chemical group 0.000 description 1
- 229940086735 succinate Drugs 0.000 description 1
- KDYFGRWQOYBRFD-UHFFFAOYSA-L succinate(2-) Chemical compound [O-]C(=O)CCC([O-])=O KDYFGRWQOYBRFD-UHFFFAOYSA-L 0.000 description 1
- 235000000346 sugar Nutrition 0.000 description 1
- 150000008163 sugars Chemical class 0.000 description 1
- 125000000475 sulfinyl group Chemical group [*:2]S([*:1])=O 0.000 description 1
- 125000006296 sulfonyl amino group Chemical group [H]N(*)S(*)(=O)=O 0.000 description 1
- 239000004094 surface-active agent Substances 0.000 description 1
- 238000001356 surgical procedure Methods 0.000 description 1
- 230000002459 sustained Effects 0.000 description 1
- 239000003765 sweetening agent Substances 0.000 description 1
- 238000010189 synthetic method Methods 0.000 description 1
- 239000006188 syrup Substances 0.000 description 1
- 235000020357 syrup Nutrition 0.000 description 1
- 239000011975 tartaric acid Substances 0.000 description 1
- 229960001367 tartaric acid Drugs 0.000 description 1
- 235000002906 tartaric acid Nutrition 0.000 description 1
- 229940095064 tartrate Drugs 0.000 description 1
- 238000003419 tautomerization reaction Methods 0.000 description 1
- 125000000999 tert-butyl group Chemical group [H]C([H])([H])C(*)(C([H])([H])[H])C([H])([H])[H] 0.000 description 1
- 125000005931 tert-butyloxycarbonyl group Chemical group [H]C([H])([H])C(OC(*)=O)(C([H])([H])[H])C([H])([H])[H] 0.000 description 1
- 125000001712 tetrahydronaphthyl group Chemical group C1(CCCC2=CC=CC=C12)* 0.000 description 1
- JOXIMZWYDAKGHI-UHFFFAOYSA-M toluene-4-sulfonate Chemical compound CC1=CC=C(S([O-])(=O)=O)C=C1 JOXIMZWYDAKGHI-UHFFFAOYSA-M 0.000 description 1
- 230000002588 toxic Effects 0.000 description 1
- 231100000331 toxic Toxicity 0.000 description 1
- 231100000027 toxicology Toxicity 0.000 description 1
- 235000010487 tragacanth Nutrition 0.000 description 1
- 239000000196 tragacanth Substances 0.000 description 1
- 230000037317 transdermal delivery Effects 0.000 description 1
- 230000001131 transforming Effects 0.000 description 1
- 125000006168 tricyclic group Chemical group 0.000 description 1
- 125000002023 trifluoromethyl group Chemical group FC(F)(F)* 0.000 description 1
- 125000004385 trihaloalkyl group Chemical group 0.000 description 1
- 239000011778 trisodium citrate Substances 0.000 description 1
- 229910052722 tritium Inorganic materials 0.000 description 1
- YZCKVEUIGOORGS-NJFSPNSNSA-N tritium Chemical compound [3H] YZCKVEUIGOORGS-NJFSPNSNSA-N 0.000 description 1
- ZDPHROOEEOARMN-UHFFFAOYSA-M undecanoate Chemical compound CCCCCCCCCCC([O-])=O ZDPHROOEEOARMN-UHFFFAOYSA-M 0.000 description 1
- NQPDZGIKBAWPEJ-UHFFFAOYSA-M valerate Chemical class CCCCC([O-])=O NQPDZGIKBAWPEJ-UHFFFAOYSA-M 0.000 description 1
- 230000002792 vascular Effects 0.000 description 1
- 235000013311 vegetables Nutrition 0.000 description 1
- 229920002554 vinyl polymer Polymers 0.000 description 1
- 238000002424 x-ray crystallography Methods 0.000 description 1
- 150000003751 zinc Chemical class 0.000 description 1
Classifications
-
- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
- A61P31/12—Antivirals
-
- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
- A61P31/12—Antivirals
- A61P31/14—Antivirals for RNA viruses
-
- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
- A61P31/12—Antivirals
- A61P31/20—Antivirals for DNA viruses
-
- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
- A61P31/12—Antivirals
- A61P31/20—Antivirals for DNA viruses
- A61P31/22—Antivirals for DNA viruses for herpes viruses
-
- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P35/00—Antineoplastic agents
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07D—HETEROCYCLIC COMPOUNDS
- C07D207/00—Heterocyclic compounds containing five-membered rings not condensed with other rings, with one nitrogen atom as the only ring hetero atom
- C07D207/02—Heterocyclic compounds containing five-membered rings not condensed with other rings, with one nitrogen atom as the only ring hetero atom with only hydrogen or carbon atoms directly attached to the ring nitrogen atom
- C07D207/30—Heterocyclic compounds containing five-membered rings not condensed with other rings, with one nitrogen atom as the only ring hetero atom with only hydrogen or carbon atoms directly attached to the ring nitrogen atom having two double bonds between ring members or between ring members and non-ring members
- C07D207/34—Heterocyclic compounds containing five-membered rings not condensed with other rings, with one nitrogen atom as the only ring hetero atom with only hydrogen or carbon atoms directly attached to the ring nitrogen atom having two double bonds between ring members or between ring members and non-ring members with hetero atoms or with carbon atoms having three bonds to hetero atoms with at the most one bond to halogen, e.g. ester or nitrile radicals, directly attached to ring carbon atoms
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
- C07H1/00—Processes for the preparation of sugar derivatives
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
- C07K14/001—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof by chemical synthesis
- C07K14/003—Peptide-nucleic acids (PNAs)
Abstract
The disclosure relates to guanidinyl-substituted polyamides of the abstract figure, wherein m is 5-12; n is 4-10; G is a guanidinyl radical; each X is independently selected from 4-amino-2-carbonyl-N-methylimidazole, 4-amino-2-carbonyl-N-methylpyrrole or 6-alanine; gammaq is g-aminobutyric acid, 2,4-diaminobutyric acid or H2N(CH2)2CH(NHC(=O)NHR)CO2H, wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2 or -(CH2)3-N(CH3)2 and A is 3,3'-diamino-N-methyldipropylamine or 3-(dimethylamino)propylamine. The disclosure also relates to their use for binding double-stranded DNA in a sequence-specific manner and treating cancer and an infection is caused by HPV, Epstein-Barr viruses, herpes viruses, adenoviruses, BK and pox viruses. -diaminobutyric acid or H2N(CH2)2CH(NHC(=O)NHR)CO2H, wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2 or -(CH2)3-N(CH3)2 and A is 3,3'-diamino-N-methyldipropylamine or 3-(dimethylamino)propylamine. The disclosure also relates to their use for binding double-stranded DNA in a sequence-specific manner and treating cancer and an infection is caused by HPV, Epstein-Barr viruses, herpes viruses, adenoviruses, BK and pox viruses.
Description
WO 55825
INYL-SUBSTITUTED POLYAMIDES USEFUL FOR TREATING
HUMAN PAPILLOMA VIRUS
CROSS-REFERENCES TO RELATED APPLICATIONS
This application claims the benefit of the following provisional
application, the entire sure of which is incorporated herein by reference for all
purposes: U.S. Prov. App. No. 61/545,311 filed October 10, 2011 by James K.
Bashkin et al. and entitled "GUANIDINYL-SUBSTITUTED POLYAMIDES
USEFUL FOR TREATING HUMAN PAPILLOMA VIRUS.”
STATEMENT REGARDING FEDERALLY RED RESEARCH OR
DEVELOPMENT
This invention was made with support under NIH grant 2R42A1068159,
awarded by the National Institute of Allergy and Infectious Diseases (NIAID), part of
the National Institutes of Health; the United States federal government, therefore, has
certain rights in the invention.
THE NAMES OF THE PARTIES TO A JOINT RESEARCH AGREEMENT
Not Applicable.
INCORPORATION-BY-REFERENCE OF MATERIAL SUBMITTED ON A
T DISC
Not Applicable.
BACKGROUND OF THE INVENTION
Field of the Invention
The present invention relates to polyamide compounds and the therapeutic
uses of such compounds, such as therapies for treatment of ts infected with
human papilloma virus (HPV).
Description of Related Art
Human papilloma virus is a small double-stranded DNA virus that
colonizes various stratified epithelia like skin, oral and genital mucosa, and induces
the formation of self-limiting benign tumors known as papillomas (warts) or
condylomas. Most of these benign tumors naturally s due to the ce of
host immunological defenses. Some HPVs, however, have oncogenic potential and
have been associated with certain types of cancers. See, Lorincz et al., Obstetrics &
Gynecology, 79:328-337 (1992); Beaudenon et al., , 321:246-249 (1986); and
Holloway et al., Gynecol. 0nc., 41:123-128 (1991).
HPV is the most prevalent, sexually transmitted virus. More than 35 HPV
genotypes are known to be sexually transmitted, but a subset accounts for the ty
of ano-genital infections. Among these most common HPV types are two forms with
high risk for carcinogenic progression (HPV16 and HPV18), and two forms that cause
the majority of genital warts (HPV6 and HPV11).
An estimated 5.5 million people become infected with HPV each year in
the United States, and an estimated 20 million Americans are tly infected
(Cates and et al., Lancet, 354, Suppl. SIV62, 1999). Approximately 75 percent of the
male and female reproductive-age population has been infected with sexually
transmitted HPV, though the main public health risk is to women through cervical
cancer (Koutsky, Am. J. Med., 102(5A), 3-8, 1997). Thus, millions of people in the
U.S. alone require treatment each year. It is important to note that PAP smears
represent the largest public health screening program in the world, and that the test is,
essentially, a measure of HPV infection. The current standard for managing a positive
PAP smear is w up". In general, no treatment is recommended unless an
advanced stage of cervical dysplasia is observed (CDC ly Transmitted Diseases
Treatment Guidelines, 2002).
Significant need exists in HPV positive subjects for effective HPV
antiviral drugs. At present, no ic treatments exist for HPV or warts. TM
(Imiquimod), an modulator used for ng external genital warts, is the
most successful ent on the market. An effective, specific HPV treatment has the
potential to significantly e upon, and effectively compete with, Imiquimod.
The majority of human al carcinomas (95%) contain and express
HPV DNA and it is the expression of two viral oncoproteins, E6 and E7 that appears
to be critical for cellular transformation and maintenance of the transformed state.
Specifically, four HPV types (HPV-16, HPV-18, HPV-31, and HPV-45) have been
connected to 75-93% of the cases of cervical cancer in the United States. It has been
estimated that perhaps twenty percent (20%) of all cancer deaths in women worldwide
are from cancers that are associated with HPV.
HPV also causes anal cancer, with about 85 percent of all cases caused by
. HPV types 16 and 18 have also been found to cause close to half of vaginal,
vulvar, and penile cancers.
Most ly, HPV infections have been found to cause cancer of the
oropharynx, which is the middle part of the throat including the soft palate, the base
of the tongue, and the tonsils. In the United States, more than half of the cancers
diagnosed in the oropharynx are linked to HPV-16.
HPVs are grouped into types based on the uniqueness of their DNA
sequence.
HPVs can be further classified as either high or low risk based on the
clinical lesions with which they are associated or the ve propensity for these
lesions to progress to cancer. Low risk cutaneous types, such as HPV types HPV-1,
HPV-2, HPV-3, HPV-4, HPV-5, HPV-7, HPV-8, and HPV-9 cause common warts
(verrucae vulgaris), plantar warts (verrucae ris), mosaic warts, flat warts
(verrucae plane), and butcher warts. Furthermore, HPV types HPV-6 and HPV-11
cause warts of the external lia, anus and . High-risk types, such as HPV-
16, HPV-18, HPV-31, HPV-33 and HPV45 are particularly common in intraepithelial
carcinomas, neoplasias and cancers. In particular, the genomes of two HPV types,
HPV-16 and HPV-18, have been found to be associated with about 70 invasive
carcinomas of the uterine cervix, as well as cancers of the oro-pharynx, anus, and
other mucosal s.
t treatment for HPV infection is extremely limited. Management
normally involves physical destruction of the wart by al, rgical, chemical,
or laser removal of infected tissue. Some of these current treatments, like laser
removal and surgery, are ive and e the use of anesthesia to numb the area
to be treated. Cryosurgical removal requires the use of special equipment.
Furthermore, most subjects experience moderate pain during and after the procedure.
Topical creams and solutions such as preparations of 5-fluorouracil,
Imiquimod, cidofovir, formaldehyde, glutaral, cimetidine, tricholoroacetic acid,
bleomycin, podofilox and podophyllum preparations have also been used. (Reichman
in Harrison's 7 Principles of Internal ne, 13th Ed. (Isselbacher et al., eds.);
-Hill, Inc., NY (1993) pp. 3). Recurrence after these treatments,
however, is common, most likely because the virus remains latent within the host
epithelial cells. Therefore, subsequent repetitive treatments must be used, which can
destroy healthy tissue. These ents are not available or approved for treatment of
cervical infections.
Interferon has also been employed as a treatment for persistent HPV
infections and warts. However, its effectiveness is limited. Chang et al. (2002)
l of Virology 76: 4, found some cells infected with HPV genomes
became resistant to interferon ent after only a few applications. See also
Cowsert (1994) Intervirol. 37:226-230; Bomstein et al. (1993) Obstetrics Gynecol.
Sur. 4504:252-260; Browder et al. (1992) Ann. Pharmacother. 26:42-45.
Thus, there is a need for therapeutics for treating a number of diseases and
conditions as ed .
BRIEF SUMMARY OF THE INVENTION
The present invention provides polyamides, polyamide-containing
compositions, methods for treating HPV infected cells, and s for treating
subjects infected with HPV. In some embodiments, the polyamide antiviral agents are
well suited for treating laryngeal papillomatosis, cervical dysplasia and cancer and
recurrent atory papillomatosis (RRP).
The polyamides of the t invention may be generally described as
polymeric or oligomeric molecules containing a plurality of carboxamide repeating
units such as those represented in Figure 1 and at least one guanidinyl radical per
molecule. In one embodiment, the polyamide is a nd having a polyamide
backbone containing an interior unit selected from y-aminobutyric acid (y); 2,4-
diaminobutyric acid (YNHZ), which may be either the (R) or (S) isomer and which may
be linked in to the backbone of the polyamide through either the 2-amino group (to
form an alpha turn) or through the 4-amino group (to form a gamma turn); or
H2N(CH2)2CH(NHC(=O)NHR)C02H (either the (R) or (S) isomer), wherein R is -
(CH2)3-N(CH3)-(CH2)3-NH2 (YNHR’) 0T '(CH2)3-N(CH3)2 ('YNHR”), and at least one
guanidinyl radical pendant to 2,4-diaminobutyric acid (YNHZ), and/or pendant to
H2N(CH2)2CH(NHC(=O)NHR)C02H, wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2
('YNHR’), and/or at a terminal position of the polyamide backbone. The compound may
be a pharmaceutically acceptable salt of such a polyamide. In the context of this
invention, “interior” means at a position along the polymer ne other than the
terminal (end) positions or immediately adjacent to the terminal positions. The
polyamide backbone may, in addition to the aforementioned or unit, contain a
plurality of units (for example, 5 to 30, or 7 to 28, or 9 to 24, or 11 to 22 or 15 to 21 or
16 to 21 units) selected from the group consisting of 4-aminocarbonyl-N-
imidazole (Im), 4-aminocarbonyl-N-methylpyrrole (Py) and B-alanine (B).
