# Patent

## Title
Arginine derivatives with NP-I antagonistic activity

## Abstract

The present invention is a compound of formula (I) or formula (II) which are suitable as NP-1 antagonists.

## Background
CROSS-REFERENCE TO A RELATED APPLICATION
This application is a National Stage Application of International Application Number PCT/GB2007/003766, filed Oct. 4, 2007; which claims priority to Great Britain Application No. 0619611.7, tiled Oct. 4, 2006; all of which are incorporated herein by reference in their entirety.
FIELD OF THE INVENTION
This invention relates to peptidomimetics which have NP-1 antagonist activity and which have activity of potential benefit in therapy.
BACKGROUND OF THE INVENTION
A non-tyrosine kinase transmembrane protein, neuropilin-1 (NP-1) is a receptor for members of the VEGF family of angiogenic cytokines, particularly VEGF-A165, as wells as a receptor for a family of molecules called semaphorins or collapsins which play a key role in the guidance of neuronal axons during mammalian development. In particular, NP-1 is known to mediate the growth cone-collapsing and chemorepulsive activity of semaphorin 3A. NP-1 has been shown to play a role in the primary T-cell immune response.
There are a number of conditions in which NP-1 may have a significant role in pathology. Such conditions include stroke, ischaemic eye disease, cancer and rheumatoid arthritis.
SUMMARY OF THE INVENTION
New compounds have been discovered, which have NP-1 antagonist activity.
According to a first aspect, the present invention is a compound of formula I or formula II








wherein

X is CH2, C(O), NH, O or SO2;
Y is a direct bond or furanylene;
Z1 is an arylene or heteroaromatic group;
Z2 is a direct bond, a SO2NH, CONH or NHCONH group;
Z3 is an aryl or heteroaromatic group;
Z4 is CH2 or NR1;
Z5 is H, OH, C(O)OR1 or P(O)(OR1)2;
Z6 is, OR1 or NHR2;
each R1 is independently H or an alkyl group;
each R2 is independently H or a CN, OH or SO2CH3 group; and
n is 0, 1 or 2,
or a pharmaceutically acceptable salt, solvate or polymorph thereof.


DESCRIPTION OF PREFERRED EMBODIMENTS
Preferably, the compound is of formula I, wherein X, Y, Z1-6, and R1-2 are as defined above.
It will be appreciated that the compounds according to the invention contain an asymmetrically substituted carbon atom. The presence of this asymmetric centre in a compound of formula (I) can give rise to stereoisomers, and in each case the invention is to be understood to extend to all such stereoisomers, including enantiomers and diastereomers, and mixtures including racemic and non-racemic mixtures thereof.
It will also be appreciated that tautomers of the specific compounds of the invention exist, and these are included within the scope of the invention. These tautomers may be formed after the formal migration of a hydrogen atom, and the switch of a single bond and an adjacent double band. Methods of tautomerization will be well known to those skilled in the art.
As used in this specification, alone or in combination, the term “alkyl” refers to a straight or branched chain alkyl moiety, including for example, methyl, ethyl, propyl, isopropyl, butyl, tert-butyl, pentyl, hexyl and the like.
The term “aryl” means an aromatic hydrocarbon moiety and includes phenyl, biphenyl or naphthyl group. The aryl ring may be substituted, for example by an NO2 group.
The term “arylene” means a divalent aromatic hydrocarbon moiety and includes phenylene, biphenylene or naphthylene. The arylene ring may be substituted, for example by an NH2 group.
The term “heteroaromatic” refers to monovalent or divalent aromatic ring systems, from which at least one ring atom is selected from the group, O, N, or S and includes for example benzofused furanyl, thiophenylene, thiophenylene (phenyl), pyridyl, indolyl, pyridazinyl, piperazinyl, pyrimidinyl, thiazolylene and the like.
The activity of the compounds of the invention means that they may be useful in the treatment of diseases in which NP-1 may have a significant role in pathology. The compounds of the invention may be useful for stimulating nerve repair, for the treatment of neurodegeneration and for use in anti-cancer therapy. They may also be useful in the treatment of a disease where modulation of the immune system is required, for example, following transplant surgery. Yet other conditions that may be treated using a compound of the invention include skin diseases such as psoriasis, diseases requiring immunomodulation, angiogenesis in the eye, diabetes, macular degeneration, glaucoma and heart failure.
For therapeutic use, compounds of the invention may be formulated and administered by procedures, and using components, known to those of ordinary skill in the art. The appropriate dosage of the compound may be chosen by the skilled person having regard to the usual factors such as the condition of the subject to be treated, the potency of the compound, the route of administration etc. Suitable routes of administration include oral, intravenous, intramuscular, intraperitoneal, intranasal and subcutaneous.
A NP-1 antagonist may compete with semaphorin-3A for binding to NP-1, and thereby antagonise inhibitory effects of semaphorin-3A on axonal outgrowth and migration in nerve cells. Potential applications of this are in promoting neurite outgrowth, in stimulating nerve repair or treating neurodegeneration. Further, an NP-1 antagonist may promote the survival of semaphorin-3A-responsive neurones, an effect that would confirm or enhance its utility in the applications given above, and may extend these applications, e.g. to treating neuronal death caused by episodes of ischaemia as in stroke and some eye diseases.
Recent evidence suggests a role for NP-1 in angiogenesis. The evidence shows that NP-1 may be essential for VEGF-induced angiogenesis in cancer, eye disease, rheumatoid arthritis and other diseases. Therefore, NP-1 antagonists may have applications in the inhibition of VEGF-dependent angiogenesis in disease.
NP-1 antagonists may also play a role in modulating the immune system. Therefore, it may be useful to give a compound of the invention before, during or after a transplant.
In addition, a NP-1 antagonist may compete with VEGF for binding to NP-1 in tumour cells and promote cell death in NP-1-expressing tumour cells. Potential applications of this are in anti-cancer therapy. Furthermore, a NP-1 antagonist has anti-metastatic potential since it effectively inhibits carcinoma cell adhesion to extra-cellular matrix proteins and cell migration.
The following examples illustrate the invention. General schemes for synthesising peptidomimetics of the invention are provided. Experimental detail, for both the solid and solution phase experiments, is also given.
Abbreviations
Ar; aromatic, Arg, Arginine; Boc, tert-butoxy carbonyl; Trt, trityl; tBu, tert-butyl; Acm, acetamidomethyl; DIC, diisopropylcarbodiimide; DIPEA, N,N-diisopropylethylamine, Et, ethyl; Fmoc, 9-fluorenylmethoxy-carbonyl; HATU, 2-(7-aza-1H-benzotriazole-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate; HBTU, 2-(1H-benzotriazol-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate; HetAr; Heteroaromatic, HOBt, 1-hydroxybenzotriazole; HPLC, high performance liquid chromatography; LC-MS, liquid chromatography mass spectrometry; Me, methyl; Pbf, 2,2,4,6,7-pentamethyldihydrobenzofuran-5-sulfonyl; PG, protecting group; py, pyridine; PyBrOP, bromo-tris-pyrrolidino-phosphonium hexafluorophosphate; THF, tetrahydrofuran; TLC, thin-layer chromatography.
Solid Phase
Definitions and Final Compound Characterisation
General Procedure for the Synthesis of Sulfonamides




Methyl-3-aminothiophene-2-carboxylate (100-500 mg, 1 eq) was stirred with the corresponding aromatic sulfonyl chloride (1.1 eq) in pyridine (5 mL), under nitrogen, at 20° C. for 18 hours.
The reaction was monitored using TLC and, after this time, water was added to the reaction mixture (approx. 1 mL) and the solvents removed in vacuo. The resulting red/pink coloured solids were partitioned between 1M hydrochloric acid (aqueous solution, 20 mL) and ethyl acetate (20 mL). The phases were separated and the aqueous phase extracted with ethyl acetate (3×20 mL). The organic phases were combined and washed with water (25 mL), brine (saturated aqueous solution, 25 mL), dried over magnesium sulfate, filtered and the solvent removed in vacuo to typically afford a red/brown oily solid. The solid was then purified using flash column chromatography on silica gel (eluent ethyl acetate:iso-hexane; 25:75.
Bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (1 eq) was added to a stirred solution of the aniline (1.5 mmol, 1 eq), the free acid (1.5 mmol, 1 eq) and N,N-diisopropylethylamine (3 eq) in acetonitrile (5 mL). The reaction mixture was then stirred for 20 h at 85° C. After this time the reaction solvent was removed in vacuo and the residue dissolved in ethyl acetate (15 mL).
General Procedure for the Reaction of Thiophene Amino Acids with Sulfonyl Chlorides




