Patent Application: US-50796106-A

Abstract:
anionically substituted 7 - nitroindoline derivatives are disclosed and their uses as caged compounds from which effector species such as neurotransmitters and amino acids are releasable on irradiation with light .

Description:
unless otherwise specified , the term “ substituted ,” as used herein , pertains to a parent group which bears one or more substitutents . the term “ substituent ” is used herein in the conventional sense and refers to a chemical moiety which is covalently attached to , appended to , or if appropriate , fused to , a parent group . a wide variety of substituents are well known in the art , and methods for their formation and introduction into a variety of parent groups are also well known . alkyl : the term “ alkyl ,” as used herein , pertains to a monovalent moiety obtained by removing a hydrogen atom from a carbon atom of a hydrocarbon compound having from 1 to 20 carbon atoms , or more preferably 1 to 10 carbon atoms , which may be aliphatic or alicyclic , and which may be saturated , partially unsaturated , or fully unsaturated . thus , the term “ alkyl ” includes the sub - classes alkenyl , alkynyl , cycloalkyl , etc ., discussed below . alkoxy : preferably alkoxy groups are represented by o ( ch 2 ) n — y , where n and y are defined above , and may be optionally substituted with one or more of the groups below . in embodiments of the invention in which a substituted phenyl groups is present , it may include one or more of the substituents set out below . if the phenyl group has less than the full complement of substituents , they may be arranged in any combination . for example , if the phenyl group has a single substituent other than hydrogen , it may be in the 2 -, 3 -, or 4 - position . similarly , if the phenyl group has two substituents other than hydrogen , they may be in the 2 , 3 -, 2 , 4 -, 2 , 5 -, 2 , 6 -, 3 , 4 -, or 3 , 5 - positions . if the phenyl group has three substituents other than hydrogen , they may be in , for example , the 2 , 3 , 4 -, 2 , 3 , 5 -, 2 , 3 , 6 -, 2 , 4 , 5 -, 2 , 5 , 6 -, or 3 , 4 , 5 - positions . if the phenyl group has four substituents other than hydrogen , they may be in , for example , the 3 , 4 , 5 , 6 -, 2 , 4 , 5 , 6 -, 2 , 3 , 5 , 6 -, 2 , 3 , 4 , 6 -, or 2 , 3 , 4 , 5 - positions . in preferred embodiments of the present invention the substituted functional groups as defined herein may be independently selected from : halo ; hydroxy ; ether ( e . g ., c 1 - 7 alkoxy ); formyl ; acyl ( e . g ., c 1 - 7 alkylacyl c 5 - 20 arylacyl ); acylhalide ; carboxy ; ester ; acyloxy ; amido ; acylamido ; thioamido ; tetrazolyl ; amino ; nitro ; nitroso ; azido ; cyano ; isocyano ; cyanato ; isocyanato ; thiocyano ; isothiocyano ; sulfhydryl ; thioether ( e . g ., c 1 - 7 alkylthio ); sulfonic acid ; sulfonate ; sulfone ; sulfonyloxy ; sulfinyloxy ; sulfamino ; sulfonamino ; sulfinamino ; sulfamyl ; sulfonamido ; phosphoryl groups such as phosphate — o — p ( o ) ( oh ) 2 ; thiophosphate — o — p ( s ) ( oh ) 2 ; phosphate esters — o — p ( o ) ( or ′) 2 ; thiophosphate esters — o — p ( s ) ( or ′) 2 ; phosphonate — o — p ( o ) ohr ′; thiophosphonate — o — p ( s ) ohr ′; substituted phosphonate — o — p ( o ) or ′ 1 r ′ 2 ; substituted thiophosphonate — o — p ( s ) or ′ 1 r ′ 2 ; — o — p ( s ) ( oh ) ( sh ); cyclic phosphate , wherein r ′, r ′ 1 and r ′ 2 are independently hydrogen or c 1 - 10 unsubstituted or substituted alkyl or aryl ; c 1 - 7 alkyl ( including , e . g ., unsubstituted c 1 - 7 alkyl , c 1 - 7 haloalkyl , c 1 - 7 hydroxyalkyl , c 1 - 7 - carboxyalkyl , c 1 - 7 - aminoalkyl , c 5 - 20 aryl - c 1 - 7 alkyl ); c 3 - 20 heterocyclyl ; or c 5 - 20 aryl ( including , e . g ., c 5 - 20 - carboaryl , c 5 - 20 heteroaryl , c 1 - 7 alkyl - c 5 - 20 aryl and c 5 - 20 haloaryl )). in one preferred embodiment , the substituent ( s ), often referred to herein as r , are independently selected from : — o — p ( o ) ( oh ) 2 , — o — p ( s ) ( oh ) 2 , — o — p ( o ) ( or ′) 2 , — o — p ( s ) ( or ′) 2 , — o — p ( o ) ohr ′, — o — p ( s ) ohr ′, — o — p ( o ) or ′ 1 r ′ 2 , — o — p ( s ) or ′ 1 r ′ 2 , — o — p ( s ) ( oh ) ( sh ) and cyclic phosphate , r ′, r ′ 1 and r ′ 2 defined as above ; — nh 2 , — nhme , — nhet , — nh ( ipr ), — nh ( npr ), — nme 2 , — net 2 , — n ( ipr ) 2 , — n ( npr ) 2 , — n ( nbu ) 2 , and — n ( tbu ) 2 ; — cf 3 , — chf 2 , — ch 2 f , — ccl 3 , — cbr 3 , — ch 2 ch 2 f , — ch 2 chf 2 , and — ch 2 cf 3 ; — ocf 3 , — ochf2 , — och 2 f , — occl 3 , — ocbr 3 , — och 2 ch 2 f , — och 2 chf 2 , and — och 2 cf 3 ; unless otherwise specified , included in the above definition of substituents are the well known ionic , salt , solvate , and protected forms of these substituents . for example , a reference to carboxylic acid (— cooh ) also includes the anionic ( carboxylate ) form (— coo − ), a salt or solvate thereof , as well as conventional protected forms . similarly , a reference to an amino group includes the protonated form (— n + hr 1 r 2 ), a salt or solvate of the amino group , for example , a hydrochloride salt , as well as conventional protected forms of an amino group . similarly , a reference to a hydroxyl group also includes the anionic form (— o − ), a salt or solvate thereof , as well as conventional protected forms . similarly , a reference to the strongly negatively charged group r 4 includes the anionic form of the compound , a partially or fully protonated form of the compound , and also a salt or solvate thereof or a conventional protected forms . by way of example , compounds with two monophosphate groups ( e . g . — o — ch 2 ch ( opo 3 2 − ) ch 2 opo 3 2 − or — och ( ch 2 opo 3 2 − ) 2 ), three monophosphate groups ( e . g . — o — ch 2 ( chopo 3 2 − ) 2 ch 2 opo 3 2 − or — o — ch 2 c ( ch 2 opo 3 2 − ) 3 , a biphosphate group ( e . g . — o ( ch 2 ) a op 2 o 6 3 − ) or a triphosphate group ( e . g . — o ( ch 2 ) a op 3 o 9 4 − ), wherein a is an integer between 1 and 5 , may all be provided in the form of such salts , solvates and protonated or protected forms . by way of example , phosphate groups may be present in their anionic form — po 3 2 − and also as — po 3 h − and — po 3 h 2 groups . such species , and their permutations in a bis - or tris - monophosphate or in bi - or tri - phosphates may be present depending on the ambient ph of solutions containing the compound of the invention . the r 1 group can be an effector species or a group capable of being coupled to or converted into an effector species . the effector species is preferably linked to the indoline via an acyl linkage , which may be derived either from a carboxylate moiety inherently present in the effector or as part of a carbamate or urea linkage between the effector and the indoline , for example : depending on particular cases , the linkage to a hydroxyl or amino group on the effector may be performed either before or after the nitration reaction according to the present invention . where the linkage of effector to indoline is carried out post nitration , it can be accomplished as follows : in cases where the effector species is resistant to the nitration conditions , the non - nitrated indoline can be taken through the same steps to create the acyl linkage to the effector species . examples of effector species include labels , drugs , toxins , or carrier or transport molecules . effector species preferably have a carboxylic acid group which can be coupled to the nitrogen atom at the 1 - position on the indoline to form an acyl linked effector species . techniques for coupling the photocleavable group to both peptidyl and non - peptidyl coupling partners are well known in the art . in preferred embodiments , the effector species is a biologically active compound such as an amino acid ( either l or d - amino acids ), and more particularly neuroactive amino acids such as l - glutamate , gaba and glycine . the procedures described herein can also be readily adapted to linking larger effector groups such as oligopeptides or polypeptides to the photocleavable group . examples of especially suitable peptides are as follows : thyrotrophin releasing hormone trh ; enkephalins ( locally acting endogenous opiates ); bradykinin ; and angiotensin ii . generally , the methods described herein are applicable to any oligopeptides with non - amidated c - termini . the synthesis of photoreleasable compounds including oligo or polypeptide effector species can be achieved by linking a