In one aspect of the invention, the guanidinyl radical is connected to a
terminal 4-aminocarbonyl-N-methylpyrrole (Py) unit (i.e., the primary amine
group initially present in the Py unit becomes part of the guanidinyl radical). In
another aspect of the invention, a des-aminoimidazole (des-Im, Formula XI, Figure 1)
forms the amino-terminus of the molecule and a guanidinyl radical is ed to an
amino group elsewhere in the molecule, on for example the Ta or 'YNHZ group.
In other aspects of the invention, the guanidinyl radical may be
unsubstituted or substituted. That is, the three en atoms present in the
guanidinyl radical may bear substituents other than hydrogen. Such tuents may
be, for example, alkyl, aralkyl and/or aryl groups. es of these variously
substituted inyl radicals and their related tautomers are shown in Figures 8A
and 8B. In one embodiment of the invention, two of the nitrogen atoms each bear two
alkyl groups, such as C1-C4 alkyl groups. For example, the guanidinyl radical may
be tetramethylguanidinyl (TMG).
The compound may contain a C terminus end group selected from 3,3’-
diamino-N-methyldipropylamine (Ta) or 3-(dimethylamino)propylamine (Dp).
In some embodiments, the invention provides a compound of the formula:
Z-<X>n-vq-<X>m-A
or a ceutically acceptable salt thereof, wherein
m is 3-16 (or 4-15, or 5-14, or 6-13 or 7-12);
n is 2-14 (or 3-13, or 3-12, or 4-12, or 4-10);
Z is guanidinylated 4-aminocarbonyl-N-methylpyrrole, N-formylated 4-
aminocarbonyl-N-methylpyrrole, N-acetylated 4-aminocarbonyl-N-
methylpyrrole, or des-aminoimidazole (des-Im, Formula XI, Figure 1);
each X is ndently ed from ocarbonyl-N-
methylimidazole (Im, Formula II, Figure 1), 4-aminocarbonyl-N-
2012/059604
methylpyrrole (Py, Formula I, Figure l) or B-alanine ([3, Formula III, Figure
yq is y-aminobutyric acid (y, Formula IV, Figure l); 2,4-diaminobutyric acid
(YNHz, corresponding to Formula V in Figure 1 when the 2,4-diaminobutyric
acid is the (R) isomer and linkage into the polyamide takes place through the y
amino group); guanidinylated 2,4-diaminobutyric acid; or
2)2CH(NHC(=O)NHR)C02H, wherein R is -(CH2)3-N(CH3)-(CH2)3-
NHZ ('YNHR’, Formula VIII, Figure l), guanidinylated -(CH2)3-N(CH3)-(CH2)3-
NHZ, or -(CH2)3-N(CH3)2 ('YNHR”, Formula IX, Figure l);
A is 3,3’-diamino-N-methyldipropylamine (Ta, Formula VII, Figure l),
guanidinylated 3,3’-diamino-N-methyldipropylamine; or 3-
(dimethylamino)propylamine (Dp, Formula VI, Figure 1);
wherein the nd contains at least one primary amine group that has been
guanidinylated.
In other embodiments, the ion provides a compound of the formula:
G—<X>n-vq-<X>m-A
or a pharmaceutically acceptable salt thereof, n
m is 5-12;
n is 4-10;
G is a guanidinyl radical;
each X is independently selected from 4-aminocarbonyl-N-
imidazole (Im, Formula II, Figure l), 4-aminocarbonyl-N-
methylpyrrole (Py, Formula I, Figure l) or B-alanine ([3, Formula III, Figure
yq is y-aminobutyric acid (y, Formula IV); 2,4-diaminobutyric acid (YNHz,
corresponding to Formula V when the 2,4-diaminobutyric acid is the (R)
isomer and linkage into the polyamide takes place through the y amino group);
or H2N(CH2)2CH(NHC(=O)NHR)COZH, wherein R is -(CH2)3-N(CH3)-
(CH2)3-NH2 ’, Formula VIII) or -(CH2)3-N(CH3)2 ('YNHR”, Formula IX);
A is 3,3’-diamino-N-methyldipropylamine (Ta, a VII) or 3-
(dimethylamino)propylamine (Dp, Formula VI).
In n embodiments, m is 10 or 11. In other embodiments, m is 5, 6, 7,
8, or 9. In other embodiments, n is 7, 8, or 9. In other embodiments, n is 4, 5 or 6. In
still other embodiments, the compound contains no more than 2, or no more than 1,
Im units per molecule. In another embodiment, the compound does not n any
Im units in the structural sequence -(X)m- and/or in the structural sequence -(X)n-.
The structural ce -(X)n- may, in n embodiments, contain 1, 2 or 3 [3 units.
If the structural sequence -(X)n- or -(X)m- contains more than one [3 unit, all such units
may be separated by at least one Im and/or Py unit. The polyamide may contain a [3
unit adjacent to the end group A. The polyamide may contain a Py unit adjacent to
the other end group G. The structural sequence -(X)m- may, in certain ments,
contain 2, 3, 4 or 5 [3 units. The polyamide compound may, in certain embodiments
of the invention, be characterized by the absence of [3 units adjacent to each other.
In other embodiments, the compound can be:
aaaaaaaaaaaaaaaaaaaaaaMG-PyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyPy-Ta;MG-PyPyPyBPyPyBPyIm-YNHRv-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPy-YNHRv-PyPyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyPyBPyPyBPyIm-rNHz-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyl3-Ta;MG-PyPyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Dp;MG-PyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;MG-PyPyPyBPyPyBPy-YNHRvv-PyPyPyBPyPyPyBPyB-Dp;MG-PyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;MG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;MG-PyPyl3PyPyPy-Y—PyPyBPyPyPyPyB-Ta;MG-PyPyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;MG-PyPyl3PyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;MG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyBPyPyl3PyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyBPyPyBPyIm-Y-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;MG-PyPyBPyPyBPyIm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;
or a pharmaceutically acceptable salt thereof or a e thereof.
In another embodiment, the invention provides a pharmaceutical
composition comprising a therapeutically effective amount of one or more compounds
described above and a pharmaceutically acceptable carrier.
WO 55825
In an aspect of the embodiment, the composition further ses an anti-
viral agent. The anti-viral agent can be, for example, an Interferon, Imiquimod,
cidofovir, formaldehyde, glutaral, cimetidine, 5-f1uorouracil, trichloroacetic acid,
cin, podofilox or podophyllum.
In another embodiment, the invention provides a method for binding
double-stranded DNA in a sequence-specific manner, comprising contacting a DNA-
target sequence within said DNA with a DNA-binding compound of one or more
compounds described herein, in conditions allowing said binding to occur. The
method may be carried out in vivo, in vitro or ex vivo. Further, it may be carried out
in a cell, and the double stranded DNA may nous or heterologous to the cell.
Polyamide binding affinity and sequence specificity may be determined
via qualitative and quantitative footprint titration experiments known in the art (see
Brenowitz, M.; Senear, D. F.; Shea, M. A.; Ackers, G. K. Methods Enzymol. 1986,
130, 132; Mitra, S.; Shcherbakova, I. V.; Altman, R. B.; Brenowitz, M.; Laederach,
A. Nucl. Acids Res. 2008, 36, e63; White, S.; Baird, E. E.; Dervan, P. B. Biochemistry
1996, 35, 12532; and White, S.; Baird, E. E.; Dervan, P. B. Chemistry & y
1997, 4, 569; all of which are incorporated herein by nce. )
Polyamides of the t invention may useful for detecting the presence
of double stranded DNA of a specific sequence for stic or preparative purposes.
The sample containing the double stranded DNA may be contacted by polyamide
linked to a solid substrate, thereby ing DNA comprising a desired sequence.
atively, polyamides linked to a suitable detectable marker, such as biotin, a
hapten, a radioisotope or a dye molecule, can be contacted by a sample containing
double ed DNA.
In yet another embodiment, the invention provides a method of reducing or
ting proliferation of neoplastic cells, comprising contacting the cells with an
effective amount of one or more compounds described above. These neoplastic cells
may be cancer cells, ing selected from the group consisting of colon carcinoma
cells, hepatocellular carcinoma cells, al carcinoma cells, lung
epidermocarcinoma cells, mammary gland adenocarcinoma cells, pancreatic
carcinoma cells, prostatic carcinoma cells, osteosarcoma cells, melanoma cells, acute
promyelocytic leukemia cells, acute lymphoblastic leukemia cells, hepatocancreatico
adenocarcinoma cells and Burkitt's lymphoma B cells.
The present invention further provides a method of treating virus ed
cells sing contacting the cells with an effective amount of a polyamide in
accordance with the invention. The virus may be HPV, or other double-stranded
DNA viruses. A subject infected with HPV may be treated by a method, which
comprises administering to the subject an ive amount of a polyamide having a
structure as described herein. The polyamide compound may be administered in the
form of a pharmaceutical composition comprising the compound and a
ceutically acceptable carrier.
In still another embodiment, the invention provides a method of treating
HPV ed cells comprising contacting the cells with a compound described herein.
In an aspect of the invention, the method further comprises ting the cells with
an anti-viral agent. The anti-viral agent can be, for example, an Interferon,
Imiquimod, cidofovir, formaldehyde, glutaral, cimetidine, 5-fluorouracil,
trichloroacetic acid, bleomycin, podofilox or podophyllum.
In yet another ment, the invention provides a method of treating
HPV affected cells in a subject, comprising administering to a subject a nd or
pharmaceutical composition described herein. In an aspect of the invention, the
method further comprises contacting the cells with an anti-viral agent. The anti-viral
agent can be, for example, an Interferon, Imiquimod, cidofovir, formaldehyde,
glutaral, cimetidine, rouracil, oroacetic acid, cin, podofilox or
podophyllum. In another aspect, the HPV can be HPVl, HPV6, HPVl l, HPVl6,
HPV18, HPV31, HPV33, HPV35, HPV39, HPV45, HPV51, HPV52, HPV56,
HPV58, HPV59, HPV66 or HPV68.
In other embodiments, the invention provides a method of treating HPVl6
affected cells comprising administering to a subject a compound described herein.
In other embodiments, the invention provides a method of treating HPVl6,
HPVlS or HPV31 affected cells comprising administering to a subject a compound of
the formula TMG-(X)n-yq-(X)m-A, or a pharmaceutically acceptable salt thereof,
n m is 5, 6, 7, 8, 9, 10 or 11, n is 4, 5, 6, 7, 8, 9, 10 or 11; and the other
tuents are as described above.
In other embodiments, the invention provides a method of ng HPV16,
HPVlS and/or HPV31 affected cells in a subject by administering to a subject an
effective amount of a compound selected from:
TMG-PyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyPy-Ta;
aaaaaaaaaaaaaaaaaaaaaMG-PyPyPyBPyPyBPyIm-YNHRv-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPy-YNHRv-PyPyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyPyBPyPyBPyIm-YNHz-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyl3-Ta;MG-PyPyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Dp;MG-PyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;MG-PyPyPyBPyPyBPy-Y-NHRvv-PyPyPyBPyPyPyBPyB-Dp;MG-PyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;MG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;MG-PyPyl3PyPyPy-Y—PyPyBPyPyPyPyB-Ta;MG-PyPyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;MG-PyPyl3PyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;MG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyBPyPyl3PyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;MG-PyPyBPyPyBPyIm-Y-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;MG-PyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;MG-PyPyBPyPyBPyIm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;MG-PyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;MG-PyPyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;
or a pharmaceutically acceptable salt thereof or a mixture thereof.
In certain aspects of the embodiment, the aforementioned method r
ses administering an antiviral agent. The ral agent can be, for example an
Interferon, Imiquimod, cidofovir, formaldehyde, glutaral, cimetidine, 5-fluorouracil,
trichloroacetic acid, bleomycin, podofilox or podophyllum.
The polyamides of this invention exhibit in vitro efficacy against HPV
superior to that of cidofovir or interferon for treatment of lated diseases. These
diseases may include genital or coetaneous warts, HPV infections of oral or genital
tissues including cervical epithelia, anal cancers, stic or hyper proliferative
lesions caused by the HPV, conjunctiva papillomas, condyloma accumulata and
ent respiratory papillomatosis (RRP).
BRIEF DESCRIPTION OF THE GS
Figure 1 illustrates the structures of various building blocks that may be
present in the polyamides of the present ion.
Figure 2 illustrates the structure of a particular exemplary polyamide in
accordance with the invention (compound NV1096).
Figure 3 illustrates a synthetic route that may be employed to provide a
guanidinylated polyamide in accordance with the invention wherein the guanidinyl
radical is tetrasubstituted.
Figure 4 illustrates a synthetic route which may be employed to provide a
guanidinylated polyamide in accordance with the invention n the guanidinyl
radical is unsubstituted (i.e., the nitrogen atoms in the guanidinyl radical do not bear
any substituents other than hydrogen).
Figure 5 illustrates a synthetic route that may be employed to provide a
guanidinylated polyamide in accordance with the invention wherein the guanidinyl
radical is bstituted or gem-disubstituted.
Figure 6 rates a synthetic route which may be ed to provide a
guanidinylated polyamide in accordance with the invention wherein the guanidinyl
radical is N,N’-disubstituted, N,N,N’-trisubstituted, or N,N,N’,N’-tetrasubstituted.
Figure 7 illustrates a synthetic route which may be ed to e a
guanidinylated polyamide in accordance with the ion wherein the guanidinyl
radical is N,N’-disubstituted or N,N’,N’-trisubstituted.
Figures 8A and 8B illustrate various types of inyl radicals,
including different substitution patterns and tautomers, which may be present in the
polyamides of the present invention.
Figure 9 illustrates a footprinting experiment of NV1087 on a sequence of
HPVl6 (365 bp: 7662-122). All reactions were carried out in presence of DMSO and
CHAPS, and the final DNA concentration was 200 pM. The polyamide concentration
varied (2 nM and 5 nM). Reactions were ted with polyamide at 370 C for 5-6
hrs. The decrease in peak heights relative to the reference peak is interpreted to mean
that increasing polyamide concentration protects the DNA from digestion by DNase I.
DETAILED DESCRIPTION OF THE INVENTION
Abbreviations and Definitions
To facilitate understanding of the invention, a number of terms and
abbreviations as used herein are defined below as follows:
As used herein, the term astic cells" refer to abnormal cells that
grow by cellular proliferation more rapidly than normal. As such, neoplastic cells of
the invention can be cells of a benign neoplasm or can be cells of a malignant
neoplasm. As used herein, the term "neoplastic e" refers to a condition in a
t that is caused by, or associated with, the presence of neoplastic cells in the
patient. Cancer is one example of a neoplastic disease. In certain aspects, the
neoplastic cells are cancer cells. The cancer cells can be any type of cancer, including,
for example, a carcinoma, ma, leukemia, sarcoma or lymphoma.
The term "carcinoma" refers to a malignant new growth made up of
lial cells tending to infiltrate the nding tissues and give rise to metastases.