The amine (1 eq) was dissolved in 1,4-dioxane (7.5 mL), sodium carbonate (5 eq) was dissolved in water (7.5 mL) and the two solutions combined and stirred vigorously. Sulfonyl chloride (1.5-2.5 eq) was added, portionwise over one hour, and the brown reaction mixture stirred at room temperature for 48 hours. After this time the reaction solvent was reduced to half the volume and diluted with water (15 ml). This phase was washed with diethyl ether (15 mL) and then acidified with potassium hydrogen sulfate (10% aqueous solution). The resultant precipitate was extracted into ethyl acetate, the phases separated and the solvent removed in vacuo to afford a brown semi-solid which was purified using flash column chromatography on silica gel (eluent: ethyl acetate:iso-hexane; 50:50 increasing to methano/ethyl acetate; 10:90) to afford the desired compound.
Ester Building Blocks/Intermediates General Procedure for Solution-Phase PyBroP Coupling




Carboxylic acid (20-250 mg, 1 eq) and bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (1.1 eq) were suspended in dichloromethane (5 mL) and the mixture was stirred at 20° C. for 10 minutes. N,N-Diisopropylethylamine (7 eq) was added to the mixture and stirred for a further 10 minutes. The appropriate amine (1.1 eq) was added and the reaction mixture was then stirred for 24-48 hours at 20° C. After this time the reaction solvent was removed in vacuo and the residue partitioned between hydrochloric acid (1M aqueous solution, 20 mL) and ethyl acetate (20 mL). The phases were separated and the aqueous phase extracted with ethyl acetate (3×20 mL). The organic phases were combined and washed with brine (saturated, aqueous solution, 25 mL), dried over magnesium sulfate, filtered and the solvent removed in vacuo to afford the crude residue.
General Procedure for Removal of the Fmoc Group from Fmoc-Arg-Wang Resin




The Fmoc-Arg-Wang resin (typically 100 mg, 1 eq) was swollen with N,N-dimethylformamide (2 mL) for 30 minutes. The N,N-dimethylformamide was removed, piperidine in N,N-dimethylformamide (2 mL, 1:5) was added and the resin agitated for 5 minutes. The solvent was removed, and further piperidine in N,N-dimethylformamide (2 mL, 1:5) was added and agitated for a further 15 minutes. The solvents were removed and the resin was washed with dichloromethane (5 mL), methanol (5 mL), N,N-dimethylformamide (5 mL) and dried in vacuo. A Kaiser test was performed and, if positive (i.e., free amine present), the resin was deemed suitable for further transformation.
General Procedure for Coupling of Carboxylic Acid Scaffolds to Arg-Wang Resin




Method A (DIC/HOBt)

The scaffold (3 eq), 1-hydroxybenzotriazole hydrate (3 eq) and N,N′-diisopropylcarbodiimide (3 eq) were dissolved in N,N-dimethylformamide (2 mL) and added to the resin. The reaction mixture was agitated for 3 hours at room temperature, however, some scaffolds were agitated for 18 hours. The reagents were removed from the resin and the resin was washed with dichloromethane (5 mL), methanol (5 mL), and N,N-dimethylformamide (5 mL). A Kaiser test was performed and, if negative (i.e., no free amine present), the resin was deemed suitable for further transformation.
Method B (HBTU/HOBt/DIPEA)
The scaffold (3 eq), 1-hydroxybenzotriazole hydrate (3 eq), and 2-(1H-benzotriazole-1yl)-1,1,3,3-tetramethyluronium hexafluorophosphate (3 eq) were dissolved in N,N-dimethylformamide (2 mL) and added to the resin. N,N-diisopropylethylamine (9 eq) was added and the reaction mixture was agitated for 3 hours at room temperature, however, some scaffolds were agitated for 18 hours. The reagents were removed from the resin and the resin was washed with dichloromethane (5 mL), methanol (5 mL), and N,N-dimethylformamide (5 mL). A Kaiser test was performed and, if negative (i.e., no free amine present), the resin was deemed suitable for further transformation.
Method C (PyBrOP/DIPEA)
The scaffold (3 eq), bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (4 eq) were dissolved in N,N-dimethylformamide (2 mL) or dichloromethane/N-methyl-2-pyrrolidone (2 mL, 19:1) and added to the resin. N,N-diisopropylethylamine (9 eq) was added and the reaction mixture was agitated for 3 hours at room temperature, however, some scaffolds were agitated for 18 hours. The reagents were removed from the resin and the resin was washed with dichloromethane (5 mL), methanol (5 mL), and N,N-dimethylformamide (5 mL). A Kaiser test was performed and, if negative (i.e., no free amine present), the resin was deemed suitable for further transformation. The resulting resins were dried under vacuum prior to deprotection/cleavage.
General Procedure for the Synthesis of Sulfonamides on the Solid-Phase




The N-terminal aniline resin (typically 100 mg, 1 eq) was washed with dichloromethane (3×5 mL), 4-nitrobenzene sulfonyl chloride (5 eq) was added in anhydrous dichloromethane (2 mL) followed by triethylamine (3 eq). The reaction mixture was then agitated for 16 hours at room temperature. The reagents were removed and the resin was washed with dichloromethane (2×5 mL), methanol (2×5 mL) and N,N-dimethylformamide (2×5 mL). A chloranil test was performed and, if negative (i.e., no free aniline present), the resin was deemed suitable for further transformation.
General Procedure for the Synthesis of Ureas on the Solid-Phase




The N-terminal aniline resin (typically 100 mg, 1 eq) was washed with dichloromethane (3×5 mL), 4-nitrophenyl isocyanate (5 eq) was added in dichloromethane (2 mL) and the reaction mixture agitated for 16 hours at room temperature. After this time the reagents were removed and the resin was washed with dichloromethane (2×5 mL), methanol (2×5 mL) and N,N-dimethylformamide (2×5 mL). A chloranil test was performed and, if negative (i.e., no free aniline present), the resin was deemed suitable for further transformation.
General Procedure for Coupling of Acids to Resin Bound Aniline Compounds




The aniline resin (typically 100 mg, 1 eq) was swollen in the minimum quantity of dichloromethane for 20 minutes, meanwhile the acid (4 eq), bromo-tripyrrolidino-phosphonium-hexafluorophosphate (4.8 eq) and 2,6 lutidine (15 eq) were stirred at room temperature for 15 minutes and added to the pre-swollen resin. The reaction mixture was then agitated at room temperature for 24 hours to effect coupling and then washed with N,N-dimethylformamide (3×10 ml), N,N-dimethylformamide:N,N-diisopropylethylamine (1:1, 3×10 ml), further N,N-dimethylformamide (3×10 ml), dichloromethane (3×10 ml), methanol (3×10 ml) and diethyl ether (3×10 ml). A chloranil test for anilines was carried out and, if negative (i.e., no free amine present), the resin was deemed suitable for cleavage.
General Procedure for the Reduction of Resin-Bound Aromatic Nitro Compounds




The nitro-containing resin (typically 100 mg, 1 eq) was swollen with N,N-dimethylformamide (2 mL) for 30 minutes. The N,N-dimethylformamide was removed, tin chloride dihydrate (10 eq) was added to the resin in N,N-dimethylformamide (2 mL) and the reaction mixture was agitated for 3 hours followed by 18 hours (with fresh reagents), at room temperature. The reagents were removed and the resin was washed with N,N-dimethylformamide (5 mL), 20% pyridine in N,N-dimethylformamide (5 mL), dichloromethane (5 mL), methanol (5 mL) and N,N-dimethylformamide (5 mL). A chloranil test for anilines was carried out and, if positive (i.e., free amine present), the resin was deemed suitable for cleavage. The resulting resins were dried under vacuum prior to deprotection/cleavage.
General Procedure for Reductive Aminations on the Solid Phase