terminal amino acid ( i . e . the c - terminal amino acid ) to the photocleavable group and then using polypeptide chain extension techniques to build up the peptide chain stepwise , or by coupling an oligopeptide or polypeptide to the terminal amino acid linked to the photocleavable group . standard peptide synthesis techniques could also be adapted by linking to the synthesis resin a suitably substituted alkoxy group at position 4 . this would give a resin containing the protecting group and c - terminal residue which could be elaborated and eventually cleaved from the resin by standard techniques . if the photoreleasable compound is synthesized using the scheme described in the examples below with the effector species introduced prior to the nitration reaction , it is preferred that the effector species is stable to the nitration reaction carried out after it is attached to the nitrogen of the indoline ring . in the case of amino acids , this means that the use of amino acids other than tryptophan , tyrosine , cysteine or methionine is preferred . in other aspects , the present invention provides precursor compounds in which the effector species has not been linked to the photocleavable group ( e . g . x is h , coy as defined above , or cocl ) and / or in which the nitration reaction has not been carried out ( e . g . the substituent at the 7 - position is hydrogen ). after administration , the photoreleasable compound can be activated to release the effector species , conveniently by exposure to a flash of uv light . preferred applications of the compounds of the invention are in patch clamp experiments and / or in high throughput screening ( hts ). patch clamp experiments are a widely used technique in biology that was originally developed to observe ionic current produced when ions flow through ion channels , membrane proteins that regulate the flow of ions across cellular membranes and hence the physiology of cells . this ionic movement creates an electrical current which is tightly regulated by specific signals that cause the ion channels to open and close . the movement of the ions leads to a measurable electrical current that forms the basis of processes such interneuronal and neuromuscular communication . for an introductory review of the technique , see for example patch clamping : an introductory guide , molleman , wiley europe , 2002 . from its origin , the technique has found many applications including the observation of the function of proteins in lipid bilayers , monitoring the synaptic transmission between neurones in the brain and monitoring changes that occur in cell membranes during secretion . in basic terms , patch clamp experiments employ a pipette or capillary having an opening between about 0 . 1 and 5 μm . a portion of the cell wall of a single cell is sucked into the opening allowing potentials to be applied to and measured across the cell membrane . more recently , patch clamping has been used in assays for the effect of drugs on cells particularly those used to affect ion channels such as sodium or potassium channels . as the caged compounds of the present invention are compatible with the biological conditions used in such cell based assays and are capable of releasing effector species on irradiation , they are particularly suited in cell based assays such as patch clamp experiments and high throughput screening methods . thus , the compounds of the invention can be introduced into the vicinity of a cell , e . g . in a patch clamp experiment , and a concentration of the active effector species generated in very short period on irradiation . this enables the effect of the released species to be studies under controlled circumstances . several reports indicate progress towards high throughput screening in association with patch clamping 8 , and neuroactive amino acids and their interactions with specific receptors are targets for therapeutic intervention . the ability to apply a sub - millisecond pulse of neuroactive amino acid to patch clamped cells within a multiple assay format is likely to be an important component of successful assays , avoiding the well - known desensitisation of receptors on neuronal cells that occurs in the prolonged presence of the