Carcinomas which can be treated with an environmental influencer of the ion
include, but are not limited to, for example, acinar carcinoma, acinous carcinoma,
adenocystic carcinoma, adenoid cystic carcinoma, carcinoma adenomatosum,
carcinoma of adrenal cortex, alveolar carcinoma, alveolar cell carcinoma, basal cell
carcinoma, carcinoma basocellulare, basaloid carcinoma, basosquamous cell
carcinoma, ioalveolar carcinoma, bronchiolar carcinoma, bronchogenic
carcinoma, cerebriform oma, cholangiocellular carcinoma, chorionic oma,
d carcinoma, comedo carcinoma, corpus carcinoma, form carcinoma,
carcinoma en cuirasse, carcinoma cutaneum, cylindrical carcinoma, cylindrical cell
oma, duct carcinoma, carcinoma durum, embryonal carcinoma, encephaloid
oma, epiermoid carcinoma, carcinoma epitheliale adenoides, exophytic
carcinoma, carcinoma ex ulcere, carcinoma fibrosum, gelatiniform carcinoma,
gelatinous oma, giant cell carcinoma, carcinoma gigantocellulare, glandular
carcinoma, granulosa cell carcinoma, hair-matrix carcinoma, hematoid carcinoma,
hepatocellular carcinoma, Hurthle cell carcinoma, hyaline carcinoma, hypemephroid
carcinoma, infantile embryonal carcinoma, carcinoma in situ, intraepidermal
carcinoma, intraepithelial carcinoma, Krompecher's carcinoma, Kulchitzky-cell
carcinoma, large-cell carcinoma, lenticular carcinoma, oma lenticulare,
lipomatous carcinoma, epithelial carcinoma, carcinoma medullare, medullary
WO 55825
carcinoma, melanotic carcinoma, carcinoma molle, us carcinoma, carcinoma
muciparum, carcinoma mucocellulare, mucoepidermoid carcinoma, carcinoma
mucosum, mucous carcinoma, carcinoma myxomatodes, aryngeal carcinoma,
oat cell carcinoma, carcinoma ossificans, osteoid carcinoma, papillary carcinoma,
periportal carcinoma, preinvasive carcinoma, prickle cell carcinoma, pultaceous
carcinoma, renal cell carcinoma of kidney, reserve cell carcinoma, carcinoma
atodes, schneiderian carcinoma, scirrhous carcinoma, carcinoma scroti, signet-
ring cell carcinoma, carcinoma simplex, small-cell carcinoma, solanoid carcinoma,
spheroidal cell carcinoma, spindle cell carcinoma, carcinoma osum, squamous
carcinoma, squamous cell carcinoma, string carcinoma, carcinoma telangiectaticum,
oma telangiectodes, tional cell carcinoma, carcinoma tuberosum, tuberous
carcinoma, verrucous carcinoma, and carcinoma villosum.
For purposes of this invention, the chemical elements are identified in
accordance with the Periodic Table of the Elements, CAS version, Handbook of
Chemistry and Physics, 75Lh Ed. Additionally, general principles of organic chemistry
are described in ic try", Thomas Sorrell, University Science Books,
Sausalito: 1999, and "March's Advanced Organic Chemistry", 5th Ed., Ed.: Smith, M.
B. and March, J
., John Wiley & Sons, New York: 2001.
As used , an effective amount is defined as the amount required to
confer a therapeutic effect on the treated subject, and is typically determined based on
age, surface area, weight and condition of the subject. The interrelationship of
dosages for animals and humans (based on milligrams per meter squared of body
surface) is described by Freireich et al., Cancer Chemother. Rep, 50: 219 .
Body surface area may be approximately determined from height and weight of the
subject. See, e. g., Scientific Tables, Geigy Pharmaceuticals, Ardsley, New York, 537
(1970). As used herein, "subject" refers to an animal such as a , including a
human.
Unless otherwise stated, structures depicted herein are also meant to
include all isomeric (e. g., enantiomeric, diastereomeric, and geometric (or
conformational)) forms of the ure; for example, the R and S configurations for
each asymmetric center, (Z) and (E) double bond isomers, and (Z) and (E)
conformational isomers. Therefore, single stereochemical isomers as well as
enantiomeric, diastereomeric, and geometric (or conformational) mixtures of the
present compounds are within the scope of the ion. Unless otherwise stated, all
tautomeric forms of the compounds of the invention are within the scope of the
invention. Additionally, unless ise stated, ures depicted herein are also
meant to include nds that differ only in the presence of one or more
isotopically enriched atoms. For example, compounds having the present ures
except for the replacement of hydrogen by deuterium or tritium, or the replacement of
a carbon by a 13C- or 14C—enriched carbon are within the scope of this invention. Such
compounds are useful, for example, as analytical tools or probes in biological assays.
As used herein, an "alkyl" group refers to a saturated aliphatic
hydrocarbon group containing 1-8 (e.g., 1-6 or 1-4) carbon atoms. An alkyl group can
be straight or branched. Examples of alkyl groups include, but are not limited to,
methyl, ethyl, propyl, isopropyl, butyl, isobutyl, sec-butyl, tert-butyl, n-pentyl, n-
heptyl or 2-ethylhexyl. An alkyl group can be substituted (i.e., optionally substituted)
with one or more substituents such as halo; liphatic [e.g., cycloalkyl or
cycloalkenyl]; heterocycloaliphatic [e.g., heterocycloalkyl or heterocycloalkenyl];
aryl; heteroaryl; alkoxy; aroyl; aroyl; acyl [e.g., (aliphatic)carbonyl,
(cycloaliphatic)carbonyl, or (heterocycloaliphatic)carbonyl]; nitro; cyano; amido [e.g.,
(cycloalkylalkyl)carbonylamino, arylcarbonylamino, aralkylcarbonylamino,
(heterocycloalkyl)carbonylamino, (heterocycloalkylalkyl)carbonylamino,
heteroarylcarbonylamino, heteroaralkylcarbonylamino alkylaminocarbonyl,
cycloalkylaminocarbonyl, heterocycloalkylaminocarbonyl, arylaminocarbonyl, or
arylaminocarbonyl]; amino [e.g., ticamino, cycloaliphaticamino, or
heterocycloaliphaticamino]; sulfonyl [e.g., aliphatic-S(O)2-]; yl; sulfanyl;
y; urea; thiourea; sulfamoyl; sulfamide; oxo; carboxy; carbamoyl;
cycloaliphaticoxy; heterocycloaliphaticoxy; aryloxy; heteroaryloxy; aralkyloxy;
arylalkoxy; alkoxycarbonyl; alkylcarbonyloxy; or hydroxy. Without limitation,
some examples of substituted alkyls e carboxyalkyl (such as HOOC-alkyl,
alkoxycarbonylalkyl, and alkylcarbonyloxyalkyl); cyanoalkyl; hydroxyalkyl;
alkoxyalkyl; acylalkyl; aralkyl; (alkoxyaryl)alkyl; (sulfonylamino)alkyl (such as
alkyl-S(O)2-aminoalkyl); aminoalkyl; amidoalkyl; (cycloaliphatic)alkyl; or haloalkyl.
As used herein, an "aryl" group used alone or as part of a larger moiety as
in "aralkyl", "aralkoxy", or "aryloxyalkyl" refers to clic (e. g., phenyl);
bicyclic (e. g., indenyl, naphthalenyl, tetrahydronaphthyl, tetrahydroindenyl); and
tricyclic (e. g., fluorenyl tetrahydrofluorenyl, or tetrahydroanthracenyl, anthracenyl)
ring systems in which the monocyclic ring system is aromatic or at least one of the
rings in a bicyclic or lic ring system is aromatic. The bicyclic and tricyclic
groups e benzofused 2-3 membered carbocyclic rings. For example, a
benzofused group includes phenyl fused with two or more C4_g carbocyclic moieties.
An aryl is optionally substituted with one or more substituents including aliphatic
[e.g., alkyl, alkenyl, or alkynyl]; cycloaliphatic; (cycloaliphatic)aliphatic;
heterocycloaliphatic; (heterocycloaliphatic)aliphatic; aryl; heteroaryl; ;
(cycloaliphatic)oxy; (heterocycloaliphatic)oxy; aryloxy; heteroaryloxy;
(araliphatic)oxy; (heteroaraliphatic)oxy; aroyl; heteroaroyl; amino; oxo (on a non-
aromatic carbocyclic ring of a benzofused bicyclic or tricyclic aryl); nitro; carboxy;
amido; acyl [e.g., aliphaticcarbonyl, (cycloaliphatic)carbonyl,
oaliphatic)aliphatic)carbonyl, (araliphatic)carbonyl,
(heterocycloaliphatic)carbonyl, ((heterocycloaliphatic)aliphatic)carbonyl, or
(heteroaraliphatic)carbonyl]; sulfonyl [e.g., aliphatic-S(O)2- or amino-S(O)2]; sulfinyl
[e.g., aliphatic-S(O)- or cycloaliphatic-S(O)-]; sulfanyl [e.g., aliphatic-S--]; cyano;
halo; hydroxy; mercapto; sulfoxy; urea; thiourea; sulfamoyl; sulfamide; or carbamoyl.
Alternatively, an aryl can be unsubstituted.
Non-limiting examples of substituted aryls include haloaryl [e.g., mono-,
di (such as p, m-dihaloaryl), and (trihalo)aryl]; xy)aryl [e.g.,
(alkoxycarbonyl)aryl, ((aralkyl)carbonyloxy)aryl, and ycarbonyl)aryl];
(amido)aryl [e.g., (aminocarbonyl)aryl, (((alkylamino)alkyl)aminocarbonyl)aryl,
(alkylcarbonyl)aminoaryl, (arylaminocarbonyl)aryl, and
(((heteroaryl)amino)carbonyl)aryl]; aminoaryl [e.g., ((alkylsulfonyl)amino)aryl or
((dialkyl)amino)aryl]; (cyanoalkyl)aryl; y)aryl; (sulfamoyl)aryl [e.g.,
(aminosulfonyl)aryl]; (alkylsulfonyl)aryl; (cyano)aryl; (hydroxyalkyl)aryl;
((alkoxy)alkyl)aryl; (hydroxy)aryl, ((carboxy)alkyl)aryl; (((dialkyl)amino)alkyl)aryl;
(nitroalkyl)aryl; (((alkylsulfonyl)amino)alkyl)aryl;
((heterocycloaliphatic)carbonyl)aryl; ((alkylsulfonyl)alkyl)aryl; (cyanoalkyl)aryl;
(hydroxyalkyl)aryl; (alkylcarbonyl)aryl; ryl; (trihaloalkyl)aryl; p-amino-malkoxycarbonylaryl
; p-amino-m-cyanoaryl; -m-aminoaryl; or (m-
(heterocycloaliphatic)-o-(alkyl))aryl.
As used herein, an "aralkyl" group refers to an alkyl group (e. g., a Cl-4
alkyl group) that is substituted with an aryl group. Both "alkyl" and "aryl" have been
defined above. An example of an aralkyl group is . An aralkyl is ally
substituted with one or more substituents such as aliphatic [e.g., alkyl, alkenyl, or
alkynyl, including yalkyl, hydroxyalkyl, or kyl such as trifluoromethyl];
cycloaliphatic [e.g., cycloalkyl or cycloalkenyl]; (cycloalkyl)alkyl; heterocycloalkyl;
(heterocycloalkyl)alkyl; aryl; aryl; ; cycloalkyloxy; heterocycloalkyloxy;
aryloxy; aryloxy; aralkyloxy; heteroaralkyloxy; aroyl; heteroaroyl; nitro;
carboxy; alkoxycarbonyl; alkylcarbonyloxy; amido [e.g., aminocarbonyl,
arbonylamino, lkylcarbonylamino, (cycloalkylalkyl)carbonylamino,
arylcarbonylamino, aralkylcarbonylamino, (heterocycloalkyl)carbonylamino,
(heterocycloalkylalkyl)carbonylamino, heteroarylcarbonylamino, or
heteroaralkylcarbonylamino]; cyano; halo; hydroxy; acyl; mercapto; alkylsulfanyl;
y; urea; thiourea; sulfamoyl; sulfamide; oxo; or carbamoyl.
HPV Targets
The present ion provides polyamides and analogs of polyamides that
are useful for treating HPV infections and other diseases. Without wishing to be
bound by any particular theory, the anti-HPV activity of the polyamides described
herein provides information for predicting and developing general rules for designing
polyamides against all HPV subtypes, and to other double-stranded DNA viruses. The
methodology is useful in predicting which polyamide structures will possess broad-
spectrum anti-viral activity against other double-stranded DNA viruses, including
n-Barr viruses, herpes viruses, adenoviruses, BK and pox viruses.
Time-course experiments of the anti-HPV action of the polyamides of this
invention led to the discovery that certain active molecules decrease HPV DNA levels
in human nocytes by >90% beginning at times as short as 30 min after drug
treatment.
HPV DNA anchors itself to human chromosomes. The various reasons for
this include a need for close proximity to human DNA replication elements for viral
replication and nuclear maintenance of episomes and proper segregation of viral
episomes into daughter cells during cell division. In addition, while the processes are
poorly understood, viral genomes must evade innate immune systems that ize
and eliminate foreign, or non-self, DNA.
Without being bound by theory, it is possible that polyamides of the
present invention are capable of either displacing the circular HPV genome from the
host chromosomes resulting in their rapid loss and ation of the episome, or that
the binding of polyamides to viral or r DNA activates a process resulting in
specific elimination of viral rather than host DNA sequences. One possible
mechanism for loss of viral DNA may include displacement of the episome from
cellular chromosomes leading first to export of the HPV DNA from the host nucleus
and second to rapid enzymatic degradation of the HPV DNA by nuclease enzymes.
An additional conclusion is that a major reason for tethering of HPV DNA to host
chromosomes is to protect the viral DNA from this degradative pathway.
Alternatively, the polyamides may alter the physical properties of episomal DNA in
the nucleus resulting in recognition and elimination of the foreign DNA by host
e mechanisms. These predictions can be extended to other drugs that bind to the
DNA minor groove, and they can be extended to other double-stranded DNA viruses,
including Epstein Barr viruses, that employ r or related gies for episomal
maintenance.
Thus, these molecules may be useful for binding -stranded DNA in
a sequence-specific manner, comprising contacting a DNA-target sequence within
said DNA with a DNA-binding compound described , in conditions allowing
the binding to occur. This may be carried out in vivo, in vitro or ex vivo. Further, the
method may be d out in a cell, and the double stranded DNA may be
endogenous or heterologous to the cell.
ide binding ty and sequence specificity may be determined
via qualitative and quantitative footprint titration ments known in the art (see
Brenowitz, M.; Senear, D. F.; Shea, M. A.; Ackers, G. K. Methods Enzymol. 1986,
130, 132; Mitra, S.; Shcherbakova, I. V.; Altman, R. B.; Brenowitz, M.; Laederach,
A. Nucl. Acids Res. 2008, 36, e63; White, S.; Baird, E. E.; Dervan, P. B. mistry
1996, 35, 12532; and White, S.; Baird, E. E.; Dervan, P. B. Chemistry & Biology
1997, 4, 569.)
Polyamides of the present invention may useful for detecting the presence
of double stranded DNA of a specific sequence for diagnostic or preparative purposes.
The sample containing the double stranded DNA may be contacted by polyamide
linked to a solid substrate, thereby isolating DNA comprising a desired sequence.