The 3 and 4-aminophenyl containing resin (typically 100 mg, 1 eq) was washed with dichloromethane (2×5 mL). The aldehyde (10 eq) was added to the washed resin in a solution of acetic acid in 1,2-dichloroethane (2 mL, 98:2), the reaction mixture was agitated for 3 hours at 20° C. Sodium triacetoxyborohydride (20 eq) was added and the reaction mixture was agitated for 2 days at 20° C. The reagents were removed and the resin was washed with dichloromethane (2×5 mL), methanol, (2×5 mL), N,N-dimethylformamide (2×5 mL), and dichloromethane (2×5 mL). The resulting resins were dried under vacuum prior to deprotection/cleavage.
General Procedure for Sonogashira Reactions on the Solid Phase




The bromine containing resin (typically 100 mg, 1 eq), alkyne (5 eq) and copper iodide (0.2 eq) were suspended in degassed N,N-dimethylformamide and tetrahydrofuran (5 mL, 1:1). Triethylamine (5 eq) was added, the reaction mixture was further degassed, tetrakis(triphenylphosphine)palladium(0) (0.1 mg) was added and the reaction mixture was stirred for 18 hours at 90° C. After this time the resin was filtered and washed with N,N-dimethylformamide/tetrahydrofuran (1:1, 15 mL), N,N-dimethylformamide/water (2×15 mL), N,N-dimethylformamide (15 mL), dichloromethane (15 mL), methanol (15 mL) and diethyl ether (14 mL). The resulting resins were dried under vacuum prior to deprotection/cleavage.
General Procedure for Suzuki Reactions on the Solid Phase




The bromine-containing resin (typically 100 mg, 1 eq), boronic acid (1-5 eq) and sodium carbonate (10 eq, 2M, aqueous solution) were suspended in degassed N,N-dimethylformamide:tetrahydrofuran (1:1, 4 mL). [1,1′-Bis(diphenylphosphino) ferrocene]dichloropalladium(II) (complex with dichloromethane, approx. 5 mg) was added and the solution further degassed. The reaction mixture was gently stirred at 100° C. for 18 hours. After this time the resin was filtered and washed with N,N-dimethylformamide (15 mL), N,N-dimethylformamide/water (15 mL), N,N-dimethylformamide (15 mL), dichloromethane (15 mL), methanol (15 mL) and diethyl ether (14 mL). The resulting resins were dried under vacuum prior to deprotection/cleavage.
General Procedure for Cleaving from Arg-Wang




The peptidomimetic resin (approx. 100 mg) was washed thoroughly with dichloromethane (3×5 mL) and dried with nitrogen, then a solution of trifluoroacetic acid (1.9 mL), triisopropyl silane (50 μL) and water (50 μL) was added and the cleavage mixture was agitated for 90 minutes. The cleavage mixture was removed and the resin was further washed with dichloromethane (1 mL). The cleavage/dichloromethane mixtures were combined, further agitated for 90 minutes, and added drop-wise to cold diethyl ether (30 mL, −78° C.). A white solid precipitated and was pelleted by centrifugation, the diethyl ether was decanted and another portion of cold diethyl ether (20 mL) was added, thoroughly mixed, centrifuged, and decanted. This process was repeated once more. The crude final compound was dried under vacuum and purified either by elution through a 2 g C-18 column (eluent: acetonitrile/water) or by (mass-directed) preparative LC-MS using a preparative C-18 column (Phenomenex Gemini, 50×21.2 mm, 5 □m) and a linear AB gradient of 5-95% for B over 15 min at a flow rate of 20 mL/minute, where eluent A was 0.1% formic acid/water and eluent B was 0.1% formic acid/acetonitrile. The purified peptidomimetics were then lyophilized (−54° C., 0.08 mbar) and analysed by reverse-phase LC-MS (analytical C-18 column, Thermo Betabasic, 100×4.6 mm, 5 μm) and an AB gradient of 5-95% for B, over 11 minutes, at a flow rate of 1 mL/minute, where eluent A was 0.1% formic acid/water and eluent B was 0.1% formic acid/acetonitrile.
All final compounds were isolated as trifluoroacetate salts.
Table 1 summarises the final compounds constructed using these methods.










TABLE 1







ID
EG00136; (S)-2-{[4′-(6-
EG00144; (S)-2-{[3-(4-
EG00160; (S)-2-{[2-(3-



Amino-hexanoylamino)-
Amino-
Amino-



biphenyl-4-carbonyl]-
benzenesulfonylamino)-
benzenesulfonylamino)-



amino}-5-guanidino-
thiophene-2-carbonyl]-
benzoylamino]-5-



pentanoic acid
amino}-5-guanidino-
guanidino-pentanoic




pentanoic acid
acid


 


Structure














 


ID
EG00161; (S)-2-{[2-(4-
EG00162; (S)-2-{[2-(3-
EG00163; (S)-2-{[5-(2-



Amino-
Amino-
Amino-phenyl)-furan-2-



benzenesulfonylamino)-
benzenesulfonylamino)-
carbonyl]-amino}-5-



benzoylamino]-5-
benzoylamino]-thiazole-4-
guanidino-pentanoic



guanidino-pentanoic acid
carbonyl]-amino}-5-
acid




guanidino-pentanoic acid



 


Structure














 


ID
EG00164; (S)-2-{[5-(3-
EG00165; (S)-2-[3-(3-
EG00166; (S)-2-[3-(4-



Amino-phenyl)-furan-2-
Amino-
Amino-



carbonyl]-amino}-5-
benzenesulfonylamino)-
benzenesulfonylamino)-



guanidino-pentanoic acid
benzoylamino]-5-
benzoylamino]-5-




guanidino-pentanoic acid
guanidino-pentanoic





acid


 


Structure














 


ID
EG00170; (S)-2-({5-[2-(3-
EG00173; (S)-2-[3-(4-
EG00174; (S)-2-{[3-(3-



Amino-
Aminomethyl-
Amino-



benzenesulfonylamino)-
benzoylamino)-
benzenesulfonylamino)-



phenyl]-furan-2-carbonyl}-
benzoylamino]-5-
thiophene-2-carbonyl]-



amino}-5-guanidino-
guanidino-pentanoic acid
amino}-5-guanidino-



pentanoic acid

pentanoic acid


 


Structure














 


ID
EG00175; (S)-2-({5-[3-(4-
EG00240 (S)-2-[(2-
EG00185; (S)-2-{3-[3-



Amino-
Benzenesulfonylamino-
(3-Amino-phenyl)-



benzenesulfonylamino)-
thiophene-3-carbonyl)-
ureido]-benzoylamino}-



phenyl]-furan-2-
amino]-5-guanidino-
5-guanidino-pentanoic



carbonyl}-amino}-5-
pentanoic acid
acid



guanidino-pentanoic acid




 


Structure














 


ID
EG00202; (S)-5-
EG00203; (S)-2-{[3-(4-
EG00224; (S)-5-



Guanidino-2-{[3-(4-nitro-
Acetylamino-
Guanidino-2-{[3-(2-



benzenesulfonylamino)-
benzenesulfonylamino)-
nitro-



thiophene-2-carbonyl]-
thiophene-2-carbonyl]-
benzenesulfonylamino)-



amino}-pentanoic acid
amino}-5-guanidino-
thiophene-2-carbonyl]-




pentanoic acid
amino}-pentanoic acid


 


Structure














 


ID
EG00225; (S)-2-{[3-(2-
EG00226; (S)-2-{[3-(2,4-
EG00227; (S)-5-



Amino-
Difluoro-
Guanidino-2-{[3-(2,4,



benzenesulfonylamino)-
benzenesulfonylamino)-
5-trichloro-



thiophene-2-carbonyl]-
thiophene-2-carbonyl]-
benzenesulfonylamino)-



amino}-5-guanidino-
amino}-5-guanidino-
thiophene-2-carbonyl]-



pentanoic acid
pentanoic acid
amino}-pentanoic acid


 


Structure














 


ID
EG00228; (S)-5-
EG00229; (S)-2-{[3-
EG00235; (S)-2-{[3-



Guanidino-2-{[3-(toluene-
(Benzo[1,2,5]thiadiazole-
(2,3-Dihydro-



4-sulfonylamino)-
4-sulfonylamino)-
benzofuran-5-



thiophene-2-carbonyl]-
thiophene-2-carbonyl]-
sulfonylamino)-



amino}-pentanoic acid
amino}-5-guanidino-
thiophene-2-carbonyl]-




pentanoic acid
amino}-5-guanidino-





pentanoic acid


 


Structure














 