neuroactive amino acid . in one possible embodiment of such an assay , the array of patch clamped cells would be set up with specific test compounds together with the caged native neuroactive amino acid ( such as l - glutamate , gaba or glycine ) and the native compound would then be photoreleased by brief illumination of the array . as described in the above summary of the invention , a preferred compound has the structure 6 . synthesis of 6 began from the indol - 4 - oxymalonate ester 8 , that was itself synthesised as shown in scheme 2 . direct alkylation of 4 - hydroxyindole with diethyl bromomalonate gave a mixture of products 7 and 8 . the formation of the anomalous product 7 could be suppressed by prior acyl protection of the indole . this was realised sequentially by formation of the tbdms ether 9 , acylation of the nitrogen with benzyl chloroformate to give 10 and removal of the tbdms ether . the phenol 11 could then be cleanly alkylated by diethyl bromomalonate to give a single product 12 , and hydrogenolysis gave the required compound 8 in good yield ( overall 40 % from 4 - hydroxyindole ). the synthesis was then carried forward ( scheme 3 ) by reduction of the two ester groups and protection of the resulting diol 13 as its bis - tbdms ether 14 . in fact , at this point , various combinations of protecting groups were explored , including the diacetate of the diol 13 and boc or phthalimide protection of the gaba moiety that was to be introduced in the next stage . for various reasons , the only successful route was that described below , using the tbdms - protected compound 14 and a phthalimide - protected gaba . thus 14 was reduced with sodium cyanoborohydride - acetic acid and the crude product was coupled with 4 - phthalimidobutyric acid . the resulting product was found to be a mixture of four compounds 15 - 18 , that were separated and identified by a combination of elemental analysis , 1 h nmr spectrometry and mass spectrometry . the mixture of these four compounds could not be fully separated , and it was more convenient to treat the crude mixture with tetrabutylammonium fluoride , which converted the main components 15 and 18 to the diol 19 . chromatographic separation of the latter , crystalline compound from the desilylated mono - alcohol by - products derived from 16 and 17 was readily achieved to give 19 in 57 % overall yield from the indole 14 . conversion to the protected phosphate 20 was then achieved by conventional means . although the synthesis up to this point had been relatively straightforward , with appropriate characterisation of intermediates at each stage , its completion to give the desired compound 6 was carried forward without full characterisation until the final product . this was largely because of difficulties encountered with the integrity of the protecting groups and a need to get to the final product 6 for pharmacological evaluation . thus , the protected phosphate 20 was subjected to nitration under homogenous conditions with cupric nitrate - acetic anhydride . we have previously used the claycop reagent for nitration during preparation of 2 to obtain good regioselectivity in favour of the 7 - nitro isomer . 9 however , from the present and other work , we have found that the presence of a bulky substituent on the 4 - oxy group inhibited this heterogeneous nitration , presumably because the nitroindoline substrate cannot enter the clay lattice of claycop . thus it was necessary to use mild , homogeneous nitration . in fact , with substrate 20 the regioselectivity of homogeneous nitration in favour of the 7 - nitro isomer was remarkably good , apparently giving only 10 - 15 % of the unwanted , 5 - nitro isomer . nevertheless , the reaction mixture was quite complex and attempted chromatography on silica gel resulted in the loss of much material . it seemed likely that the phosphate groups had been partially deprotected under the reaction conditions , resulting in a charged species and it was decided instead deliberately to remove the phosphate protecting groups , thereby giving a water - soluble species . thus the crude reaction mixture from the nitration was treated with tfa , and the resulting water - soluble mixture was analysed by reverse - phase