Alternatively, polyamides linked to a suitable detectable , such as , a
hapten, a radioisotope or a dye molecule, can be contacted by a sample containing
double stranded DNA.
rmore, these molecules may be utilized in a method of reducing or
inhibiting proliferation of neoplastic cells, sing contacting the cells with an
effective amount of a compound described herein. The ting of the cells with
the agents of the invention results in an interference with the expression of genes
associated with neoplastic cells. The agent binds to the DNA sequence encoding the
gene, thereby reducing or ting expression of the gene.
In some embodiments of the method, the neoplastic cells may be cancer
cells. The cells may include colon carcinoma cells, hepatocellular carcinoma cells,
cervical carcinoma cells, lung epidermocarcinoma cells, mammary gland
adenocarcinoma cells, pancreatic carcinoma cells, prostatic carcinoma cells,
osteosarcoma cells, melanoma cells, acute locytic leukemia cells, acute
lymphoblastic leukemia cells, hepatocancreatico adenocarcinoma cells and t's
lymphoma B cells. Efficacy is identified by detecting that signs or symptoms
associated with the neoplastic disease are lessened. The signs and symptoms
characteristic of particular types of neoplastic disease are well known to the skilled
clinician, as are methods for monitoring the signs and conditions. For example,
imaging methods can be used to ine that a tumor has decreased in size, or is
increasing in size at a lower rate, due to treatment according to the t methods.
Additionally, these molecules may be useful in a method of treating virus
infected cells comprising contacting the cells with an effective amount of a compound
described herein. The s may be useful for treating other infections caused by a
double-stranded DNA virus.
In the case of HPV, it is known that tethering to the chromosomes occurs
though long sequences of DNA bases A and T. These AT tracts are targets for
pyrrole-containing polyamides, because of recognition of AT base pairs by pyrrole as
found in the natural t Distamycin, which can be considered a partial progenitor
of polyamide structure used for DNA binding. Distamycin binds to AT-rich DNA, but
it is a small enough molecule that very long AT tracts are not ary to t
Distamycin: AT-regions only five bases long are sufficient for ition by
Distamycin.
h regions of DNA in so-called "fragile DNA" are apparent targets of
Distamycin, and are expressed by cells in response to Distamycin treatment.
Furthermore, in model systems of DNA rearrangement and processing, such as found
in ciliates and other microorganisms, it is AT-rich regions that are targeted for
elimination during genomic rearrangements, suggesting that cells may retain an
ionarily conserved mechanism for processing and elimination of DNA, and that
the AT-rich ces involved are likely s for binding by pyrroles of naturally
occurring or tic polyamides.
From the inventions described here, one can p useful drugs against
DNA viruses such as the HPV subtypes by considering the so-called selectivity index
(SI: ratio of IC50 to TD50) and routine experimentation to determine an optimal range
of selectivity indices. Distamycin itself is too toxic for most or all ations as an
anti-viral, while our designed and purpose-built polyamides that target h DNA
regions generally have very low toxicity and very high SI in cell culture.
In some embodiments, polyamide sequences exhibiting anti-HPV activity
with the HPV types, especially, HPV 1, 6, 11, 16, 18 and 31, display the ability to
displace or eliminate HPV DNA from host chromosomes, which can result in broad
applicability against HPVs. These include HPVl 1, which is responsible, in part, for
the frequently fatal disease known as respiratory papillomatosis, as well as genital
warts, HPVl and 6, which cause common warts and warts of the external genitalia,
anus and cervix, respectively, and HPV 16, 18 and 31, which are responsible for anal
and/or cervical cancers.
Chemical Background
Certain ers of nitrogen heterocycles can be used to bind to
particular regions of double stranded DNA. Particularly, N-methyl ole (I), desamino-N-methyl
imidazole (Im), and N-methyl pyrrole (P) have a specific affinity for
particular bases. This specificity can be modified based upon the order in which these
compounds are linked. It has been shown that there is icity in that G/C is
complemented by Im/P or I/P, C/G is complemented by P/Im or P/I, and AH and T/A
are redundantly complemented by P/P.
In effect, N-methyl imidazole and des-amino-N-methyl imidazole tend to
be associated with guanine, while N-methyl pyrrole is associated with cytosine,
adenine and thymine. By ing for two chains of the heterocycles, as 1 or 2
molecules, a 2:1 complex with double stranded DNA is formed, with the two chains;
of the oligomer antiparallel, where G/C pairs have Im/P or I/P in juxtaposition, C/G
pairs have P/Im or P/I, and T/A pairs have P/P in juxtaposition. The heterocycle
oligomers are joined by amide (carbamyl) groups, where the NH may participate in
hydrogen bonding with nitrogen unpaired electrons, particularly of e.
Polyamides may be sized to form hairpin compounds by
incorporating compounds, such as aminobutyric acid (.gamma.) or gamma-
amino-beta-aminobutyric acid (.gamma.NH.sub.2), to allow a single polyamide to
form a complex with DNA. Such a structure has been found to significantly increase
the binding affinity of the polyamide to a target ce of DNA.
Beta-alanine (.beta.) may be tuted for a pair of N-methyl pyrrole
groups when an AT or TA base pair is the target sequence. The added flexibility of
the beta-alanine can help the entire polyamide stay "in register" with the target
sequence of DNA.
In some embodiments, the polyamide molecule begins with des- amino-N-
methyl imidazole that has a specific affinity for ine. In other embodiments, the
polyamide molecule ends with either 3-(Dimethylamino) propylamine (Dp) or 3,3'-
Diamino-N-methyldipropylamine (Ta). Dye molecules can be incorporated at the
amino groups of the .gamma.-amino-butyric acid, the Ta, or at both of these sites if
both are available in the same molecule.
More recently it has been discovered that the inclusion of a new aromatic
amino acid, 3-hydroxy-N-methylpyrrole (Hp), when incorporated into a polyamide
and paired opposite Py, provides the means to discriminate A-T from T-A. White S.,
et al., Nature 391, 436-38 (1998). Unexpectedly, the replacement of a single hydrogen
atom on the pyrrole with a hydroxy group in an Hp/P pair regulates the ty and
the specificity of a ide by an order of magnitude. Using Hp together with P
and Im or I in polyamides to form six aromatic amino acid pairs (I/P, Im/P, P/Im, P/I,
Hp/P and P/Hp) provides a code to distinguish all four Watson-Crick base pairs in the
minor groove of DNA in environments in which Hp does not decompose.
Naturally occurring pyrrole-containing polyamides such as distamycin and
netropsin, as well as their pyrrole/imidazole-containing synthetic analogs, bind with
high affinity to the minor groove of DNA. Direct evidence of specific polyamide-
DNA binding has been ively reported by the Dervan group using X-ray
crystallography, NMR ure determinations and quantitative affinity cleavage
methods (Baird and Dervan, 1998; Pilch et al., Biochemistry, 38, 2143-51, 1999; Pilch
et al., Proc. Natl. Acad. Sci. USA, 93, 1 1996; Wang, Ellervik, and Dervan,
Bioorg. Med. Chem, 9, 653-7, 2001; White, Baird, and Dervan, Biochemistry, 35,
12532-27, 1996; White, Baird, and Dervan, Chem. Biol., 4, 569-78, 1997, all of which
are incorporated herein by reference). Because of the H-bonding scheme, synthetic
polyamides can be designed to ize specific DNA sequences.
The rules for DNA recognition by polyamides are summarized in the
following paragraphs (White, Baird, and Dervan, Chem. Biol., 4, 569-78, 1997).
Pyrrole (typically abbreviated Py or P, ) binds to the three nucleotides that present
hydrogen bond acceptors in the minor groove, or A, T and C (Kielkopf et al., Science,
282, 111-5, 1998; Kielkopf, et al., Nat. Struct. Biol., 5, 104-9, 1998; Melander,
Herman, and Dervan, try, 6, 4487-97, 2000, all of which are incorporated
herein by reference). These nucleotides present only hydrogen bond acceptors to the
minor groove: A and C each offer one lone pair of electrons while T offers two lone
pairs from the carbonyl oxygen bound to C2. It is the amide NH of the n pyrrole
amino acids that is the en bond donor. So, the pyrrole ring acts as a curved
spacer that presents amide NHs at the correct distance and curvature to match up with
the pattern of hydrogen bond acceptors presented by A,C and T when located in B-
form DNA. ole (Structure 11 below) is typically abbreviated I.
Polyamides
General Structure
A polyamide of the invention may be lly characterized as a
polymeric or oligomeric molecule containing a plurality of carboxamide repeating
units as well as one or more guanidinyl radicals, which may be at one or both ends of
the molecule and/or along the backbone of the polyamide. The polyamide may be a
compound having a polyamide backbone containing an or unit selected from y-
aminobutyric acid (y); 2,4-diaminobutyric acid , which may be either the (R) or
(S) isomer and which may be linked in to the polyamide backbone through either the
2-amino group or the 4-amino group; or 2)2CH(NHC(=O)NHR)COZH,
wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2 ) 0T '(CH2)3-N(CH3)2 ('YNHR”), each
of which may be either the (R) or (S) isomer, and at least one guanidinyl radical
pendant to 2,4-diaminobutyric acid (YNHZ), t to
H2N(CH2)2CH(NHC(=O)NHR)C02H, wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2
('YNHR’), or at a terminal position of the polyamide backbone. The compound may be a
pharmaceutically acceptable salt of such a polyamide. In the context of this
invention, “interior” means at a position along the polymer backbone other than the
terminal (end) positions or a position immediately adjacent to a al on.
The polyamide backbone may contain a plurality of units (for example, 5 to 30, or 7
to 28, or 9 to 24, or 11 to 22 or 15 to 21 or 16 to 21 units) ed from the group
consisting of 4-aminocarbonyl-N-methylimidazole (Im), 4-aminocarbonyl-N-
methylpyrrole (Py) and B-alanine (13). Typically, the polyamide has a number average
molecular weight of from about 1000 to about 2900 or from about 1200 to about
2700.
In one aspect of the invention, the guanidinyl radical is connected to a
terminal 4-aminocarbonyl-N-methylpyrrole (Py) unit. The guanidinyl radical may
be unsubstituted (GUAN) or substituted. That is, any or each of the three nitrogen
atoms t in the guanidinyl radical may bear substituents other than hydrogen.
Such substituents may be, for e, alkyl, aralkyl and/or aryl . In one
embodiment of the invention, two of the nitrogen atoms each bear two alkyl groups,
such as C1-C4 alkyl groups. For example, the guanidinyl radical may be
tetramethylguanidinyl (TMG).
The compound may contain an end group selected from 3,3’-diamino-N-
methyldipropylamine (Ta) or 3-(dimethylamino)propylamine (Dp). The primary
amine group of the Ta end group may be reacted to provide a guanidinyl l. That
is, the C terminus of the polyamide may be terminated with a inyl l such
as tetramethylguanidinyl (TMG).
The structures of certain polyamide compounds in accordance with the
present invention may be described by the formula:
Z-(X)n-Yq-(X)m-A
or a pharmaceutically acceptable salt thereof, wherein
m is 3-16 (or 4-15, or 5-14, or 6-13 or 7-12);
n is 2-14 (or 3-13, or 3-12, or 4-12, or 4-10);
Z is guanidinylated 4-aminocarbonyl-N-methylpyrrole, N-formylated 4-
aminocarbonyl-N-methylpyrrole, N-acetylated 4-aminocarbonyl-N-
methylpyrrole, or des-aminoimidazole (des-Im, Formula XI, Figure 1);
each X is independently selected from 4-aminocarbonyl-N-
methylimidazole (Im, Formula 11, Figure 1), 4-aminocarbonyl-N-
methylpyrrole (Py, Formula I, Figure l) or B-alanine ([3, Formula III, Figure
yq is y-aminobutyric acid (y, Formula IV, Figure l); 2,4-diaminobutyric acid
(YNHz, corresponding to Formula V in Figure 1 when the 2,4-diaminobutyric
acid is the (R) isomer and linkage into the polyamide takes place through the y
amino ; guanidinylated 2,4-diaminobutyric acid; or
H2N(CH2)2CH(NHC(=O)NHR)C02H, wherein R is -(CH2)3-N(CH3)-(CH2)3-
NHZ ’, Formula VIII, Figure l), guanidinylated -(CH2)3-N(CH3)-(CH2)3-
NHZ, or -(CH2)3-N(CH3)2 (yNHRn, Formula IX, Figure l);
A is 3,3’-diamino-N-methyldipropylamine (Ta, Formula VII, Figure l),
guanidinylated 3,3’-diamino-N-methyldipropylamine; or 3-
(dimethylamino)propylamine (Dp, Formula VI, Figure 1);
wherein the compound contains at least one primary amine group, which has been
guanidinylated.
In such compounds, at least one primary amine group (-NH2) present
initially in a precursor to the compound has been converted to a guanidinyl group
(radical). For example, the primary amine group of a 4-aminocarbonyl-N-
methylpyrrole N-terminus end group, a ethylamino)propylamine C-terminus
end group, or a 3-N(CH3)-(CH2)3-NH2 group present in the building block 'YNHR’
may be guanidinylated.
The structures of other particular polyamide compounds according to one
aspect of the invention are described, with the restrictions and definitions given
below, by the formula: -yq-(X)m-A.
In such polyamide compounds, the polyamide le begins with a
guanidinyl radical, such as a tetramethylguanidinyl (TMG, Formula X) l. The
guanidinyl radical may correspond to the structural formulae -N=C(NR1R2)(NR3R4)
and/or -NR5-C(NR1R2)(=NR3), wherein R1"5 are the same or different and may be
selected from H, alkyl (e. g., C1-C4 alkyl, such as methyl, ethyl, propyl, isopropyl, n-
butyl, isobutyl and the like), aryl (phenyl, pyridyl, imidazolyl) and other 5- or 6-
membered ring aryl or heteroaryl groups, aralkyl (e. g., ) and their sly
substituted derivatives) or a pharmaceutically acceptable salt thereof (e.g., the
guanidinyl l may be in the form of a guanidinium species). Various types of
suitable guanidinyl radicals, including their tautomers, are illustrated in Figures 8A
and 8B.
One aspect of the invention employs a tetramethylguanidinyl radical at the
N-terminus of the polyamide (TMG, Formula X). This ethylguanidinyl radical
is attached to the polyamide via a carbon-nitrogen double bond (imine) linkage. For
example, where the unit adjacent to the TMG radical is 4-aminocarbonyl-N-
methylpyrrole (Py), the 4-amino group of the 4-aminocarbonyl-N-methylpyrrole
provides the nitrogen atom involved in the imine e.
In other aspects of the invention, the guanidinyl radical may be
unsubstituted (GUAN), monosubstituted, isubstituted, gem-disubstituted,
N,N,N’-trisubstituted, or N,N,N’ ,N’-tetrasubstituted. The unsubstituted,
monosubstituted, disubstituted, and trisubstituted guanidinyl ls exist as
tautomers; such tautomers are shown in Figures 8A and 8B. As illustrated in Figures
8A and 8B, the position of the carbon-nitrogen double bond (imine) may vary.
An extensive, but not exhaustive, set of substitution patterns and related
tautomers for the guanidinyl l are shown in Figures 8A and 8B. Any H may
independently be substituted with groups R1"5 (independently ed from alkyl,
aryl, aralkyl) In each of the guanidinyl radical structures shown in Figures 8A and
8B, the horizontal dotted line indicates that the guanidinyl radical is bonded to a
polyamide via the bond that bears the horizontal dotted line. It is to be understood
that the guanidinyl-substituted compounds of the invention may exhibit tautomerism
of the sort described above. It is also to be understood that the present invention
encompasses all tautomeric forms of the variously tuted guanidinyl-substituted
ides, and mixtures thereof, and is not to be limited to any one tautomeric form
described within the formal drawings.