ID
EG00260; (S)-5-
EG00263; (S)-2-({3-[3-(4-
EG00264; (S)-2-{[3-(5-



Guanidino-2-{[3-(2-
Aminobutylcarbamoyl)-
Methyl-



nitrobenzenesulfonylamino)-
benzenesulfonylamino]-
benzo[1,2,5]thiadiazole-



5-phenyl-thiophene-2-
thiophene-2-carbonyl}-
5-methyl-4-



carbonyl]-amino}-
amino)-5-guanidino
sulfonylamino)-



pentanoic acid
pentanoic acid
thiophene-2-carbonyl]-





amino}-5-guanidino-





pentanoic acid


 


Structure














 


ID
EG00265; (S)-2-{[3-(1,2-
EG00266; (S)-{[3-
EG00269; (S)-5-



Dimethyl-1H-imidazole-4-
(Benzo[1,2,5]thiadiazole-
Guanidino-2-{[3-(2-



sulfonylamino)-
5-sulfonylamino)-
nitro-



thiophene-2-carbonyl]-
thiophene-2-carbonyl]-
benzenesulfonylamino)-



amino}-5-guanidino-
amino)-5-guanidino-
5-(4-nitro-phenyl)-



pentanoic acid
pentanoic acid
thiophene-2-carbonyl]-





amino}-pentanoic acid


 


Structure














 


ID
EG00270; (S)-2-{[3-(4-
EG00271; (S)-2-{[3-(4-
EG00274; (S)-2-({3-[3-



Bromo-benzenesulfonyl-
Bromo-2-methoxy-
(3-Amino-prop-1-ynyl)-



amino)-thiophene-2-
benzenesulfonylamino)-
benzenesulfonylamino]-



carbonyl]-amino}-5-
thiophene-2-carbonyl]-
thiophene-2-carbonyl}-



guanidino-pentanoic acid
amino}-5-guanidino-
amino)-5-guanidino-




pentanoic acid
pentanoic acid


 


Structure














 


ID
EG00277; (S)-5-
EG00278; (S)-2-({3-[3-(2-
EG00279; (S)-5-



Guanidino-2-{[3-
Amino-ethylcarbamoyl)-
Guanidino-2-({3-[3-(4-



(naphthalene-1-
benzenesulfonylamino]-
[1,2,3]



sulfonylamino)-
thiophene-2-carbonyl}-
thiadiazol-4-yl-



thiophene-2-carbonyl]-
amino)-5-guanidino-
benzylamino)-



amino}-pentanoic acid
pentanoic acid
benzenesulfonylamino]-





thiophene-2-carbonyl}-





amino)-pentanoic acid


 


Structure














 


ID
EG00280; (S)-2-[(3-{3-
EG00281; (S)-5-
EG00282; (S)-2-({3-[3-



[(5-Chloro-1,3-dimethyl-
Guanidino-2-({3-[3-(3-
(3,4-Dimethoxy-



1H-pyrazol-4-ylmethyl)-
methoxy-
phenylcarbamoyl)-



amino]-
propylcarbamoyl)-
benzenesulfonylamino]-



benzenesulfonylamino}-
benzenesulfonylamino]-
thiophene-2-carbonyl}-



thiophene-2-carbonyl)-
thiophene-2-carbonyl}-
amino)-5-guanidino-



amino]-5-guanidino-
amino)-pentanoic acid
pentanoic acid



pentanoic acid




 


Structure














 


ID
EG00283; (S)-5-
EG00286; (S)-5-
EG00287; (S)-2-{[3-



Guanidino-2-[(3-{3-
Guanidino-2-{[3-(5-
(Benzofuran-2-



[(pyridin-2-ylmethyl)-
pyridin-2-yl-thiophene-2-
sulfonylamino)-



amino]-
sulfonylamino)-thiophene-
thiophene-2-carbonyl]-



benzenesulfonylamino}-
2-carbonyl]-amino}-
amino}-5-guanidino-



thiophene-2-carbonyl)-
pentanoic acid
pentanoic acid



amino]-pentanoic acid




 


Structure














 


ID
EG00288; (S)-2-{[3-
EG00289; (S)-5-
EG00290; (S)-5-



(Benzo[1,2,5]oxadiazole-
Guanidino-2-{[3-(4-
Guanidino-2-{[3-(5-



4-sulfonylamino)-
methyl-3,4-dihydro-2H-
oxazol-5-yl-thiophene-



thiophene-2-carbonyl]-
benzo[1,4]oxazine-7-
2-sulfonylamino)-



amino}-5-guanidino-
sulfonylamino)-thiophene-
thiophene-2-carbonyl]-



pentanoic acid
2-carbonyl]-amino}-
amino}-pentanoic acid




pentanoic acid



 


Structure














 


ID
EG00291; (S)-2-{[3-
EG00292; (S)-5-
EG00293; (S)-5-



(Benzo[b]thiophene-2-
Guanidino-2-{[3-(6-
Guanidino-2-({3-[3-(2-



sulfonylamino)-
phenoxy-pyridine-3-
methyl-



thiophene-2-carbonyl]-
sulfonylamino)-thiophene-
pyrimidin-4-yl)-



amino}-5-guanidino-
2-carbonyl]-amino}-
benzenesulfonylamino]-



pentanoic acid
pentanoic acid
thiophene-2-carbonyl}-





amino)-pentanoic acid


 


Structure














 


ID
EG00294; (S)-5-
EG00295; (S)-5-
EG00296; (S)-2-{[3-



Guanidino-2-({3-[3-(5-
Guanidino-2-{[3-(5-
(Benzo[1,3]dioxole-5-



methyl-
methyl-3-phenyl-
sulfonylamino)-thiophene-



[1,2,4]oxadiazol-3-yl)-
isoxazole-4-
2-carbonyl]-amino}-5-



benzenesulfonylamino]-
sulfonylamino)-thiophene-
guanidino-pentanoic



thiophene-2-carbonyl}-
2-carbonyl]-amino}-
acid



amino)-pentanoic acid
pentanoic acid



 


Structure














 


ID
EG00299; (S)-2-{[3-(5-
EG00301; (S)-5-
EG00303; S)-2-{[3-(2-



Bromo-2,3-dihydro-
Guanidino-2-{[3-(3-
Cyano-6-methyl-



benzofuran-7-
pyrimidin-5-yl-
benzenesulfonylamino)-



sulfonylamino)-
benzenesulfonylamino)-
thiophene-2-carbonyl]-



thiophene-2-carbonyl]-
thiophene-2-carbonyl]-
amino}-5-guandino-



amino}-5-guanidino-
amino}-pentanoic acid
pentanoic acid



pentanoic acid




 


Structure














 


ID
EG00308; (S)-5-
EG00309; (S)-5-
EG00310; (S)-2-{[3-(3-



Guanidino-2-({3-[3-(3-
Guanidino-2-({3-[3-(1-
Furan-2-yl-



methyl-
methyl-1H-pyrazol-3-
benzenesulfonylamino)-



3H-imidazol-4-ylethynyl)-
ylcarbamoyl)-
thiophene-2-carbonyl]-



benzenesulfonylamino]-
benzenesulfonylamino]-
amino}-5-guanidino-



thiophene-2-carbonyl}-
thiophene-2-carbonyl}-
pentanoic acid



amino)-pentanoic acid
amino)-pentanoic acid



 


Structure














 


ID
EG00314; (S)-5-
EG00316; (S)-2-[(3-{3-
EG00317; (S)-2-[(3-{3-



Guanidino-2-{[3-(3-
[(2,5-Dimethyl-2H-pyrazol-
[(3,5-Dimethyl-isoxazol-



thiophen-2-yl-
3-ylmethyl)-amino]-
4-ylmethyl)-amino]-



benzenesulfonylamino)-
benzenesulfonyl-
benzenesulfonyl-



thiophene-2-carbonyl]-
amino}-thiophene-2-
amino}-thiophene-2-



amino}-pentanoic acid
carbonyl)-amino]-
carbonyl)-amino]-




5-guanidino-
5-guanidino-pentanoic




pentanoic acid
acid


 


Structure














 


ID
EG00318; (S)-2-[(3-{3-
EG00319; (S)-5-
EG00320; (S)-5-



[(5-Chloro-3-methyl-1-
Guanidino-2-[(3-{3-[(1-
Guanidino-2-[(3-



phenyl-1H-pyrazol-4-
methyl-1H-indazol-3-
methanesulfonylamino-



ylmethyl)-amino]-
ylmethyl)-amino]-
thiophene-2-carbonyl)-



benzenesulfonylamino]-
benzenesulfonylamino}-
amino]-pentanoic acid



thiophene-2-carbonyl)-
thiophene-2-carbonyl)-




amino]-5-guanidino-
amino]-pentanoic acid




pentanoic acid




 