hplc . in addition to some small , fast - eluting peaks , there was one major peak , followed by a second , much less intense peak . from a combination of uv - visible spectroscopy and previous , pilot experiments not discussed here , it appeared likely that these were respectively the 7 - and 5 - nitro isomers 21 and 22 respectively , in which the phthalimide protecting group was still present . preparative reverse - phase hplc resolved these two species and the major isomer , after conversion to its tetrakis ( tetrabutylammonium ) salt to improve its solubility in a predominantly organic solvent , was treated with sodium borohydride in isopropanol - water ( 4 : 1 ), followed by heating in dilute aqueous acetic acid to remove the phthalimide protecting group . the procedure was based on a previous report of these conditions for phthalimide removal . 10 analytical reverse - phase chromatography showed a major and a minor peak . uv - visible spectroscopy of each component was compatible with formulation of the major peak as the required final product 6 , while the more highly retained , minor peak appeared to have undergone cleavage of the amide bond to give the deacylated indoline 23 . the compounds were too strongly hydrophilic to permit separation by preparative reverse - phase hplc , but preparative anion - exchange chromatography readily resolved the two species . the desired compound 6 was recovered from the eluate by precipitation as a barium salt and finally resolubilised as its sodium salt with a cation exchange resin . pharmacological assessment of the gaba cage and the photorelease of gaba in neural tissue a previous evaluation of nitroindoline - caged amino acids in neural tissue has been published 4 . relevant findings reported there were as follows :—( 1 ) the nitroindoline photolysis reaction itself has no adverse effects on transmission of excitation from presynaptic to postsynaptic neurone ; ( 2 ) the ni - and mni - caged glutamate reagents 1 and 2 have no action themselves on glutamate or gaba receptors ; ( 3 ) the ni - caged gaba 4 interferes with gaba activation of the gaba a channel isoform . tests described here were to assess the photolytic efficiency of gaba release in a neurophysiological experiment with particular attention to point ( 3 ), namely the presence or absence of interference of the new caged gaba with gaba - activated channels . if interference is low the expectation is that the rise - time of the receptor activation by photoreleased gaba in the presence of high cage concentration should be similar to that generated by endogenously released gaba , rising in 1 - 2 ms . data shown in fig1 are the currents through gaba channels ( negative polarity ) activated with high concentration ( left panel : 0 . 5 mm gaba released , 1 . 5 mm caged gaba present ) showing a fast 1 ms rise - time , and ( right panel ) four different gaba concentrations ( 20 - 200 μm gaba released , 1 . 4 mm caged gaba present ) generated by different photolysis intensities , producing increasing amplitudes and rates of rise at high concentration . general details . 1 h nmr spectra were determined on jeol fx90q or varian unityplus 500 spectrometers in deuteriochloroform solution with tms as internal reference , unless otherwise specified . merck type 9385 silica gel was used for flash chromatography . analytical reverse - phase hplc was performed on a merck lichrospher 250 × 4 mm rp8 column and anion - exchange hplc was on a whatman partisphere 4 . 6 × 125 mm sax column . mobile phases were as specified in the text and all flow rates were 1 . 5 ml min − 1 . preparative reverse - phase hplc was on a 2 × 30 cm column ( waters c 18 packing material , cat . no . 20594 ), with flow rates at 2 ml min − 1 . 4 - hydroxyindole was purchased from biosynth ag , staad , switzerland . other reagents were from sigma - aldrich , poole , u . k . ( i ) a solution of 4 - hydroxyindole ( 266 mg , 2 mmol ) in acetone ( 20 ml ) was cooled to 0 ° c . under nitrogen and anhydrous potassium carbonate ( 414 mg , 3 mmol ) was added . a solution of commercial diethyl bromomalonate ( 92 %; 624 mg , 2 . 