As isolated by crystallization and/or HPLC in 0.1% TFA and as used in
contact with cells, tissue culture, or subjects, the highly basic nature of guanidines
will generally cause them to be t as acid on salts, i.e. in their protonated
form. All pharmaceutically acceptable salts of all tautomers described herein are part
of the present invention.
A polyamide molecule ponding to the formula G—(X)n-yq-(X)m-A
may end with either 3-(dimethylamino) propylamine (Dp, Formula VI) or 3,3’-
diamino-N-methyldipropylamine (Ta, Formula VII). That is, in certain ments
of the invention a inyl (G) radical is present at the N terminus of the polyamide
molecule and a Dp or Ta unit or other terminating group (“A” in the mentioned
formula) is present at the C terminus of the molecule. A yq unit appears at an interior
position within the polyamide backbone, being ted from the G unit by the
structural sequence -(X)n- and being separated from the A unit (Dp or Ta) by the
structural sequence -(X)m-. The yq unit may provide a hairpin turn in the polyamide
compound. ural ces -(X)m- and -(X)n- are comprised of multiple linked
units X selected from the group consisting of 4-aminocarbonyl-N-methylimidazole
(Im, Formula II), 4-aminocarbonyl-N-methylpyrrole (Py, Formula I), and B-alanine
([3, Formula 111).
Structures of the units TMG, X, yq and A are shown in Figure l. The terms
in the above-mentioned formula for the polyamide compounds of the invention are
d as follows.
TMG may be the N-terminal g group and is tetramethylguanidinyl
(Formula X). If the guanidinyl radical is not located at the N-terminus, the N-terminal
capping group may be des-Im, or inoimidazole, as shown in Formula XI,
Figure l.
X is a unit obtained by condensation of one or more polyamide building
blocks that include the 4-aminocarboxylic acid derivative of N-methylpyrrole
(providing unit Py, Formula I), beta-alanine ding unit [3, Formula 111), and the 4-
aminocarboxylic acid derivative of N-methylimidazole (providing unit Im,
Formula II).
yq can be a unit obtained by condensation of a gamma-aminobutyric acid
building block (providing unit y, Formula IV), the chiral analogs of gamma-
aminobutyric acid known as (R)-2,4-diaminobutyric acid and (S)-2,4-diaminobutyric
acid (providing unit 'YNHZ, corresponding to Formula V when the (R) isomer is
employed and the amine group in the 4 (y) position has been reacted into the
ide polymer backbone), and H2N(CH2)2CH(NHC(=O)NHR)C02H, wherein R
is '(CH2)3-N(CH3)-(CH2)3-NH2 ('YNHR’, Formula VIII) 0T '(CH2)3-N(CH3)2 (’YNHR’S
Formula IX). The latter two units may also be formed by reaction of an amino group
of aminobutyric acid following incorporation of such compound into the
polyamide with a suitable reactant or reactants. For e, 'YNHR’ (Formula VIII)
may result from (R)-2,4-diaminobutyric acid which has formed a urea with Ta (3,3’-
diamino-N-methyldipropylamine). The unit 'YNHR” (Formula IX) may result from (R)-
2,4-diaminobutyric acid which has formed a urea with Dp (3-
(dimethylamino)propylamine). These units ('YNHR’, ) may have either (R) or (S)
stereochemistry. A 2,4-diaminobutyric acid building block may be incorporated into
the polyamide by on (condensation) of the amine group at the 2 (0t) position,
providing an alpha turn, or at the 4 (y) position, providing a gamma turn. In the
context of this invention, “2,4-diaminobutyric acid” includes the (S) as well as the (R)
isomer.
A may be a unit obtained by sation of 3-
(dimethylamino)propylamine (providing unit Dp, Formula VI) or 3,3’-diamino-N-
methyldipropylamine (providing unit Ta, Formula VII).
In certain embodiments of the invention, a B-alanine unit occurs after one,
two, three or four uous Py and/or Im building blocks as exemplified by —Py-B, -
B, -Py-Py-Py-Py-B and -Im-Py-Py-B. The polyamide may contain, for
example, 2 to 7 or 3 to 6 13 units per molecule. In various embodiments of the
invention, the structural sequence -(X)m- may contain 2 to 5 13 units. In other
embodiments, the structural sequence -(X)n- may contain 1 to 3 13 units.
In certain embodiments of the invention, the polyamide contains 0, 1 or 2
Im units per molecule.
Polyamides of the invention include the exemplary compounds:
TMG-PyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyPy-Ta;
TMG-PyPyPyBPyPyBPyIm-YNHRv-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;
TMG-PyPyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPy-YNHR:-PyPyPyl3PyPyPyl3Pyl3-Ta;
PyPyl3PyPyl3PyIm-YNHz-PyBPyPyBPyPyPyBPyB-Dp;
PyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;
PyPy[3PyPyBPy-Yan-PyPyPYBPyPyPB/BPYB'DP§
TMG-PyBPyPyImBPyPyYPyPyBPyPyPyBPyPyPyB-Ta;
TMG-PyPyPyBPyPyBPy-YNHR:v-PyPyPyBPyPyPyBPyB-Dp;
TMG-PyBPyPylmBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;
TMG-PyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;
TMG-PyBPyPyPy-Y-PyPyBPyPyPyPyB-Ta;
TMG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;
2012/059604
TMG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Ta;
TMG-PyPyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;
TMG-PyPyl3PyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;
TMG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;
TMG-PyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;
TMG-PyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyImBPyPy-y—PyPyPyBPyPyPyB-Ta;
TMG-PyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;
PyBPyPyBPyIm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPy-Y—PyPyPyBPyPyPyBPyB-Ta;
ImPyIm-y—PyPyPyPyB-Ta;
TMG-PyImBIm-y—PyBPyPyB-Ta;
TMG-PyImPyIm-y—PyBPyPyB-Ta;
TMG-PyImBIm-y-PyPyPyPyB-Ta;
GUAN-PylmBIm-y—PyBPyPyB-Ta;
and pharmaceutically acceptable salts thereof.
In yet other embodiments, the polyamides contain, at the C-terminal end,
FAM (5-Carboxyfluorescein), BIODIPY or another compound that can be used to
determine cellular localization. In some embodiments, polyamides containing FITC at
the C-terminal end are more readily taken up by cells. An example of fluorescent
d polyamides of the invention include the exemplary compounds:
TMG-PyPyPyBPyPyBPyIm-y—PyBPyPyBPyPyPyBPyB-Ta-FAM;
wherein FAM ents 5 — Carboxyfluorescein.
In even other embodiments, the polyamides target HPV1, HPV6, HPV1 1,
HPV18, HPV16, HPV31, HPV33, HPV35, HPV39, HPV45, HPV51, HPV52,
HPV56, HPV58, HPV59, HPV66 or HPV68.
In further embodiments, the polyamides target DNA viruses, which
include Epstein-B arr virus, herpes virus, pox viruses and other double-stranded DNA
viruses. Possible targets within these viruses may include sequences required for
tethering, maintenance, or replication.
General Synthetic s
The polyamides as bed herein may be produced from known starting
materials using conventional methods. See for example WO 05/033282, Belitsky et
al., (2002) Bioorg. Med. Chem, 10, 2767-74; Zhang, et al. (2006) J. Am. Chem. Soc.
128:8766-76; Turner, et al. (2001) Organic Letters, 3:1201-03, all of which are
incorporated herein by reference.
Polyamides can be prepared using manual solid-phase synthesis as well as
automated phase chemistry. Each coupling may be followed by HPLC and
HPLC/mass spectrometry.
In solution-phase polyamide synthesis, two main amide bond forming
routes may be used: (1) the haloform reaction and (2) reactions of amines with acids
in the presence of coupling agents like DCC, EDC, PyBOP or HATU (when
ed). For the heterocyclic building blocks ed in the t invention, the
haloform on can be the method described in Xiao et al., (2000) Chin. J. Chem,
18:603-07 and Xiao et al., (2000) J. Org. Chem, 65:5506-13, both of which are
incorporated herein by reference in their entirety for all purposes.
The steps in the haloform reaction yielding a nitro-substituted heterocycle
could, for example, be followed by ion of the nitro group with H2 and Pd/C.
The resulting free amino group can be protected or ately d to an
additional building block. Common building blocks can be identified for a
polyamide, allowing efficient solution phase synthesis: the Py-Py dimer can be made
and purified on a large scale and then used directly or elaborated further to form the
major sections of the target sequence, and then the final product.
Yet another method of synthesis is to prepare a polyamide oligomer
starting with Boc-B-alanine-PAM solid phase synthesis resin, or a similar
commercially available resin, adding building blocks as required for the target
sequence.
[01 l l] The guanidinyl radicals in the compounds may be introduced by any
suitable method, including for example the conversion of a primary amine group on a
terminal Py unit, a Ta end group, a 2)2CH(NHC(=O)NHR)COZH unit,
wherein R is -(CH2)3-N(CH3)-(CH2)3-NH2 ’), or a 2,4-diaminobutyric acid (yNHz)
unit. Synthetic methods for reacting primary amines to form guanidinyls are well
known in the art. es of such methods e the reaction of amines with S-
methyl isothiouronium salts (the Rathke guanidine synthesis), O-methylisouronium
salts and chloroformamidinium (Vilsmeier) salts.
A tetrasubsituted guanidinyl radical [-N=C(NR2)2, where the R groups
may be the same or different and may be, e. g., alkyl, aralkyl or aryl] may be
introduced on the N-terminus of a polyamide by treating a deprotected, resin-attached
polyamide containing a y amine group with a tetrasubstituted uronium reactant
such as HATU [2-(7-aza-lH-benzotriazole-l-yl)-l,1,3,3-tetramethyluronium
orophosphate]. Figure 3 illustrates this synthetic route. Tetrasubstituted
guanidinyl radicals exist only in the form shown in this paragraph. All guanidinyl
radicals wherein at least one R is hydrogen can exist in a y of tautomeric forms,
as depicted in Figures 8A and 8B. This invention includes all possible tautomeric
forms and salts thereof (including acid addition salts) of the various guanidinyl
ls described herein.
An unsubstituted guanidinyl radical [-NH-C(=NH)NH2 or tautomer
f] may be introduced on the N-terminus of a polyamide by treating a
deprotected, attached polyamide containing a primary amine group with
cially available N,N’-di-Boc-lH-pyrazole-l-carboxamide, followed by Boc
l. This synthetic route is illustrated in Figure 4. See Robinson et al.,
Tetetrahedron 1997, 53 (19), 6697.
A monosubstituted or gem-disubstituted guanidinyl radical [-NH-
C(=NH)NHR or -NH-C(=NH)NR2, where the R groups may be the same or different]
may be introduced on the N-terminus of a polyamide by ng a deprotected, resin-
attached polyamide containing a primary amine group with commercially available
di(imidazole-l-yl)methanimine, followed by addition of a primary amine (to provide
a monosubstituted guanidinyl radical) or a secondary amine (to provide a gem-
disubstituted guanidinyl radical). This synthetic route is illustrated in Figure 5. See
Wu et al., J. Org. Chem. 2002, 67, 7553.
N,N’-disubstituted, N,N,N’-trisubstituted, or N,N,N’ ,N’ substituted
guanidinyl groups [-N=C(NHR)2, HR)(NR2), or -N=C(NR2)2, where in each
case the R groups may be the same or different] may be introduced on the N-terminus
of a polyamide by treating a deprotected, resin-attached ide containing a
primary amine group with cially available di-(2-pyridyl)thionocarbonate to
give an intermediate isothiocyanate. Subsequent addition of a y or ary
amine, desulfurization, and on of another primary or secondary amine would
provide the desired N,N’-disubstituted, N,N,N’-trisubstituted, or N,N,N’,N’-
ubstituted inylated polyamides as illustrated in Figure 6. See Kilburn,
J.P.; Lau, J.; Jones, R.C.F. Tetrahedron 2002, 58, 1739.
Alternatively, N,N’-disubstituted or N,N,N’-trisubstituted guanidinyl
groups [-N=C(NHR)2 or -N=C(NHR)(NR2), where in each case the R groups may be
the same or different] may be introduced on the N-terminus of a polyamide by
treating a deprotected, resin-attached polyamide containing a primary amine group
with an isothiocyanate (containing a first R group). Desulfurization would e an
intermediate carbodiimide. Addition of a primary or secondary amine [containing the
second R group(s)] to the carbodiimide would provide the desired N,N’-disubstituted
or N,N’,N’-trisubstituted guanidinylated polyamide, respectively, as illustrated in
Figure 7. See Chemistry - A European Journal, 11(5), 1459-1466, 2005, and Kilburn
et al. Tetrahedron 2002, 58, 1739.
Pharmaceutical Compositions
Formulation
In another aspect of the present invention, pharmaceutically acceptable
compositions are provided, wherein these compositions comprise any of the
polyamide compounds as described herein, and optionally comprise a
pharmaceutically able carrier, nt or vehicle. In certain embodiments,
these compositions optionally further comprise one or more additional therapeutic
agents.
Polyamides can be in the form of pharmaceutically able salts such as
trifluoroacetate (TFA) salts as well as chloride, ate, ascorbate salts and the like.
They can also be formulated with excipients such as PEG-400, propylene glycol and
the like.
To increase ity, the polyamide drug may be placed in aqueous
solution with an antioxidant such as ascorbic acid, BHT or BHA in order to develop a
more stable formula. (See Mayers C. L., et al. (1993) Pharma Res, 10: 445-448, and
Stuhar M., (1984) Farmaceuticky Obzor, 53; 499-504, both of which are incorporated
herein by reference.)
For delivery to the vagina and cervix, polyamides may be formulated as
solutions, emulsions, suspensions, tablets, gels, foams, suppositories, films, s
and vaginal rings. Formulations include gels (e. g., gels prepared using gelling agents
such as hydroxy ethyl ose and polyacrylic acids, e. g., cross-linked c acid
based polymers such as those sold under the brand name CARBOPOL), and polyvinyl
l films that can be administered by an applicator to the target site.
Alternatively, lower viscosity liquid formulations (e.g. PEG solutions) can be
delivered in a polyurethane sponge to the area around the cervix. (Okada, (1991) in
"Peptide and Protein Drug ry" V. H. Lee, ed., pp. 663-666, Marcel Dekker,
NY; Garg, et al. (2001) Pharm. Tech. 25:14-24, both of which are incorporated herein
by reference.) Because of the polyamides' charge, the polyamides may be formulated
in a controlled delivery vehicle by using ers (such as those sold under the
brand name CARBOPOL). If the polyamide has a charge of +1 or +2, by adjusting the
ionic strength of the formulation one may bind the polyamide electrostatically to the
carbomer and thereby control the release rate. In a semisolid dosage form, the release
rate may be evaluated in a membrane apparatus as described in the US Pharmacopeia
(Dipiano, et al., PCT International Publication No. WO 04/064913, which is
orated herein by reference) for drug diffusion from semisolid dosage forms.
Polyamides formulated in carbomer-based gels which exhibit significant yield
stresses, and also have potential bioadhesive ties (Kieweg, et al. (2004) J.
Pharm Sci. 93, 2941-52, which is incorporated herein by reference).