Structure














 


ID
EG00330; (S)-2-[(3-{3-
EG00332; (S)-2-[(3-{3-
EG00337; (S)-5-



[(3,5-Dimethyl-isoxazol-
[(2,5-Dimethyl-oxazol-4-
Guanidino-2-[(3-{3-[(E)-



4-ylmethyl)-amino]-
ylmethyl)-amino]-
2-(4-methoxy-phenyl)-



benzenesulfonylamino}-
benzenesulfonylamino}-
vinyl]-



thiophene-2-carbonyl)-
thiophene-2-carbonyl)-
benzenesulfonylamino}-



amino]-
amino]-
thiophene-2-carbonyl)-



5-guanidino-pentanoic
5-guanidino-pentanoic
amino]-pentanoic acid



acid
acid



 


Structure














 


ID
EG00338; (S)-5-
EG00340; (S)-2-{[2-
EG00333; (S)-2-[(3-{3-



Guanidino-2-[(3-{3-[2-(4-
(Benzo[1,2,5]thiadiazole-
[(1,5-Dimethyl-1H-



methoxy-phenyl)-2-oxo-
4-sulfonylamino)-4,5-
pyrazol-3-ylmethyl)



ethyl]-
dimethyl-thiophene-3-
carbamoyl]benzene



benzenesulfonylamino}-
carbonyl]-amino}-5-
sulfonylamino}-



thiophene-2-carbonyl)-
guanidino-pentanoic acid
thiophene-2-carbonyl)-



amino]-pentanoic acid

amino]-5-guanidino-





pentanoic acid


 


Structure














 


ID
EG00334; (S)-5-
EG00387; (S)-2-[(3-{4-
EG00298; (S)-5-



Guanidino-2-[(3-{3-
[(5-Chloro-1,3-dimethyl-
Guanidino-2-{[3-(3-



[(1,3,5-trimethyl-
1H-pyrazol-4-ylmethyl)-
pyridin-3-ylethynyl-



1H-pyrazol-4-
amino]-benzenesulfonyl
benzenesulfonylamino)-



ylmethyl)-carbamoyl]-
amino}-thiophene-2-
thiophene-2-carbonyl]-



benzenesulfonylamino}-
carbonyl)-amino]-5-
amino}-pentanoic acid



thiophene-
guanidino-pentanoic acid




2-carbonyl)-amino]-





pentanoic acid




Structure














 


ID
EG00388; (S)-2-[(3-{4-
EG00389; (S)-2-[(3-{4-
EG00336; (S)-2-[(3-{2-



[(2,5-Dimethyl-2H-
[(3,5-Dimethyl-isoxazol-4-
[(5-Chloro-3-methyl-1-



pyrazol-3-ylmethyl)-
ylmethyl)-amino]-benzene
phenyl-1H-pyrazol-4-



amino]-benzenesulfonyl-
sulfonylamino}-thiophene-
ylmethyl)-amino]-



amino}-thiophene-2-
2-carbonyl)-amino]-5-
benzenesulfonylamino}-



carbonyl)-amino]-5-
guanidino-pentanoic acid
thiophene-2-carbonyl)-



guanidino-pentanoic acid

amino]-5-guanidino-





pentanoic acid


 


Structure














 


ID
EG00413; (S)-2-[(3-{4-
EG00339; (S)-5-
EG00361; (S)-2-[(3-{2-



[(2,5-Dimethyl-oxazol-4-
Guanidino-2-[(3-{3-[(5-
[(4-Chloro-1-methyl-1H-



ylmethyl)-amino]-
methyl-isoxazol-3-
pyrazol-3-ylmethyl)-



benzenesulfonylamino}-
ylmethyl)-carbamoyl]-
amino]-benzene-



thiophene-2-carbonyl)-
benzenesulfonylamino}-
sulfonylamino}-



amino]-5-guanidino-
thiophene-2-carbonyl)-
thiophene-2-carbonyl)-



pentanoic acid
amino]-pentanoic acid
amino]-5-guanidino-





pentanoic acid


 


Structure














 


ID
EG00376; (S)-2-[(3-{2-
EG00477; (S)-5-
EG00237; (S)-2-{[5-tert-



[(2,5-Dimethyl-oxazol-
Acetimidoylamino-2-[2-
Butyl-3-(4-methoxy-



4-ylmethyl)-amino]-
(benzo[1,2,5]thiadiazole-
benzenesulfonylamino)-



benzenesulfonyl
4-sulfonylamino)-
thiophene-2-carbonyl]-



amino}-thiophene-2-
benzoylamino]-pentanoic acid
amino}-5-guanidino-



carbonyl)-amino]-

pentanoic acid



5-guanidino-pentanoic





acid




 


Structure



























Preparation of Alpha-Carbonyl Guanidine Compounds

General Procedure for Solution-Phase PyBroP Coupling





Carboxylic acid (200-300 mg, 1 eq) and bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (1.1 eq) were suspended in dichloromethane (5 mL) and the mixture was stirred at 20° C. for 10 minutes. N,N-Diisopropylethylamine (7 eq) was added to the mixture and stirred for a further 10 minutes. Suitably-protected amine (derived from aspartic acid, 1.1 eq) was added and the reaction mixture was then stirred for 2 days at 20° C. After this time the reaction solvent was removed in vacuo and the residue partitioned between hydrochloric acid (1M aqueous solution, 20 mL) and ethyl acetate (20 mL). The phases were separated and the aqueous phase extracted with ethyl acetate (3×20 mL). The organic phases were combined and washed with brine (saturated, aqueous solution, 25 mL), dried over magnesium sulfate, filtered and the solvent removed in vacuo to afford the crude residue.
Table 2 summarises the compounds constructed using this method.










TABLE 2







ID
(S)-2-{[3-(2-Nitro-
(S)-2-{[3-
(S)-2-{[3-(4-Nitro-



benzenesulfonylamino)-
(Benzo[1,2,5]thiadiazole-
benzenesulfonylamino)-



thiophene-2-carbonyl]-
4-sulfonylamino)-
thiophene-2-carbonyl]-



amino-pentanedioic acid
thiophene-2-carbonyl]-
amino-pentanedioic acid



5-tert-butyl ester-1-methyl
amino}-pentanedioic acid
5-tert-butyl ester-1-methyl



ester
1-tert-butyl ester 5-methyl
ester




ester



 


Structure





















General Procedure for Solution-Phase PyBroP Coupling (Side-Chain Acid Coupling)





The appropriate side-chain carboxylic acid (50-150 mg, 1 eq) and bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (1.5 eq) were suspended in dichloromethane (5 mL) and the mixture was stirred at 20° C. for 10 minutes. N,N-Diisopropylethylamine (9 eq) was added to the mixture and the solution stirred for a further 10 minutes. Tert-Butoxycarbonylguanidine (1.5 eq, prepared in accordance with reference 1) was added and the reaction mixture was then stirred for 20 hours at 20° C. After this time the reaction solvent was removed in vacuo and the residue partitioned between hydrochloric acid (1M aqueous solution, 20 mL) and ethyl acetate (20 mL). The phases were separated and the aqueous phase extracted with ethyl acetate (3×20 mL). The organic phases were combined and washed with brine (saturated, aqueous solution, 25 mL), dried over magnesium sulfate, filtered and the solvent removed in vacuo to afford the crude residue.
Table 3 summarises the compounds constructed using this method.