4 mmol ) in acetone ( 20 ml ) was added dropwise over 1 h and the mixture was stirred at 0 - 5 ° c . for 1 h , then at room temperature for further 5 h . the very dark solution was filtered , the solid washed with acetone and the combined filtrates were evaporated . the residue was dissolved in diethyl ether ( 50 ml ), washed with 0 . 5 m aq . sodium hydroxide and brine , dried and evaporated to a brown viscous oil ( 535 mg ). flash chromatography ( dichloromethane ) gave two products . the less polar material was diethyl 2 - bromo - 2 -( indol - 4 - yloxy ) malonate 7 as white crystals ( 92 mg , 11 %), mp 92 - 93 ° c . ( from diethyl ether - hexanes ); 1 h nmr ( 500 mhz ) δ 8 . 24 ( br s , 1h ), 7 . 19 ( d , j = 8 . 1 hz , 1h ), 7 . 17 ( t , j = 2 . 7 hz , 1h ), 7 . 07 ( t , j = 8 . 1 hz , 1h ), 6 . 94 ( d , j = 8 . 1 hz , 1h ), 6 . 73 - 6 . 75 ( m , 1h ), 4 . 28 - 4 . 38 ( m , 4h ), 1 . 23 ( t , j = 7 . 1 hz , 6h ). anal . calcd . for c 15 h 16 brno 5 : c , 48 . 76 ; h , 4 . 36 ; n , 3 . 79 . found : c , 48 . 79 ; h , 4 . 43 ; n , 3 . 61 . the more polar compound was diethyl 2 -( indol - 4 - yloxy ) malonate 8 as white crystals ( 260 mg , 45 %), mp 52 - 53 ° c . ( from diethyl ether - hexanes ); 1 h nmr ( 500 mhz ) δ 8 . 25 ( br s , 1h ), 7 . 13 ( dd , j = 3 . 1 , 2 . 6 hz , 1h ), 7 . 09 ( d , j = 7 . 8 hz , 1h ), 7 . 05 ( t , j = 7 . 8 hz , 1h , 6 . 76 - 6 . 77 ( m , 1h ), 6 . 50 ( d , j = 7 . 5 hz , 1h ), 5 . 35 ( s , 1h ), 4 . 28 - 4 . 37 ( m , 4h ), 1 . 30 ( t , j = 7 . 1 hz , 6h ). anal . calcd . for c 15 h 17 no 5 : c , 61 . 85 ; h , 5 . 88 ; n , 4 . 81 . found : c , 61 . 91 ; h , 6 . 17 ; n , 4 . 68 . ( ii ) a solution of 4 - hydroxyindole ( 266 mg , 2 mmol ) in acetone ( 20 ml ) was cooled to 0 ° c . under nitrogen and anhydrous potassium carbonate ( 414 mg , 3 mmol ) was added . a solution of commercial diethyl bromomalonate ( 92 %; 520 mg , 2 mmol ) in acetone ( 20 ml ) was added dropwise . after stirring for 5 h at room temperature , more diethyl bromomalonate ( 92 %; 520 mg ) was added and the mixture was stirred at room temperature overnight . work up and flash chromatography as above afforded 7 ( 360 mg , 45 %) and 8 ( 123 mg , 21 %). ( iii ) a solution of 4 - hydroxyindole ( 266 mg , 2 mmol ) in acetone ( 20 ml ) was cooled to 0 ° c . under nitrogen and anhydrous potassium carbonate ( 414 mg , 3 mmol ) was added . a solution of freshly distilled pure diethyl bromomalonate ( 574 mg , 2 . 4 mmol ) in acetone ( 20 ml ) was added dropwise and the mixture was stirred at room temperature overnight . work up and flash chromatography as above afforded 7 ( 101 mg , 13 %) and 8 ( 199 mg , 34 %). 4 -( t - butyldimethylsilyloxy ) indole ( 9 ). a solution of 4 - hydroxyindole ( 13 . 31 g , 75 mmol ) in dry dichloromethane ( 400 ml ) was treated with imidazole ( 8 . 17 g , 120 mmol ) and t - butyldimethylsilyl chloride ( 18 . 09 g , 120 mmol ) and the mixture was stirred at room temperature under nitrogen overnight . the precipitated white solid was filtered off and washed with dichloromethane and the combined filtrates were washed successively with 0 . 5 m aq . hydrochloric acid , 0 . 5 m aq . sodium hydroxide and brine , dried and evaporated to give 9 as white crystals ( 21 . 03 g , 85 %), mp 80 - 81 ° c . ( from hexanes ); 1 h nmr ( 500 mhz ) δ 8 . 06 ( br s , 1h ), 7 . 08 ( dd , j = 3 . 1 , 2 . 4 hz , 1h ), 6 . 99 - 7 . 05 ( m , 2h ), 6 . 58 - 6 . 59 ( m , 1h ), 6 . 52 ( dd , j = 7 , 1 . 5 hz , 1h , 1 . 06 ( s , 9h ), 0 . 23 ( s , 6h ). anal . calcd . for c 14 h 21 nosi : c , 67 . 97 ; h , 8 . 56 ; n , 5 . 66 . found : c , 67 . 60 ; h , 8 . 80 ; n , 5 . 57 . benzyl 4 -( t - butyldimethylsilyloxy ) indole - 1 - carboxylate ( 10 ). a stirred , ice - cold mixture of 9 ( 18 . 56 g , 75 mmol ), tetrabutylanimonium bromide ( 2 . 42 g , 7 . 5 mmol ) and powdered sodium hydroxide ( 4 . 0 g , 75 mmol ) in dichloromethane ( 375 ml ) was treated dropwise with benzyl chloroformate ( 95 % purity ; 20 . 20 g , 112 . 5 mmol ). the reaction mixture was stirred at room temperature and the progress of the reaction was followed by tlc [ ethyl acetate - hexanes ( 1 : 9 )]. further aliquots of benzyl chloroformate ( each 20 . 