Any of the excipients used for commercial l formulations (Garg et
al., 2001) may be adapted for use with the polyamide compounds of the present
invention. A number of commonly used excipients such as PEG (polyethylene
), PVA (polyvinyl alcohol) and Tween surfactants can also be employed. In
2012/059604
addition to antioxidants, further compatibilizers or stabilizers may be used. Solid
forms may allow for more stable formulas with a longer shelf life due to their physical
state. Emulsions made from bioadhesives using polymers such as carbomers may be
useful. HPMC (hydroxymethylpropyl cellulose), PVA and lipid complexes can be
used with lower lity drugs. Lipidic systems may then be suspended in a
viscoelastic gel for ry of the ble polyamide.
For more sustained or effective delivery, cervical r devices ble
such as diaphragms that can deliver the drug at the cervix site over many hours can be
used for delivery that is even more continuous vaginal rings or slow release
implantable polymer films can be employed. In addition, several new vaginal delivery
s in clinical testing such as vaginal sponge technology and the SILCS
diaphragm, a single size silicone device that can deliver drug to both the cervix and
vaginal wall , (2004) The Microbiocide Quarterly, 2:15-19, which is
incorporated herein by reference) may be used. For improved continuous ry of
the drug over an extended period, vaginal rings are available with slow release of the
drug from the ring composite (Cohen, 2004; n and Ahsan, (2005), J. Controlled
Release 103:301-13, which is incorporated herein by nce). There are also
numerous other applicators and formulas that have been ped for controlled
vaginal drug delivery (Robinson (1999) Proc. 0f the 26th Intl. Symp. Controlled
Release ofBioactive Materials, 26:2-3, which is incorporated herein by reference;
Hussain and Ahsan, 2005).
Formulations for transdermal delivery include lipid-based formulas for
delivery of protein pharmaceuticals to genital warts (Foldvari et al., (1999), Biotech.
Appl. Biochem. 30:129-37; Leigh (2003) Drugs and the Pharm. Sci, 126:791-800;
Lee et al., (2004) Biomaterials, 26:205-10, all of which are incorporated herein by
reference), bioadhesives formulations (Bogataj and Mrhar (1998) Bioadhesive
mucosal drug delivery systems, 49:445-57; Amaral et al. (1999) Contraception,
60:361-66; Barry, (1987) in "Drug Delivery systems", Johnson and Lloyd-Jones, eds,
Ch. 11, Ellis Horwood, Chichester; Vermani, et al. (2002) Drug Dev. . Pharm.
28:1133-46, all of which are orated herein by reference) and novel r
systems. The novel polymers include partially absorbable biodegradable antiviral
intravaginal rings (Shalaby, (2005) U.S Patent Application Publication No.
2005/053639, which is incorporated herein by reference), bilaminar bioadhesive
polymeric films applied directly to the cervix (Sidhu et al., (1997) Br. J. Obstetrics
and Gynaecology, 104:145-49, which is incorporated herein by reference) novel,
slow-release polymer discs at the al mucosa and thermogelling systems that
have the advantage of potentially much greater esion and dosage form
retention. (Saltzman and Radomsky (1990) Polymer Preprints, 31:245-46; Edelman
and Mark (1998) Nature Biotech, -37, both of which are incorporated herein by
reference). Polyamides may also be formulated using cell membrane penetrating
peptides (Gupta, et al. (2005) Adv. Drug Del Rev. 57:637-51; Wadia and Dowdy
(2005) Adv. Drug Del. Rev., 57:579-96, both of which are incorporated herein by
reference.
The polyamides of the present invention can also be formulated with a
ceutically-acceptable r designed to n or lengthen time before
renal clearance.
Polyamides in accordance with the present invention can also be
formulated to deliver an aerosol treatment of the lungs, mouth or throat. Direct
ion into HPV lesions may also be employed for external (cutaneous) or mucosal
skin infections.
Other disease indications may require systemic treatment with the present
polyamides, i.e., by injection, or additional, common or known drug delivery
methods.
It will also be appreciated that certain compounds of the t invention
can exist in free form for treatment, or where appropriate, as a pharmaceutically
acceptable derivative or a prodrug thereof. According to the present invention, a
pharmaceutically acceptable derivative or a prodrug includes, but is not limited to,
pharmaceutically acceptable salts, esters, salts of such esters, or any other adduct or
derivative which upon administration to a subject in need is capable of providing,
directly or ctly, a compound as otherwise described , or a metabolite or
residue thereof.
As used herein, the term "pharmaceutically acceptable salt" refers to those
salts which are, within the scope of sound medical judgment, suitable for use in
t with the tissues of humans and lower animals without undue toxicity,
tion, allergic se and the like, and are commensurate with a reasonable
benefit/risk ratio. A "pharmaceutically acceptable salt" means any non-toxic salt or
salt of an ester of a compound of this invention that, upon administration to a
recipient, is capable of providing, either directly or indirectly, a nd of this
invention or an inhibitorily active metabolite or residue thereof.
Pharmaceutically acceptable salts are well known in the art. For e,
S. M. Berge, et al. describes pharmaceutically acceptable salts in detail in J.
Pharmaceutical Sciences, 1977, 66, 1-19, incorporated herein by reference.
Pharmaceutically acceptable salts of the compounds of this ion include those
derived from suitable nic and c acids and bases. Examples of
pharmaceutically acceptable, nontoxic acid addition salts are salts of an amino group
formed with inorganic acids such as hydrochloric acid, hydrobromic acid, phosphoric
acid, sulfuric acid and oric acid or with organic acids such as acetic acid,
including trifluoroacetic acid, oxalic acid, maleic acid, tartaric acid, citric acid,
ic acid or c acid or by using other methods used in the art such as ion
exchange. Other pharmaceutically acceptable salts include e, alginate,
ascorbate, aspartate, benzenesulfonate, benzoate, ate, borate, butyrate,
rate, camphorsulfonate, citrate, cyclopentanepropionate, digluconate,
dodecylsulfate, ethanesulfonate, e, fumarate, glucoheptonate,
glycerophosphate, gluconate, hemisulfate, heptanoate, hexanoate, hydroiodide, 2-
hydroxy-ethanesulfonate, lactobionate, lactate, laurate, lauryl sulfate, malate, maleate,
malonate, methanesulfonate, 2-naphthalenesulfonate, nicotinate, nitrate, oleate,
oxalate, palmitate, pamoate, pectinate, fate, 3-phenylpropionate, phosphate,
picrate, pivalate, propionate, stearate, succinate, sulfate, tartrate, thiocyanate, p-
toluenesulfonate, undecanoate, valerate salts, and the like. Salts derived from
riate bases include alkali metal, alkaline earth metal, ammonium and N+(C1_4
alkyl)4 salts. This invention also envisions the quatemization of any basic nitrogen-
containing groups of the compounds disclosed herein. Water or oil-soluble or
dispersible products may be obtained by such quaternization. Representative alkali or
alkaline earth metal salts include sodium, m, potassium, m, magnesium,
and the like. Further pharmaceutically acceptable salts include, when appropriate,
nontoxic ammonium, quaternary ammonium, and amine cations formed using
counterions such as halide, hydroxide, ylate, sulfate, phosphate, nitrate, lower
alkyl sulfonate and aryl sulfonate.
As described above, the pharmaceutically acceptable compositions of the
present invention comprise, in addition to one or more polyamide compounds, a
pharmaceutically acceptable carrier, adjuvant, or vehicle, which, as used herein,
includes any and all solvents, diluents, or other liquid vehicle, dispersion or
suspension aids, e active agents, isotonic agents, thickening or emulsifying
, preservatives, solid binders, lubricants and the like, as suited to the particular
dosage form desired. Remington's Pharmaceutical Sciences, Sixteenth n, E. W.
Martin (Mack Publishing Co., Easton, Pa., 1980) discloses s carriers used in
ating pharmaceutically acceptable compositions and known ques for the
preparation thereof. Except insofar as any conventional carrier medium is
incompatible with the compounds of the invention, such as by producing any
undesirable biological effect or otherwise interacting in a deleterious manner with any
other component(s) of the pharmaceutically acceptable composition, its use is
contemplated to be within the scope of this ion. Some examples of materials
which can serve as pharmaceutically acceptable carriers include, but are not limited
to, ion exchangers, a, aluminum stearate, lecithin, serum proteins, such as
human serum albumin, buffer substances such as phosphates, e, sorbic acid, or
potassium sorbate, partial glyceride mixtures of ted vegetable fatty acids, water,
salts or electrolytes, such as protamine sulfate, disodium hydrogen phosphate,
potassium hydrogen phosphate, sodium chloride, zinc salts, colloidal silica,
magnesium trisilicate, polyvinyl pyrrolidone, polyacrylates, waxes, polyethylene-
ypropylene-block polymers, wool fat, sugars such as lactose, e and
sucrose; starches such as corn starch and potato starch; cellulose and its derivatives
such as sodium carboxymethyl cellulose, ethyl cellulose and cellulose acetate;
powdered tragacanth; malt; gelatin; talc; excipients such as cocoa butter and
suppository waxes; oils such as peanut oil, cottonseed oil; safflower oil; sesame oil;
olive oil; corn oil and soybean oil; glycols such as propylene glycol or polyethylene
glycol; esters such as ethyl oleate and ethyl e; agar; buffering agents such as
magnesium hydroxide and aluminum hydroxide; c acid; pyrogen-free water;
isotonic saline; Ringer's on; ethyl alcohol, and phosphate buffer solutions, as
well as other non-toxic compatible lubricants such as sodium lauryl sulfate and
magnesium stearate, as well as coloring agents, releasing agents, coating agents,
sweetening, flavoring and perfuiming agents, preservatives and antioxidants can also
be present in the composition, according to the judgment of the formulator.
According to the invention, an tive amount" of the compound or
pharmaceutically acceptable composition is that amount effective for treating or
lessening the ty of HPV infections. If other indications are being treated with
the polyamides described here, then an “effective amount” would be defined as per
the norms of ent for those diseases.
Administration
The ceutical compositions, according to the method of the present
invention, may be administered using any amount and any route of administration
effective for treating or lessening the severity of a chronic HPV disease.
The exact amount ed will vary from subject to t, depending on
the species, age, sex, weight, diet, l condition and general condition of the
subject, the severity of the infection, the particular agent, its mode of administration,
and the like. Other s affecting the dosing regimen include pharmacological
considerations such as the activity, efficacy, pharmacokinetics and toxicology profiles
of the compounds employed, whether a drug delivery system is used and whether the
compounds are administered with other ingredients. The dosage can be determined
routinely using standard methods known in the art. The dosage regimen actually
employed may therefore vary widely based upon the d t and thus deviate
from the exemplary dosage regimen set forth below. The nds of the invention
are preferably formulated in dosage unit form for ease of administration and
uniformity of dosage. The expression "dosage unit form" as used herein refers to a
physically discrete unit of agent appropriate for the subject to be treated. It will be
understood, however, that the total daily usage of the nds and itions of
the present invention will be decided by the attending physician within the scope of
sound medical nt. The specific effective dose level for any particular subject
will depend upon a variety of factors including the er being treated and the
severity of the disorder; the activity of the specific compound employed; the specific
composition employed; the age, body weight, general health, sex and diet of the
subject; the time of administration, route of administration, and rate of excretion of
the specific compound employed; the duration of the treatment; drugs used in
combination or coincidental with the specific compound employed, and like factors
known in the medical arts. The term "subj ect", as used herein, means an animal, for
example, a mammal, including a human.
WO 55825
Administration of the compounds may be with a regimen calling for a
single daily dose, multiple, spaced doses throughout the day, a single dose every other
day, a single dose every several days or other appropriate regimens.
For example, the formulated ides can be stered once daily at
a final concentration of 5 mg/mL ximate concentration of 2.5 mM) in
approximately 4 ml of vehicle via a vaginal applicator, for e, to the posterior
fomix of the vagina. If administered in the evening prior to sleep, it is pated that
most of the drug will remain in the highest aspects of the vaginal canal, in closest
proximity to the cervix, due to lack of ambulation. In one embodiment, the polyamide
formulation may be administered for 10 days.
The pharmaceutically acceptable compositions of this ion can be
administered to humans and other animals orally, rectally, parenterally,
istemally, intravaginally, intraperitoneally, topically (as by s, ointments,
or drops), bucally, as an oral or nasal spray, or the like, depending on the severity of
the infection being treated. In certain embodiments, the compounds of the invention
may be administered orally or parenterally at dosage levels of about 0.01 mg/kg to
about 50 mg/kg and preferably from about 1 mg/kg to about 25 mg/kg, of subject
body weight per day, one or more times a day, to obtain the desired therapeutic effect.
Liquid dosage forms for oral administration include, but are not d to,
pharmaceutically acceptable emulsions, microemulsions, solutions, suspensions,
syrups and elixirs. In addition to the active compounds, the liquid dosage forms may
contain inert diluents commonly used in the art such as, for example, water or other
solvents, solubilizing agents and emulsifiers such as ethyl l, isopropyl alcohol,
ethyl carbonate, ethyl acetate, benzyl alcohol, benzyl benzoate, propylene glycol, 1,3-
butylene glycol, dimethylformamide, oils (in particular, cottonseed, groundnut, corn,
germ, olive, castor, and sesame oils), glycerol, tetrahydrofurfuryl alcohol,
polyethylene glycols and fatty acid esters of sorbitan, and mixtures thereof. Besides
inert diluents, the oral compositions can also include adjuvants such as wetting agents,
emulsifying and suspending agents, sweetening, flavoring, and perfuming agents.
Injectable preparations, for example, sterile injectable aqueous or
nous suspensions, may be formulated according to the known art using suitable
sing or wetting agents and suspending agents. The sterile injectable preparation
may also be a sterile injectable on, suspension or emulsion in a nontoxic
parenterally acceptable diluent or solvent, for example, as a solution in 1,3-
butanediol. Among the acceptable vehicles and solvents that may be employed are
water, Ringer's solution, U.S.P. and isotonic sodium de solution. In addition,
sterile, fixed oils are conventionally employed as a solvent or suspending .
For this purpose, any bland fixed oil can be employed including synthetic mono- or
erides. In addition, fatty acids such as oleic acid may be used in the preparation
of injectables.
The injectable ations can be ized, for example, by
incorporating sterilizing agents in the form of sterile solid compositions that can be
dissolved or dispersed in sterile water or other e injectable medium prior to use.
To prolong the effect of a compound of the t invention, it is often
desirable to slow the absorption of the compound from subcutaneous or intramuscular
injection. This may be accomplished by the use of a liquid suspension of crystalline or
amorphous material with poor water solubility. The rate of absorption of the
compound then s upon its rate of dissolution that, in turn, may depend upon
crystal size and crystalline form. Alternatively, delayed absorption of a parenterally
stered compound form is accomplished by dissolving or suspending the
compound in an oil vehicle. Injectable depot forms are made by g
microencapsule matrices of the nd in biodegradable polymers such as
polylactide-polyglycolide. Depending upon the ratio of nd to polymer and the
nature of the particular polymer employed, the rate of compound release can be
controlled. Examples of other biodegradable polymers include poly(orthoesters) and
poly(anhydrides). Depot injectable formulations are also prepared by entrapping the
nd in liposomes or microemulsions that are compatible with body tissues.