TABLE 3







ID
(S)-2-{[3-
(S)-5-(tert-butoxycarbonyl)-



(Benzo[1,2,5]thiadiazole-
Guanidino-2-{[3-(4-nitro-



4-sulfonylamino)-thiophene-
enzenesulfonylamino)-



2-carbonyl]-
thiophene-2-carbonyl]-



amino}-5-(tert-
amino}-5-oxo-pentanoic



butoxycarbonyl)-guanidino-
acid methyl ester



5-oxo-pentanoic acid tert-




butyl ester



 


Structure























EG00247; (S)-5-guanidino-2-{[3-(4-nitro-benzenesulfonylamino)-thiophene-2-carbonyl]-amino}-5-oxo-pentanoic acid




(S)-5-(tert-butoxycarbonyl)-Guanidino-2-{[3-(4-nitro-benzenesulfonylamino)-thiophene-2-carbonyl]-amino}-5-oxo-pentanoic acid methyl ester (10 mg, 0.016 mmol) was stirred with hydrochloric acid (2M aqueous solution:tetrahydrofuran; 1:1) at 80° C. for 4 hours. After this time the reaction solvent was removed in vacuo and the crude residue was purified via elution through a 2 g C-18 column (eluent: water, followed by acetonitrile:water; 20:80) to afford the desired compound, isolated as the hydrochloride salt.
EG00302; (S)-2-{[3-(Benzo[1,2,5]thiadiazole-4-sulfonylamino)-thiophene-2-carbonyl]-amino}-5-guanidino-5-oxo-pentanoic acid




(S)-2-{[3-(Benzo[1,2,5]thiadiazole-4-sulfonylamino)-thiophene-2-carbonyl]-amino}-pentanedioic acid 1-tert-butyl ester 5-methyl ester was stirred in dichloromethane/trifluoroacetic acid (2.5 mL, 5:1) for 16 hours at 20° C. After this time the solvent was removed in vacuo and the resulting yellow residue was purified using preparative LC-MS.
The desired compound was isolated as the trifluoroacetate salt.
EG00285; (S)-5-Guanidino-2-{[3-(2-nitro-benzenesulfonylamino)-thiophene-2-carbonyl]-amino}-5-oxo-pentanoic acid




(S)-5-tert-butoxycarbonyl-Guanidino-2-{[3-(2-nitro-benzenesulfonylamino)-thiophene-2-carbonyl]-amino}-5-oxo-pentanoic acid methyl ester was stirred in hydrochloric acid (1:1, 4 M aqueous solution:tetrahydrofuran) at 80° C. for 3 hours, followed by 48 hours at room temperature followed by a further 2 hours at 80° C. The solvent was removed in vacuo and the residue purified by chromatography on a 2 g C-18 column (eluent: water increasing to acetonitrile:water; 20:80) to afford the desired compound, isolated as the hydrochloride salt.
General Procedure for Solution-Phase Suzuki Coupling (Carboxylic Acid Methyl Esters)




3-(2-Bromo-N-tert-butoxycarbonyl-benzenesulfonylamino)-thiophene-2-carboxylic acid methyl ester (1 eq), the boronic acid (2.5 eq) and potassium phosphate (tribasic, 2 M aqueous solution, 4 eq) were suspended in degassed 1,2-dimethoxyethane (10 mL). The solution was further degassed and [1,1′-bis(diphenylphosphino)ferrocene]dichloropalladium(II) (complex with dichloromethane, 0.1 eq) added in one portion. The reaction mixture was heated at 90° C. for 4 hours. After this time the solvent was removed in vacuo and the brown residue either isolated by one of three methods:
A: Filtration following precipitation with hydrochloric acid (1M, aqueous solution).
B: The residue was partitioned between ethyl acetate and hydrochloric acid (1M aqueous solution). The phases were separated and the aqueous phase extracted with ethyl acetate (3×15 mL), the combined organic extracts were washed with water, brine, dried over magnesium sulfate and the solvent removed in vacuo to afford the desired compounds.
C: Used without any further manipulation.
All were used without further purification in subsequent reactions.
General Procedure for the Hydrolysis of Esters Using Lithium Hydroxide (Preferred Method)




The methyl ester (1 eq) was stirred with lithium hydroxide (2.53 mmol, 3-5 eq) in tetrahydrofuran/methanol/water (10 mL, 5:3:2) at 20 to 80° C. for 3 to 48 hours as necessary. After this time the organic solvent was removed in vacuo, the residue diluted to 5 mL with water and then acidified with hydrochloric acid (1M, aqueous solution, 15 mL) upon which either precipitation occurred and the product was collected by filtration and dried in vacuo; or the aqueous phase was extracted with ethyl acetate (3×10 mL) and the combined organic phases dried over magnesium sulfate and the solvent removed in vacuo to afford the desired products.
General Procedure for Solution-Phase Suzuki Coupling (Carboxylic Acids)




The appropriately substituted 3- and 4-bromophenyl-containing carboxylic acids (50-200 mg, 1 eq), the boronic acid (2.5 eq) and potassium phosphate (tribasic, 2 M aqueous solution, 4 eq) were suspended in degassed 1,2-dimethoxyethane (10 mL). The solution was further degassed and [1,1′-bis(diphenylphosphino)ferrocene]dichloropalladium(II) (complex with dichloromethane, 0.1 eq) added in one portion. The reaction mixture was heated at 90° C. for 4 hours. The reaction mixture was heated at 90° C. for 4 hours. After this time the solvent was removed in vacuo and the brown residue isolated by one of the following methods:
A: Filtration following precipitation with hydrochloric acid (1M, aqueous solution).
B: The residue was partitioned between ethyl acetate and hydrochloric acid (1M aqueous solution). The phases were separated and the aqueous phase extracted with ethyl acetate (3×15 mL), the combined organic extracts were washed with water, brine, dried over magnesium sulfate and the solvent removed in vacuo to afford the desired compounds.
All were used without further purification in subsequent reactions.
General Procedure for PyBroP Coupling in Solution (Using H-Arg(Pbf)-OtBu)




Carboxylic acid (20-100 mg, 1 eq) and bromo-tris-pyrrolidino-phosphonium hexafluorophosphate (1.1 eq) were suspended in dichloromethane (5 mL) and the mixture was stirred at 20° C. for 10 minutes. N,N-Diisopropylethylamine (7.0 eq) was added to the mixture and stirred for a further 10 minutes. Protected amine (1.1 eq) was added and the reaction mixture was then stirred at 20° C. for 16 hours. After this time the solvent was removed in vacuo and the residue partitioned between hydrochloric acid (1M aqueous solution, 20 mL) and ethyl acetate (20 mL). The phases were separated and the aqueous phase extracted with ethyl acetate (3×20 mL). The organic phases were combined and washed with hydrochloric acid (1M aqueous solution, 3×10 mL), brine (saturated, aqueous solution, 25 mL), dried over magnesium sulfate, filtered and the solvent removed in vacuo to afford the desired products as brown residues.
Table 4 summarises the products produced using this method.









TABLE 4







ID
(S)-5-(2,2,4,6,7-Pentamethyl-2,3-
(S)-2-({3-[4-(2-Methoxy-pyrimidin-5-



dihydro-benzofuran-5-sulfonyl-
yl)-benzenesulfonylamino]-thiophene-



guanidino)-2-({3-[4-(1-methyl-1H-
2-carbonyl}-amino)-5-(2,2,4,6,7-



pyrazol-4-yl)-benzenesulfonyl amino]-
pentamethyl-2,3-dihydro-benzofuran-



thiophene-2-carbonyl}-amino)-
5-sulfonyl-guanidino)-pentanoic acid



pentanoic acid tert-butyl ester
tert-butyl ester


 


Structure










 


ID
(S)-2-({3-[4-(3,5-Dimethyl-isoxazol-4-
(S)-2-({3-[5-(3,5-Dimethyl-isoxazol-4-



yl)-benzenesulfonylamino]-thiophene-
yl)-2,3-dihydro-benzofuran-7-



2-carbonyl}-amino)-5-(2,2,4,6,7-
sulfonylamino]-thiophene-2-carbonyl}-



pentamethyl-2,3-dihydro-benzofuran-5-
amino)-5-(2,2,4,6,7-pentamethyl-2,3-



sulfonyl-guanidino)-pentanoic acid tert-
dihydro-benzofuran-5-sulfonyl-



butyl ester
guanidino)-pentanoic acid tert-butyl




ester


 


Structure










 


ID
(S)-5-(2,2,4,6,7-Pentamethyl-2,3-
(S)-5-(2,2,4,6,7-Pentamethyl-2,3-



dihydro-benzofuran-5-sulfonyl-
dihydro-benzofuran-5-sulfonyl-



guanidino)-2-({3-[5-(1-methyl-1H-
guanidino)-2-({3-[5-(4-methyl-



pyrazol-4-yl)-2,3-dihydro-benzofuran-
3,4-dihydro-2H-pyrido[3,2-



7-sulfonylamino]-thiophene-2-
b][1,4]oxazin-7-yl)-2,3-dihydro-



carbonyl}-amino)-pentanoic acid tert-
benzofuran-7-sulfonylamino]-



butyl ester
thiophene-2-carbonyl}-amino)-




pentanoic acid tert-butyl ester


 