20 g ) were added after 1 h and 2 h , and the mixture was stirred at room temperature for a total of 18 h , diluted with water and extracted with dichloromethane . the combined organic phases were washed with brine , dried and evaporated . the residual oil was dissolved in dry diethyl ether ( 250 ml ), cooled in ice and treated dropwise with a solution of ethylenediamine ( 47 ml , 355 mmol ) in dry diethyl ether ( 150 ml ) and stirred at room temperature for 0 . 5 h . the mixture washed with 0 . 5 m aq . hydrochloric acid and brine and the organic phase was dried and evaporated . after trituration with diethyl ether and cooling in ice , some precipitated n , n - di -( benzyloxycarbonyl ) ethylenediamine was removed by filtration and 10 was isolated as a pale oil ( 28 . 62 g , 100 %) which was used in the next step without further purification ; 1 h nmr ( 90 mhz ) δ 7 . 78 ( d , j = 7 . 2 hz , 1h ), 7 . 00 - 7 . 56 ( m , 7h ), 6 . 58 - 6 . 72 ( m , 2h ), 5 . 42 ( s , 2h ), 1 . 03 ( s , 9h ), 0 . 22 ( s , 6h ). benzyl 4 - hydroxyindole - 1 - carboxylate ( 11 ). a solution of 10 ( 28 . 62 g , 75 mmol ) in tetrahydrofuran ( 375 ml ) containing acetic acid ( 4 . 5 g , 75 mmol ) was treated at 0 ° c . with 1 m tetrabutylammonium fluoride ( 75 ml , 75 mmol ) and the mixture was stirred at 0 ° c . for 40 min . the solvent was evaporated and the residue was dissolved in diethyl ether ( 250 ml ) and washed with saturated aq . sodium bicarbonate and brine , dried and evaporated to give a brown solid which washed with cold hexanes to give 11 as white fluffy needles ( 14 . 13 g , 70 %), mp 118 - 120 ° c . ( from dichloromethane - hexanes ), ( lit . 11 mp 121 - 124 ° c .). benzyl 4 -[ di ( ethoxycarbonyl ) methoxy ] indole - 1 - carboxylate ( 12 ). the indole 11 ( 10 . 69 g , 40 mmol ) was added to a suspension of anhydrous potassium carbonate ( 8 . 29 g , 60 mmol ) in acetone ( 400 ml ) and the mixture was stirred at room temperature for 15 min . diethyl bromomalonate ( 11 . 47 g , 48 mmol ) was added and the mixture was heated under reflux for 17 h . the solid was filtered off and washed with acetone and the combined filtrates were evaporated . the residue was dissolved in diethyl ether ( 150 ml ), washed with 0 . 5 m aq . sodium hydroxide and brine , dried and evaporated to a brown viscous oil ( 16 . 87 g ). after trituration with diethyl ether , the precipitated white solid was filtered off and the filtrate was evaporated . the residue was flash chromatographed [ ethyl acetate - hexanes ( 15 : 85 )] to give more solid and the combined solids were recrystallised to give 12 as white crystals ( 13 . 83 g , 81 %), mp 77 - 78 ° c . ( from ethyl acetate - hexanes ); 1 h nmr ( 500 mhz ) δ 7 . 86 - 7 . 92 ( br d , 1h ), 7 . 57 ( d , j = 3 . 7 hz , 1h ), 7 . 47 - 7 . 49 ( m , 2h ), 7 . 36 - 7 . 43 ( m , 3h ), 7 . 20 ( t , j = 8 . 1 hz , 1h ), 6 . 86 ( d , j = 3 . 9 hz , 1h ), 6 . 63 ( d , j = 8 . 1 hz , 1h ), 5 . 45 ( s , 2h ), 5 . 30 ( s , 1h ), 4 . 29 - 4 . 37 ( m , 4h ), 1 . 30 ( t , j = 7 . 1 hz , 6h ). anal . calcd for c 23 h 23 no 7 : c , 64 . 93 ; h , 5 . 45 ; n , 3 . 29 . found : c , 65 . 06 ; h , 5 . 64 ; n , 3 . 21 . diethyl 2 -( indol - 4 - yloxy ) malonate ( 8 ). a solution of 12 ( 8 . 51 g , 20 mmol ) in ethanol ( 250 ml ) was mixed with 10 % palladium on carbon ( 1 . 5 g ) and hydrogenated at atmospheric pressure for 1 h until hydrogen uptake ceased . the catalyst was filtered off through a celite bed and washed with ethanol , and the filtrate was evaporated to give a brown oil . filtration through flash silica with ethyl acetate - hexanes ( 3 : 2 ) as eluent , followed by trituration with diethyl ether - hexanes at − 20 ° c . gave 8 as white crystals ( 4 . 78 g , 82 %), mp 52 - 53 ° c . ( from diethyl ether - hexanes ), identical to the material described above . 4 -[ 1 , 3 - bis ( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indole ( 14 ). lialh 4 ( 1 . 82 g , 48 mmol ) was suspended in dry et 2 o ( 120 ml ) and cooled to 0 ° c . under nitrogen in a three - necked flask equipped with a reflux condenser and a pressure equalised dropping funnel . a solution of diethyl 2 -( indol - 4 - yloxy ) malonate 8 ( 3 . 50 g , 12 mmol ) in dry et 2 o ( 80 ml ) was added dropwise , then the cold bath was removed and the mixture was refluxed for 2 h . the reaction mixture was then cooled to 0 ° c . and water ( 1 . 82 ml ) was added followed by 15 % aq . naoh ( 1 . 82 ml ) and finally water ( 3 × 1 . 