Compositions for rectal or vaginal administration can be suppositories
which can be prepared by mixing the compounds of this invention with suitable non-
irritating excipients or carriers such as cocoa butter, polyethylene glycol or a
suppository wax which are solid at ambient temperature but liquid at body
temperature and therefore melt in the rectum or vaginal cavity and release the active
compound.
Solid dosage forms for oral administration include capsules, tablets, pills,
s, and granules. In such solid dosage forms, the active compound is mixed
with at least one inert, pharmaceutically acceptable excipient or carrier such as
sodium citrate or dicalcium phosphate and/or (a) fillers or extenders such as starches,
lactose, sucrose, e, mannitol, and silicic acid, (b) binders such as, for example,
carboxymethylcellulose, alginates, gelatin, polyvinylpyrrolidinone, sucrose, and
acacia, (c) humectants such as glycerol, (d) disintegrating agents such as agar-agar,
calcium carbonate, potato or tapioca starch, alginic acid, certain silicates, and sodium
carbonate, (e) solution retarding agents such as in, (f) absorption accelerators
such as quaternary ammonium compounds, (g) wetting agents such as, for example,
cetyl alcohol and ol monostearate, (h) absorbents such as kaolin and bentonite
clay, and (i) lubricants such as talc, calcium stearate, magnesium te, solid
polyethylene glycols, sodium lauryl sulfate, and mixtures thereof. In the case of
capsules, tablets and pills, the dosage form may also comprise buffering agents.
Solid compositions of a similar type may also be employed as fillers in
soft and hard-filled n capsules using such excipients as lactose or milk sugar as
well as high lar -weight polyethylene glycols and the like. The solid dosage
forms of tablets, dragees, capsules, pills, and es can be prepared with coatings
and shells such as enteric coatings and other coatings well known in the
pharmaceutical ating art. They may optionally n opacifying agents and
can be of a composition that they release the active ingredient(s) only, or
preferentially, in a n part of the intestinal tract, optionally, in a delayed manner.
Examples of embedding compositions that can be used include polymeric substances
and waxes. Solid compositions of a similar type may also be employed as fillers in
soft and hard- filled gelatin capsules using such excipients as lactose or milk sugar as
well as high molecular weight polethylene glycols and the like.
The active compounds can also be in microencapsulated form with one or
more excipients as noted above. The solid dosage forms of tablets, dragees, capsules,
pills, and granules can be prepared with coatings and shells such as enteric coatings,
e lling coatings and other coatings well known in the pharmaceutical
formulating art. In such solid dosage forms, the active compound may be admixed
with at least one inert diluent such as sucrose, lactose or starch. Such dosage forms
may also comprise, as is normal practice, additional nces other than inert
diluents, e. g., tableting lubricants and other ing aids such a magnesium stearate
and microcrystalline cellulose. In the case of capsules, tablets and pills, the dosage
forms may also comprise buffering agents. They may ally contain opacifying
agents and can be of a composition that they release the active ingredient(s) only, or
preferentially, in a certain part of the intestinal tract, optionally, in a delayed manner.
Examples of embedding compositions that can be used include ric substances
and waxes.
Dosage forms for topical or transdermal administration of a compound of
this invention include ointments, pastes, creams, lotions, gels, powders, solutions,
sprays, nts or s. The active component is admixed under sterile
conditions with a pharmaceutically acceptable carrier and any needed preservatives or
buffers as may be required. lmic formulation, ps, and eye drops are also
contemplated as being within the scope of this invention. Additionally, the present
invention contemplates the use of transdermal patches, which have the added
advantage of providing controlled ry of a compound to the body. Such dosage
forms are prepared by ving or sing the compound in the proper medium.
Absorption enhancers can also be used to increase the flux of the compound across
the skin. The rate can be controlled by either providing a rate controlling membrane
or by dispersing the compound in a polymer matrix or gel.
As bed generally above, the compounds of the invention are useful
as treatments for HPV diseases, including c HPV diseases.
More than one compound of the invention may be administered separately,
simultaneously, or sequentially to ed cells, to tissue containing the infected cells,
or to infected subjects.
It will also be appreciated that the compounds and pharmaceutically
acceptable compositions of the present ion can be employed in combination
therapies, that is, the compounds and pharmaceutically acceptable compositions can
be administered concurrently with, prior to, or subsequent to, one or more other
d therapeutics or medical procedures. The ular ation of therapies
(therapeutics or procedures) to employ in a combination regimen will take into
account compatibility of the desired therapeutics and/or procedures and the desired
therapeutic effect to be achieved. It will also be appreciated that the therapies
employed may achieve a desired effect for the same disorder (for example, an
inventive compound may be administered concurrently with another agent used to
treat the same disorder), or they may achieve different effects (e. g., control of any
adverse effects). As used herein, additional therapeutic agents that are normally
administered to treat or prevent a particular disease, or condition, are known as
"appropriate for the disease, or condition, being treated".
2012/059604
The amount of additional therapeutic agent present in the itions of
this invention will be no more than the amount that would normally be administered
in a composition comprising that therapeutic agent as the only active agent.
ably, the amount of additional therapeutic agent in the presently disclosed
itions will range from about 50% to 100% of the amount normally present in a
composition comprising that agent as the only therapeutically active agent.
The compounds of this ion or pharmaceutically acceptable
compositions thereof may also be incorporated into compositions for coating an
implantable l device, such as prostheses, artificial valves, vascular grafts,
stents and catheters. Accordingly, the present invention, in another aspect, includes a
composition for coating an implantable device comprising a compound of the present
invention as described generally above, and in classes and subclasses , and a
carrier suitable for coating said implantable device. In still another aspect, the present
invention es an implantable device coated with a composition comprising a
compound of the present invention as described generally above, and in classes and
subclasses herein, and a carrier suitable for coating said implantable device. Suitable
coatings and the general preparation of coated implantable devices are described in
U.S. Pat. Nos. 6,099,562; 5,886,026; and 5,304,121. The coatings are typically
biocompatible polymeric materials such as a el polymer, polymethyldisiloxane,
polycaprolactone, polyethylene , polylactic acid, ethylene vinyl acetate, and
mixtures f. The coatings may optionally be further covered by a suitable topcoat
of fluorosilicone, polysaccarides, polyethylene glycol, phospholipids or combinations
thereof to impart controlled release characteristics in the composition.
Methods of Treating
Another aspect of the invention relates to treating virus ed cells or
other virus in a biological sample or a subject (e.g., in vitro or in vivo), which method
comprises administering to the subject (human or other animal), or ting said
biological sample with a pharmaceutical composition comprising a polyamide as
bed herein. Mixtures of the polyamides described herein may also be employed.
The term "biological sample", as used herein, includes, without limitation, cell
cultures or ts thereof; biopsied material obtained from a mammal or extracts
thereof; and blood, saliva, urine, feces, semen, tears, or other body fluids or extracts
2012/059604
thereof. The term "subject" includes animals, including mammals, humans, primates,
dogs, cats, horses, pigs, cows, sheep and the like.
After the cells of an individual become exposed and infected with an HPV,
a number of HPV e copies may become established within an ed cell.
The HPV es r replicate as the cells divide, forming approximately the
same number of HPV episomal copies in each new cell (e. g., upon cell division, a cell
containing 20-100 copies will form two new cells, each containing approximately 20-
100 episome copies. Polyamides designed to target A/T-rich regions can promote the
clearance of HPV episomes. Hence, the methods of the present invention can also be
used beneficially as a therapeutic method to treat HPV.
The polyamides used to treat HPV or other papilloma viruses include,
without limitation, those described herein.
In one embodiment, the invention provides a method of treating HPV
affected cells comprising contacting the cells with a compound described herein or a
mixture of such compounds. In an aspect of the invention, the method further
comprises contacting the cells with an anti-viral agent. The anti-viral agent can be an
eron, mod, cidofovir, formaldehyde, glutaral, cimetidine, 5-f1uorouracil,
tricholoroacetic acid, bleomycin, podofilox or podophyllum.
In another embodiment, the invention provides a method of treating HPV
ed cells in a subject, comprising administering to a subject a compound or
pharmaceutical composition described herein. In an aspect of the invention, the
method further comprises contacting the cells with an anti-viral agent. The anti-viral
agent can be an Interferon, Imiquimod, cidofovir, formaldehyde, glutaral, cimetidine,
-fluorouracil, tricholoroacetic acid, bleomycin, podofilox or podophyllum. In another
aspect, the HPV can be HPV 11, HPV16, HPV18, HPVl, HPV6 or HPV31.
In other embodiments, the invention provides a method of treating HPV16,
HPV18 or HPV31 affected cells comprising administering to a subject a polyamide in
accordance with the invention, in particular a compound of the formula Z-(X)n-yq-
(X)m-A, or a pharmaceutically able salt thereof, wherein Z, X, W, A, m and n
are as described above, or a compound of the formula -yq-(X)m-A, or a
ceutically acceptable salt f, n G, X, W, A, m and n are as
described above.
2012/059604
In yet other embodiments, the invention es a method of treating
HPV affected cells, such as HPV16, HPVlS or HPV31 affected cells, by
administering to a subject a compound selected from:
TMG-PyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyPy-Ta;
TMG-PyPyPyBPyPyBPyIm-YNHRv-Pyl3PyPyl3PyPyPyl3Pyl3-Ta;
TMG-PyPyPyBPyPyBPylm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPy-YNHR:-PyPyPyl3PyPyPyl3Pyl3-Ta;
PyPyl3PyPyl3PyIm-YNHz-PyBPyPyBPyPyPyBPyB-Dp;
TMG-PyPyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyl3PyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Dp;
TMG-PyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;
TMG-PyPyPyBPyPyBPy-YNHRvv-PyPyPyBPyPyPyBPyB-Dp;
TMG-PyBPyPylmBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;
TMG-PyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;
TMG-PyBPyPyPy-Y-PyPyBPyPyPyPyB-Ta;
TMG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Dp;
TMG-PyPyBPyPyPy-Y-PyPyBPyPyPyPyB-Ta;
TMG-PyPyBPyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Ta;
TMG-PyPyl3PyPyImBPyPy-Y-PyPyBPyPyPyBPyPyPyB-Dp;
TMG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Dp;
TMG-PyPyBPyPyBPyIm-YGPyBPyPyBPyPyPyBPyB-Dp;
TMG-PyPyBPyPyBPyIm-Y-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PylmBPyPy-y—PyPyPyBPyPyPyB-Ta;
TMG-PyPyBPyPyBPy-YNHz-PyPyPyBPyPyPyBPyB-Ta;
PyBPyPyBPyIm-YNHz-PyBPyPyBPyPyPyBPyB-Ta;
TMG-PyPyBPyPyBPy-Y-PyPyPyBPyPyPyBPyB-Ta;
TMG-PyPyPyBPyPyBPy-Y—PyPyPyBPyPyPyBPyB-Ta;
TMG-PyImPyIm-y—PyPyPyPyB-Ta;
TMG-PyImBIm-y—PyBPyPyB-Ta;
TMG-PyImPyIm-y—PyBPyPyB-Ta;
TMG-PyImBIm-y-PyPyPyPyB-Ta;
GUAN-PyImBImyPyBPyPyB-Ta;
and pharmaceutically acceptable salts thereof.
In aspects of this embodiment, the method further comprises administering
an ral agent. The antiviral agent can be an eron (e. g., Interferon-y and
Interferon-0), Imiquimod, cidofovir, formaldehyde, glutaral, cimetidine, 5-
fluorouracil, trichloroacetic acid, bleomycin, lox, podophyllum, vir and
other Herpes/cytomegaloviral drugs, and anti-HIV drugs. The polyamides can also be
used in combination with photodynamic therapy, radiation therapy and chemotherapy.
In order that the invention bed herein may be more fully understood,
the following examples are set forth. It should be understood that these examples are
for illustrative purposes only and are not to be construed as limiting this invention in
any manner.
Examples
Polyamide oligomers may be synthesized starting with Boc-B-alanine-
PAM solid phase synthesis resin, or a similar cially available resin such as
Fmoc-B-alanine-Wang resin, adding building blocks as required for the target
sequence. The final step in the preparation of a guanidinylated polyamide is
exemplified by incorporation of a ethylguanidinyl (TMG) group at the N-
terminus. TMG-polyamide synthesis involves placement of the tetramethylguanidinyl
radical using HATU (2-(7-aza-1H-benzotriazoleyl)-1,1,3,3-tetramethyluronium
hexafluorophosphate).
Table la lists a number of exemplary ides synthesized in
accordance with the present invention. The HPLC/MW values given in Table lb
were obtained using low resolution high pressure liquid chromatography/mass
spectrometry (LR HPLC/MS), which provides te precision masses of single
isotopomers rather than average molecular weights or exact masses. The full
structure of compound NV1096 is set forth in Figure 2. Table 2 presents a summary
of measured IC50 values of certain of these polyamides against HPVl6, HPVlS and
HPV3l. The IC50 is the concentration of compound ed for 50% inhibition of
viral replication in vitro. The polyamides were tested in cells that maintain HPVl6,
HPVlS or HPV31 DNA. Cells maintaining the ed HPV were cultured for 72
hours in the presence of the polyamide. Viral DNA was then quantified using real-
time PCR and compared to e (DMSO)-treated control cultures. The results
obtained demonstrate that the tested polyamides generally exhibited effectiveness in
inhibiting replication of HPVl6, HPVlS and HPV3l. Table 3 presents a summary of
ed IC50 and IC90 values of certain of these polyamides t HPVl6, HPVlS
and HPV3l. The results further demonstrate that the tested polyamides exhibited
effectiveness in inhibiting replication of HPVl6, HPV18 and HPV3l.