Structure










 


ID
2-({3-[3-(4,4,5,5-Tetramethyl-
2-({3-[3-(Pyridin-4-yl)-



[1,3,2]dioxaborolan-2-yl)-
benzenesulfonylamino]-thiophene-2-



benzenesulfonylamino]-thiophene-2-
carbonyl}-amino)-5-(2,2,4,6,7-



carbonyl}-amino)-5-(2,2,4,6,7-
pentamethyldihydro-benzofuran-5-



pentamethyldihydro-benzofuran-5-
sulfonyl-guanidino)-pentanoic acid



sulfonyl-guanidino)-pentanoic acid tert-
tert-butyl ester



butyl ester



 


Structure










 


ID
2-({3-[3-(3,5-Dimethyl-isoxazol-4-yl)-
2-({3-[3-(2,3-Dihydro-benzofuran-5-yl)



benzenesulfonylamino]-thiophene-2-
benzenesulfonylamino]-thiophene-2-



carbonyl}-amino)-5-(2,2,4,6,7-
carbonyl}-amino)-5-(2,2,4,6,7-



pentamethyldihydro-benzofuran-5-
pentamethyldihydro-benzofuran-5-



sulfonyl-guanidino)-pentanoic acid tert-
sulfonyl-guanidino)-pentanoic acid



butyl ester
tert-butyl ester


 


Structure










 


ID
2-({3-[3-(1-methyl-1H-pyrazol-4-yl)-
2-({3-[3-(2-methoxy-pyrimidin-5-yl))-



benzenesulfonylamino]-thiophene-2-
benzene sulfonylamino]-thiophene-2-



carbonyl}-amino)-5-(2,2,4,6,7-
carbonyl}-amino)-5-(2,2,4,6,7-



pentamethyldihydro-benzofuran-5-
pentamethyldihydro-benzofuran-5-



sulfonyl-guanidino)-pentanoic acid tert-
sulfonyl-guanidino)-pentanoic acid



butyl ester
tert-butyl ester


 


Structure










 


ID
2-({3-[2-(pyrimidin-5-yl))-benzene
2-({3-[2-(1-methyl-1H-pyrazol-4-yl)-



sulfonylamino]-thiophene-2-carbonyl}-
benzene sulfonylamino]-thiophene-2-



amino)-5-(2,2,4,6,7-
carbonyl}-amino)-5-(2,2,4,6,7-



pentamethyldihydro-benzofuran-5-
pentamethyldihydro-benzofuran-5-



sulfonyl-guanidino)-pentanoic acid tert-
sulfonyl-guanidino)-pentanoic acid



butyl ester
tert-butyl ester


 


Structure










 


ID
2-({3-[2-(3,5-Dimethyl-isoxazol-4-yl)-
2-({3-[2-(2,3-dihydro-benzofuran-5-yl)



benzenesulfonylamino]-thiophene-2-
benzenesulfonylamino]-thiophene-2-



carbonyl}-amino)-5-(2,2,4,6,7-
carbonyl}-amino)-5-(2,2,4,6,7-



pentamethyldihydro-benzofuran-5-
pentamethyldihydro-benzofuran-5-



sulfonyl-guanidino)-pentanoic acid tert-
sulfonyl-guanidino)-pentanoic acid



butyl ester
tert-butyl ester


 


Structure










 


ID
2-({3-[2-(2-methoxy-pyrimidin-5-yl))-
2-({3-[2-(pyridin-4-yl)-benzenesulfonyl-



benzenesulfonylamino]-thiophene-2-
amino]-thiophene-2-carbonyl}-amino)-



carbonyl}-amino)-5-(2,2,4,6,7-
5-(2,2,4,6,7-pentamethyldihydro-



pentamethyldihydro-benzofuran-5-
benzofuran-5-sulfonyl-guanidino)-



sulfonyl-guanidino)-pentanoic acid tert-
pentanoic acid tert-butyl ester



butyl ester



 


Structure


























EG00400/(S)-2-{[3-(3-Boronoxy-benzenesulfonylamino)-thiophene-2-carbonyl]-amino}-5-guanidino-pentanoic acid




The pinacol, tert-butoxy and 2,2,4,6,7-pentamethyldihydrobenzofuran-5-sulfonyl protected compound was dissolved in trifluoroacetic acid/triisopropylsilane/water (10 mL, 95:2.5:2.5), the reaction mixture was stirred at 20° C. for 2 days. The solvents were removed in vacuo and the resulting yellow residue was purified using preparative LC-MS.
The desired compound was isolated as the trifluoroacetate salt.
General Procedure for the Removal of Tert-Butyl and 2,2,4,6,7-pentamethyldihydrobenzofuran-5-sulfonyl Groups using Trifluoroacetic Acid




The tert-butoxy and 2,2,4,6,7-pentamethyldihydrobenzofuran-5-sulfonyl protected compounds were dissolved in trifluoroacetic acid/triisopropylsilane/water (10 mL, 95:2.5:2.5) and the reaction mixture was stirred at 20° C. for 2 days. The solvents were removed in vacuo and the compound were purified using preparative LC-MS.
All final compounds were isolated as trifluoroacetate salts.
Table 5 summarises the final compounds constructed using these methods.









TABLE 5







ID
EG00401; (S)-5-Guanidino-2-{[3-(3-
EG00324; (S)-5-Guanidino-2-{[3-(2-



pyridin-4-yl-benzenesulfonylamino)-
pyridin-4-yl-benzenesulfonylamino)-



thiophene-2-carbonyl]-amino}-
thiophene-2-carbonyl]-amino}-pentanoic



pentanoic acid
acid


 


Structure










 


ID
EG00425; (S)-5-Guanidino-2-({3-[4-
EG00426; (S)-5-Guanidino-2-({3-[4-(2-



(1-methyl-
methoxy-



1H-pyrazol-4-yl)-
pyrimidin-5-yl)-benzenesulfonylamino]-



benzenesulfonylamino]-thiophene-2-
thiophene-2-carbonyl}-amino)-pentanoic



carbonyl}-amino)-pentanoic acid
acid


 


Structure










 


ID
EG00427; (S)-2-({3-[4-(3,5-Dimethyl-
EG00428; (S)-2-({3-[5-(3,5-Dimethyl-



isoxazol-
isoxazol-



4-yl)-benzenesulfonylamino]-
4-yl)-2,3-dihydro-benzofuran-7-sulfonyl-



thiophene-2-carbonyl}-amino)-5-
amino]-thiophene-2-carbonyl}-amino)-5-



guanidino-pentanoic acid
guanidino-pentanoic acid


 


Structure










 


ID
EG00429; (S)-5-Guanidino-2-({3-[5-
EG00343; (S)-2-({3-[2-(3,5-Dimethyl-



(1-methyl-
isoxazol-4-yl)-benzenesulfonylamino]-



1H-pyrazol-4-yl)-2,3-dihydro-
thiophene-



benzofuran-7-sulfonylamino]-
2-carbonyl}-amino)-5-guanidino-



thiophene-2-carbonyl}-amino)-
pentanoic acid



pentanoic acid



 


Structure










 


ID
EG00345; (S)-5-Guanidino-2-({3-[2-
EG00346; (S)-5-Guanidino-2-{[3-(2-



(1-methyl-1H-pyrazol-4-yl)-
pyrimidin-5-yl-benzenesulfonylamino)-



benzenesulfonylamino]-
thiophene-2-carbonyl]-amino}-pentanoic



thiophene-2-carbonyl}-amino)-
acid



pentanoic acid



 


Structure










 


ID
EG00347; (S)-5-Guanidino-2-({3-[3-
EG00349; (S)-5-Guanidino-2-({3-[3-(1-



(2-methoxy-pyrimidin-5-yl)-
methyl-1H-pyrazol-4-yl)-



benzenesulfonylamino]-
benzenesulfonylamino]-



thiophene-2-carbonyl}-amino)-
thiophene-2-carbonyl}-amino)-pentanoic



pentanoic acid
acid


 


Structure










 