Table 1a.
mim—
XV107I TMG-PyPyBPyPyBPyIm-YNHg-PyBPyPyBPyPyPyBPyPy-Ta - 5TFA
XV1072 TMG-PyPyPyBPyPyBPy|m-YNHgi-PyBPyPyBPyPyPyBPyB-Ta - 6TFA
XV1073 TMG-P P P P P P Im- NHg-P P P P P P P -Ta-5TFA
XV1074 TMG-PyPyPyBPyPyBPy-yNHgi-PyPyPyBPyPyPyBPyB-Ta - 5TFA
XV1075 TMG-P P P P P P Im- NHg-P P P P P P P -D -4TFA
XV1076 TMG-P P P P P P - NHg-P P P P P P P —Ta
XV1077 TMG-PyPyPyBPyPyBPy-YNHg-PyPyPyBPyPyPyBPyB—Dp
XV1078 TMG-PyBPyPyImBPyPy-y-PyPyBPyPyPyBPyPyPyB-Ta - 4TFA
XV1079 TMG-P P P P P BP - NHRn-P P P P P P P -D -3TFA
XV1080 TMG-PyBPyPyImBPyPy-y-PyPyBPyPyPyBPyPyPyB-Dp - 3TFA
XV1081 TMG-PyBPyPyPy-y-PyPyBPyPyPyPyB-Dp - 2TFA
XV1082 TMG-PyBPyPyPy-y-PyPyBPyPyPyPyB-Ta - 3TFA
XV1083 TMG-PyPyBPyPyPy-y-PyPyBPyPyPyPyB-Dp - 2TFA
XV1084 TMG-PyPyBPyPyPy-y-PyPyBPyPyPyPyB-Ta - 3TFA
XV1085 PyBPyPyImBPyPy-y—PyPyBPyPyPyBPyPyPyB-Ta - 4TFA
XV1086 TMG-PyPyBPyPyImBPyPy-y—PyPyBPyPyPyBPyPyPyB-Dp - 3TFA
XV1087 TMG-PyPyPyBPyPyBPylm-y-PyBPyPyBPyPyPyBPyB-Ta - 4TFA
XV1088 TMG-PyPyPyBPyPyBPylm-y-PyBPyPyBPyPyPyBPyB-Dp - 3TFA
XV1089 TMG-PyPyBPyPyBPyIm-y-PyBPyPyBPyPyPyBPyB-Dp - 3TFA
XV1090 TMG-PyPyBPyPyBPyIm-y-PyBPyPyBPyPyPyBPyB-Ta - 4TFA
XV1094 TMG-PylmBPyPy-y-PyPyPyBPyPyPyB-Ta - 4TFA
XV1095 TMG-PyPyBPyPyBPy-YNHg-PyPyPyBPyPyPyBPyB-Ta - 4TFA
XV1096 TMG-PyPyBPyPyBPyIm-YNHg-PyBPyPyBPyPyPyBPB-Ta - 5TFA
XV1097 TMG-PyPyBPyPyBPy-y-PyPyPyBPyPyPyBPyB-Ta - 3TFA
XV1098 TMG-PyPyPyBPyPyBPy-y-PyPyPyBPyPyPyBPyB-Ta - 3TFA
XV1101 TMG-PyPyPyBPyPyBPyIm-y-PyBPyPyBPyPyPyBPyB-Ta—FAM - 3TFA
XV1102 TMG-PyImPyIm-y-PyPyPyPyB-Ta - 5TFA
XVI 103 TMG-PylmBIm-y-PyBPyPyB-Ta - 5TFA
XVI 104 ImPyIm-y—PyBPyPyB-Ta - 5TFA
XV1105 TMG-P Im Im- —P P P P -Ta-5TFA
XVI 106 GUAN-PylmBIm-y—PyBPyPyB-Ta - 5TFA
GUAN = unsubstituted ine
R’ = -CONHCH2CH2CH2N(Me)CHZCHZCHZNHZ
R” = -CONHCH2CH2CH2N(Me)2
TMG = ethylguanidinyl
[3 = beta-alanine Ta = 3,3’-diamin0-N-methyldipropylamine
y: gamma-aminobutyric acid Dp = 3-(dimethylamin0)propy1amine
Py = 4-amin0Carbonyl-N-methylpyrrole
Im = 4-aminocarb0ny1—N-methylimidazole
Table 1b.
Molecular calc. HRMS
formula of free calc. exact avg. HPLC/MW
nd base mass M MW (ESI+)
NV1071 C114H145N41020 2408.159 2409.63 2409.8 [M+H]+ 240814725 [M]+
1205.5 [M+2H]2+
NV1072 C125H167N45022 2650.3332 2651.95 1326.5 H]2+ 265031905 [M]+
NV1073 C117H150N42021 961 2480.71 2481.0 [M+H]+ 2479-18193 [M]+
1241.0 [M+2H]2+
NV1074 C117H157N41020 2456.2529 2457.76 2458.2 [M+H]+ 2456-24158 [M]+
1229.5 [M+2H]2+
NV1075 C115H145N41021 2436.1539 2437.64 2438.2 [M+H]+ 4773 [M]+
1219.5 [M+2H]2+
NV1076 C109H140N38019 2285.1157 2286.52 2287.0 [M+H]+ 228510297 [M]+
1144.0 [M+2H]2+
NV1077 C107H135N37019 2242.0735 2243.45 2244.0 [M+H]+ 2242.06.38 [M]+
1122.3 [M+2H]2+
NV1078 C114H144N40020 2393.1481 2394.62 2395.0 [M+H]+ 239313581 [M]+
1198.0 [M+2H]2+
NV1079 C113H147N39020 2370.1685 2371.63 2372.0 [M+H]+ 2370.15878 [M]+
1186.5 [M+2H]2+
NV1080 C112H139N39020 2350.1059 2351.55 2352.0 [M+H]+ 2350.09462 [M]+
1176.5 [M+2H]2+
NV1081 C83H106N28014 1718.8443 1719.91 1720.5 [M+H]+ 1718.8341Mr
860.5 [M+2H]2+
NV1082 C85H111N29014 1761.8865 1762.98 1763.5 [M+H]+ 1761.87571Mr
882.0 [M+2H]2+
NV1083 C89H112N30015 1840.8923 3 1842.5 [M+H]+ 1840.882441Mr
921.5 2+
NV1084 C91H117N31015 1883.9345 1885.1 1885.5 [M+H]+ 1883.923751Mr
943.0 [M+2H]2+
2012/059604
Molecular calc. HRMS
formula of free calc. exact avg. HPLC/MW
Com ound base mass M MW (ESI+)
NV1085 C120H150N42021 2515.1961 2516.74 2517.0[M+H]+ 2515.183931Mr
1259.0 [M+2H]2+
NV1086 C118H145N41021 2472.1539 2473.68 2474.0[M+H]+ 2472.145151Mr
1237.5 [M+2H]2+
NV1087 C117H149N41021 2464.1852 2465.7 2466.0[M+H]+ 2464.16861Mr
1233.5 [M+2H]2+
NV1088 44N40021 2421.143 2422.63 2423.0[M+H]+ 2421.126611Mr
1212.0 [M+2H]2+
NV1089 C109H138N38020 2299.095 2300.5 2300.8[M+H]+ 2299.1161Mr
1151.0 [M+2H]2+
NV1090 C111H143N39020 372 2343.57 2343.8[M+H]+ 2342.151M1+
1172.5 [M+2H]2+
NV1094 C84H110N30014 1762.8818 1763.96 1763.8[M+H]+ 1762.89071Mr
882.5 [M+2H]2+
NV1095 C103H134N36018 2163.0677 2164.4 1083.0 [M+2H]2+
NV1096 C111H144N40020 2357.1481 2358.59 1180.0[M+2H]2+ 2358-17183
[M+H]+
NV1097 C103H133N35018 2148.0574 2149.39 2149.8[M+H]+ 511M1+
1075.5 [M+2H]2+
NV1098 C109H139N37019 2270.1054 2271.51 2271.8[M+H]+
1136.5 [M+2H]2+
NV1101 C138H160N41027 407 1 [M+2H]
NV1102 C65H87N25010 1377.70716 6 1378.6[M+H]+ 13777012
689.8 [M+2H]2+
NV1103 C59H85N23010 1275.6801 1276.46 1276.6[M+H]+ 1275.6801
638.8 [M+2H]2+
NV1104 C62H86N24010 1326.69626 1327.51 1327.6[M+H]+ 13266897
664.4 [M+2H]2+
PCT/U82012/059604
Compound Molecular calc. exact calc. HPLC/MW HRMS
formula of free mass M avg. (ESI+)
base MW
NV1105 C62H86N24010 1326.69626 1 1327.6 [M+H]+ 1326.69
664.4 [M+2H]2+
NV1106 C55H77N23010 1219.6227 1220.35 1220.4 [M+H]+ 2408.14725 [M]+
610.8 [M+2H]2+
Table 2.
Compound
Compound
NV1088
In Table “-“ indicates no measurable antiviral response was ed ve to
control at the highest dose tested (10 uM).
Table 3.
Compound HPV16 1C50 HPV16 1C90 HPV18 1C50 HPV18 1C90 HPv31 1C50 HPV31 1C90
NV1097 0.070 (1 ) 1.407 0.257 (1 0.041) >10 0.040 (1 0.001) 10
NV1098 0.011 (1 0.0001) 1.360 0.017 (1 0.0001) >10 0.024 (1 0.001) 0.549
Several alternative approaches may be used to confirm the effects of the
compounds on viral DNA. These additional ures include normalization to total DNA,
preparation of DNA by different procedures including DNeasy (Total Genomic DNA)
Qiagen spin columns, DNAzol total genomic DNA preparations, and Hirt (low MW DNA
preparations; (Hirt, (1967), J Mol Biol. 26:365-9).
Southern blotting may be used to confirm the effects of polyamides on HPV DNA
levels that were determined using real-time PCR technology. The experiments may be
ted as previously described (Gamer-Hamrick and Fisher, Virology, 301, 334-41,
2002)
The toxicity of each polyamide found active against HPV may be monitored in
normal human keratinocytes using an MTT cell viability assay (Denizot and Lang, 1986).
Other ments
It is to be understood that while the ion has been described in conjunction
with the foregoing detailed description thereof, the foregoing description is intended to
illustrate and not limit the scope of the invention, which is defined by the scope of the
appended . Other advantages, and modifications are within the scope of the following
claims.
Claims (11)
1. A compound of the formula: G-(X)n-γq-(X)m-A or a pharmaceutically acceptable salt thereof, wherein m is 5-12; n is 4-10; G is a guanidinyl radical of formula or its er, wherein R1, R2, R3 or R4 is H, alkyl, aryl, or aralkyl; each X is independently selected from 4-aminocarbonyl-N-methylimidazole, 4- aminocarbonyl-N-methylpyrrole or β-alanine; γq is γ-aminobutyric acid, 2,4-diaminobutyric acid, or H2N(CH2)2CH(NHC(=O)NHR)CO2H, wherein R is -(CH2)3-N(CH3)-(CH2)3- NH2 or -(CH2)3-N(CH3)2; and A is 3,3'-diamino-N-methyldipropylamine or 3-(dimethylamino)propylamine.
2. A compound according to claim 1, wherein G is tetramethylguanidinyl.
3. A compound according to claim 1, wherein the polyamide compound is selected from the group consisting of: TMG-PyPyβPyPyβPyIm-γNH2-PyβPyPyβPyPyPyβPyPy-Ta; TMG-PyPyPyβPyPyβPyIm-γNHR'-PyβPyPyβPyPyPyβPyβ-Ta; TMG-PyPyPyβPyPyβPyIm-γNH2-PyβPyPyβPyPyPyβPyβ-Ta; TMG-PyPyPyβPyPyβPy-γNHR'-PyPyPyβPyPyPyβPyβ-Ta; PyPyβPyPyβPyIm-γNH2-PyβPyPyβPyPyPyβPyβ-Dp; TMG-PyPyPyβPyPyβPy-γNH2-PyPyPyβPyPyPyβPyβ-Ta; TMG-PyPyPyβPyPyβPy-γNH2-PyPyPyβPyPyPyβPyβ-Dp; βPyPyImβPyPy-γ-PyPyβPyPyPyβPyPyPyβ-Ta; TMG-PyPyPyβPyPyβPy-γNHR''-PyPyPyβPyPyPyβPyβ-Dp; TMG-PyβPyPyImβPyPy-γ-PyPyβPyPyPyβPyPyPyβ-Dp; TMG-PyβPyPyPy-γ-PyPyβPyPyPyPyβ-Dp; 206530NZ_claims_20160118_PLH TMG-PyβPyPyPy-γ-PyPyβPyPyPyPyβ-Ta; TMG-PyPyβPyPyPy-γ-PyPyβPyPyPyPyβ-Dp; TMG-PyPyβPyPyPy-γ-PyPyβPyPyPyPyβ-Ta; TMG-PyPyβPyPyImβPyPy-γ-PyPyβPyPyPyβPyPyPyβ-Ta; TMG-PyPyβPyPyImβPyPy-γ-PyPyβPyPyPyβPyPyPyβ-Dp; TMG-PyPyPyβPyPyβPyIm-γ-PyβPyPyβPyPyPyβPyβ-Ta; TMG-PyPyPyβPyPyβPyIm-γ-PyβPyPyβPyPyPyβPyβ-Dp; TMG-PyPyβPyPyβPyIm-γ-PyβPyPyβPyPyPyβPyβ-Dp; TMG-PyPyβPyPyβPyIm-γ-PyβPyPyβPyPyPyβPyβ-Ta; TMG-PyImβPyPy-γ-PyPyPyβPyPyPyβ-Ta; TMG-PyPyβPyPyβPy-γNH2-PyPyPyβPyPyPyβPyβ-Ta; TMG-PyPyβPyPyβPyIm-γNH2-PyβPyPyβPyPyPyβPyβ-Ta; TMG-PyPyβPyPyβPy-γ-PyPyPyβPyPyPyβPyβ-Ta; PyPyβPyPyβPy-γ-PyPyPyβPyPyPyβPyβ-Ta; TMG-PyImPyIm-γ-PyPyPyPyβ-Ta; TMG-PyImβIm-γ-PyβPyPyβ-Ta; TMG-PyImPyIm-γ-PyβPyPyβ-Ta; TMG-PyImβIm-γ-PyPyPyPyβ-Ta; GUAN-PyImβImγPyβPyPyβ-Ta; wherein Im is 4-aminocarbonyl-N-methylimidazole; Py is 4-aminocarbonyl-N- methylpyrrole; β is ine; γ is γ-aminobutyric acid; γNH2 is 2,4-diaminobutyric acid; γ NHR' is H2N(CH2)2CH(NHC(=O)NHR)CO2H, wherein R is -(CH2)3-N(CH3)- (CH2)3-NH2; γNHR'' is H2N(CH2)2CH(NHC(=O)NHR)CO2H, wherein R is -(CH2)3- N(CH3)2; Ta is 3,3'-diamino-N-methyldipropylamine; Dp is 3- (dimethylamino)propylamine; TMG is tetramethylguanidinyl; and GUAN is an unsubstituted guanidinyl radical; and pharmaceutically acceptable salts thereof.
4. A compound according to claim 1, wherein γq is (R)-2,4-diaminobutyric acid (γNH2).
5. A nd according to claim 1, n γq is (S)-2,4-diaminobutyric acid (γNH2).
6. A pharmaceutical composition comprising a therapeutically effective amount of a compound of claim 1 and a ceutically acceptable carrier. 206530NZ_claims_20160118_PLH
7. The compound according to claim 1, which is fluorescent or fluorescently labeled.
8. The nd according to claim 7, of formula: TMG-PyPyPyβPyPyβPyIm-γ-PyβPyPyβPyPyPyβPyβ-Ta-FAM, wherein Im is 4-amino- 2-carbonyl-N-methylimidazole; Py is ocarbonyl-N-methylpyrrole; β is βalanine ; γ is γ-aminobutyric acid; Ta is 3,3'-diamino-N-methyldipropylamine; TMG is tetramethylguanidinyl; and FAM is 5-Carboxyfluorescein; and ceutically acceptable salts thereof.
9. The use of a compound of claim 1 in the manufacture of a medicament for the treatment of infections caused by double-stranded DNA viruses.
10. The use according to claim 9, wherein the infection is caused by a virus selected from HPV, Epstein-Barr s, herpes viruses, adenoviruses, BK and pox viruses.
11. The use according to claim 9, wherein the infection is caused by HPV16, HPV31, or HPV18. 206530NZ_claims_20160118_PLH
Applications Claiming Priority (3)
Application Number | Priority Date | Filing Date | Title |
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US201161545311P | 2011-10-10 | 2011-10-10 | |
US61/545,311 | 2011-10-10 | ||
PCT/US2012/059604 WO2013055825A2 (en) | 2011-10-10 | 2012-10-10 | Guanidinyl-substituted polyamides useful for treating human papilloma virus |
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Publication Number | Publication Date |
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NZ623292A NZ623292A (en) | 2016-02-26 |
NZ623292B2 true NZ623292B2 (en) | 2016-05-27 |
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