ID
EG00350; (S)-2-({3-[3-(3,5-Dimethyl-
EG00475; (S)-5-Guanidino-2-({3-[5-(4-



isoxazol-4-yl)-benzenesulfonylamino]-
methyl-3,4-dihydro-2H-pyrido[3,2-



thiophene-2-carbonyl}-amino)-5-
b][1,4]oxazin-7-yl)-2,3-dihydro-



guanidino-pentanoic acid
benzofuran-7-




sulfonylamino]-thiophene-2-carbonyl}-




amino)-pentanoic acid


 


Structure























EG00323; (S)-5-Guanidino-2-({3-[3-(2-pyridin-3-yl-ethyl)-benzenesulfonylamino]-thiophene-2-carbonyl}-amino)-pentanoic acid




The acetylene (EG00298/5-Guanidino-2-{[3-(3-pyridin-3-ylethynyl-benzenesulfonyl amino)-thiophene-2-carbonyl]-amino}-pentanoic acid; approx 10 mg) was dissolved in tetrahydrofuran:water (4:1, 2 mL), palladium on charcoal (approx 10% weight) was added and a hydrogen atmosphere introduced by balloon. The reaction mixture was stirred at 20° C. for 24 hours with occasional refilling of the hydrogen balloon. After this time the reaction mixture was filtered over CeliteTM and the solvent removed in vacuo. The yellow residue was purified using preparative LCMS.
EG00369; (S)-2-({3-[3-(3-Amino-propyl)-benzenesulfonylamino]-thiophene-2-carbonyl}-amino)-5-guanidino-pentanoic acid




The acetylene (EG00274/(S)-2-({3-[3-(3-Amino-prop-1-ynyl)-benzenesulfonylamino]-thiophene-2-carbonyl}-amino)-5-guanidino-pentanoic acid; approx 10 mg) was dissolved in tetrahydrofuran:water (4:1, 2 mL), palladium on charcoal (approx 10% weight) was added and a hydrogen atmosphere introduced by balloon. The reaction mixture was stirred at 20° C. for 24 hours with occasional refilling of the hydrogen balloon. After this time the reaction mixture was filtered over CeliteTM and the solvent removed in vacuo. The yellow residue was purified using preparative LCMS and the desired compound isolated as the trifluoroacetate salt.
EG00466, 3-(Benzo[1,2,5]thiadiazole-sulfonylamino)-thiophene-2-carboxylic acid ((S)-4-guanidino-1-hydroxycarbamoyl-butyl)-amide




EG00229/(S)-2-{[3-(Benzo[1,2,5]thiadiazole-4-sulfonylamino)-thiophene-2-carbonyl]-amino}-5-guanidino-pentanoic acid (1.0 eq), N,N-diisopropylethylamine (9.0 eq) and HATU (2-(7-aza-1H-benzotriazole-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate, 1.5 eq) were stirred in N,N-dimethylformamide (2 mL) at 40° C. for 30 minutes. Hydroxylamine hydrochloride (1.5 eq) was added and the reaction mixture stirred at 40° C. for 16 hours. After this time the solvent was removed in vacuo and the yellow residue was purified using preparative LCMS. The desired compound was isolated as the trifluoroacetate salt.
Described below are experimental methods for various binding and adhesion studies, which were carried out on several compounds of the invention. Results of these studies are given below.
General Experimental Methods
Cell Culture
Porcine aortic endothelial cells expressing neuropilin-1 (PAE/NP-1) were cultured in Ham's F12 medium containing 10% fetal bovine serum (FBS) and 25 μg/ml hygromycin B. PAE cells expressing KDR (PAE/KDR) were grown in Ham's F12 medium containing 10% FBS and 250 μg/ml Gentamicin G418. Human carcinoma cell lines (DU145, A549 and ACHN) were grown in RPMI 1640 medium containing 10% FBS and L-glutamine.
125I-VEGF-A165 Binding
Confluent cells in 24-well plates were washed twice with phosphate-buffered saline (PBS). At 4° C. various concentrations of peptides or peptidomimetics diluted in binding medium (Dulbecco's modified Eagle's medium, 25 mM HEPES pH 7.3 containing 0.1% BSA) were added, followed by addition of 0.1 nM of 125I-VEGF-A165 (1200-1800 Ci/mmol, GE Healthcare). After 2 h of incubation at 4° C., the medium was aspirated and washed 4 times with cold PBS. The cells were lysed with 0.25 M NaOH, 0.5% SDS solution, and the bound radioactivity of the lysates was measured in a γ counter. Non-specific binding was determined in the presence of 100-fold excess unlabelled VEGF-A165.
Cell-Matrix Adhesion
Cell adhesion to extracellular matrix proteins (basement membrane protein complex, laminin I, collagen IV, fibronectin or vitronectin) was measured by the Innocyte ECM cell adhesion assay (Calbiochem). Cells were detached with a non-enzyme cell dissociation solution (Sigma), washed and resuspended in RPMI 1640 medium. Cells with or without peptidomimetic treatment were seeded at 3×104 cells per matrix-coated well of 96-well plates. After 1.5 h incubation, cells were washed with PBS. The attached cells were labelled with the green fluorescent dye calcein-AM and measured using a fluorescence plate reader at an excitation wavelength of 485 nm and an emission wavelength of 520 nm.
Cell Migration
Cell migration was measured in chemotaxis 24-transwell plates with collagen 1-coated inserts. The various concentrations of serum in RPMI 1640/0.1% BSA were placed in the bottom wells of the plates, while top inserts incorporating PET (polyethylene terephthalate) track-etched membranes with 8 micron pores (Becton Dickinson Biosciences) were placed over the bottom wells. Cells were trypsinised, washed and resuspended in RPMI 1640/0.1% BSA. 1.5×106 cells with or without peptide or peptidomimetic treatment as indicated were loaded into each top inserts, and the chemotaxis trans-well plates were incubated at 37° C. for 4 h. After the incubation, non-migrated cells on the top side of the trans-well membranes were removed, and migrated cells on the under side of the trans-well membranes were stained with the REASTAIN Quick-Diff kit (REAGENA). The stained cells from each well were counted in 4 fields at ×100 magnification using an eyepiece indexed graticule (100 grids).
Cell Viability
Cell viability was determined by measurement of conversion of the tetrazolium salt XTT to form formazon dye. Carcinoma cells were seeded at a density of 4×103 cells per well in 96-well plates in the absence or presence of NP-1 peptide or peptidomimetic antagonists. After 44 h incubation, XTT labelling reagent mixture (Roche) was added to the cultures and they were incubated for a further 4 h. The formazon production was then measured at A490 nm with a reference wavelength at 595 nm.
Results
In the cell-matrix adhesion studies, it was found that EG00144 was effective, at concentrations from 10-100 μM, at inhibiting the adhesion of DU145 cancer cells to extracellular matrix proteins.
In the cell migration studies, it was found that EG00144 decreased migration of A549 and ACHN cells, at concentrations from 10-100 μM.
In the cell viability studies, it was found that EG00229 reduced the viability of A549 cells, at a concentration of 100 μM.
The following compounds have an IC50 of less than 20 μM: EG00144, EG00174, EG00203, EG00224, EG00225, EG00229, EG00264, EG00265, EG00274, EG00280, EG00283, EG00285, EG00287, EG00288, EG00291, EG00299, EG00316, EG00317, EG00318, EG00319, EG00323, EG00332, EG00350, EG00369, EG00428, EG00475.

## Claims

1. A compound of formula III



wherein R2 is selected from the group consisting of: H and heterocyclic; and
wherein R3 is selected from the group consisting of: H, (2-(piperazin-1-yl)-4,5-dihydrothiazol-4-yl)methanamine, and N-methyl-1-phenylmethanamine, and
wherein R4 is selected from the group consisting of: H and O.

2. A compound of claim 1, wherein R2 is H, and wherein R3 is (2-(piperazin-1-yl)-4,5-dihydrothiazol-4-yl)methanamine, and wherein R4 is H.

3. A compound of claim 2, having the following structure (IV):

4. A compound of claim 2, having the following structure (V):

5. A compound of claim 1, wherein R2 is heterocyclic, and wherein R3 is N-methyl-1-phenylmethanamine and wherein R4 is O.

6. A compound of claim 5 having the following structure (VI):



wherein R5 is a moiety selected from the group consisting of: pyridine, piperazine and 4,5-dihydroisoxazole.

7. A compound of claim 6 having the following structure (VII):

8. A compound of claim 6 having the following structure (VIII):

9. A compound of claim 6 having the following structure (IX):