82 ml ). the precipitated solid was filtered off , washed thoroughly with etoac and the combined washings were dried and evaporated to give a viscous oil ( 2 . 63 g ). this material was dissolved in dry ch 2 cl 2 ( 250 ml ) and treated with imidazole ( 2 . 45 g , 36 mmol ) and t - butyldimethylsilyl chloride ( 4 . 52 g , 30 mmol ) and the mixture was stirred at room temperature under nitrogen overnight . the precipitated white solid was filtered off , washed with ch 2 cl 2 and the filtrate washed successively with 0 . 5 m aq . hcl , 0 . 5 m aq . naoh and brine , dried and evaporated to give 14 ( 4 . 13 g , 79 %) as a colourless viscous oil : 1 h nmr ( 500 mhz ) δ 8 . 11 ( br s , 1h ), 6 . 99 - 7 . 12 ( m , 3h ), 6 . 61 - 6 . 67 ( m , 2h ), 4 . 51 ( quintet , j = 5 hz , 1h ), 3 . 86 - 3 . 95 ( m , 4h ), 0 . 89 ( s , 18h ), 0 . 07 ( s , 6h ), 0 . 03 ( s , 6h ). hrms ( es + ): m / z 436 . 2718 ( m + h ) + ; calcd for ( c 23 h 41 no 3 si 2 + h ) + , 436 . 2698 . 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[ 1 , 3 - bis ( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indoline ( 15 ) and related compounds . nabh 3 cn ( 1 . 79 g , 28 . 5 mmol ) was added portionwise to a solution of the indole 14 ( 4 . 13 g , 9 . 5 mmol ) in acetic acid ( 90 ml ) and the mixture was stirred at room temperature for 1 h . the solvent was evaporated and the residue was diluted with water , neutralised with solid nahco 3 and extracted with etoac . the combined organic phases were washed with brine , dried and evaporated to give 4 -[ 1 , 3 - bis ( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indoline ( 3 . 14 g , 75 %) as a viscous oil : 1 h nmr ( 90 mhz ) δ 6 . 82 ( t , j = 7 . 2 hz 1h ), 6 . 04 - 6 . 32 ( m , 2h ), 4 . 16 - 4 . 32 ( m , 1h ), 3 . 64 - 3 . 88 ( m , 4h ), 3 . 46 ( t , j = 7 . 2 hz , 2h ), 2 . 88 ( t , j = 7 . 2 hz , 2h ), 2 . 04 ( s , 1h ), 0 . 88 ( s , 18h ), 0 . 04 ( s , 12h ). this material was dissolved in dry mecn ( 95 ml ) and treated with 4 -( n - phthalimido ) butanoic acid ( 2 . 66 g , 11 . 4 mmol ) and 1 -( 3 - dimethylaminopropyl )- 3 - ethylcarbodiimide hydrochloride ( 2 . 55 g , 13 . 3 mmol ) and the mixture was stirred at room temperature overnight . the solvent was evaporated and the residue was taken up in etoac , washed with 0 . 5 m aq . hcl , aq . nahco 3 and brine , dried and evaporated . flash chromatography [ etoac - hexanes ( 1 : 4 )→( 2 : 3 )→( 1 : 1 )] gave four products . the first eluted material was 15 ( 1 . 69 g ) as white crystals , mp 118 - 120 ° c . ( meoh ). this material was estimated by 1 h nmr to contain ˜ 20 % of 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[ 1 -( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indoline 16 . the second eluted material was 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[ 1 -( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indoline 16 ( 0 . 22 g , 6 %) as white crystals , mp 118 - 120 ° c . ( et 2 o - hexanes ): 1 h nmr ( 500 mhz ) δ 7 . 81 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 71 ( d , j = 8 . 2 hz , 1h ), 7 . 68 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 07 ( t , j = 8 . 2 hz , 1h ), 6 . 51 ( d , j = 8 . 2 hz , 1h ), 4 . 13 - 4 . 19 ( m , 1h ), 4 . 02 ( t , j = 8 . 5 hz , 2h ), 3 . 74 - 3 . 92 ( m , 6h ), 3 . 10 ( t , j = 8 . 5 hz , 2h ), 2 . 47 ( t , j = 7 . 1 hz , 2h ), 2 . 15 ( quintet , j = 7 . 1 hz , 2h ), 1 . 23 ( d , j = 6 . 2 hz , 3h ), 0 . 90 ( s , 9h ), 0 . 10 ( s , 3h ), 0 . 08 ( s , 3h ). lrms ( es + ); calcd for ( c 29 h 38 n 2 o 5 si + h ) + , 523 ; found , 523 . 4 . anal . calcd for c 29 h 38 n 2 o 5 si + h 2 o : c , 64 . 64 ; h , 7 . 45 ; n , 5 . 18 . found : c , 64 . 70 ; h , 7 . 13 ; n , 5 . 12 . the third eluted material was 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[ 1 -( acetoxy )- 3 -( t - butyldimethylsilyloxy ) propan - 2 - yloxy ] indoline 17 ( 0 . 15 g , 4 %) as colourless viscous oil : 1 h nmr ( 500 mhz ) δ 7 . 81 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 67 - 7 . 74 ( m , 3h ), 7 . 07 ( t , j = 8 . 2 hz , 1h ), 6 . 63 ( d , j = 8 . 2 hz , 1h ), 4 . 52 ( quintet , j = 5 . 2 hz 1h ), 4 . 28 - 4 . 36 ( m , 2h ), 4 . 01 ( t , j = 8 . 5 hz , 2h ), 3 . 77 - 3 . 85 ( m , 4h ), 3 . 08 ( t , j = 8 . 5 hz , 2h ), 2 . 47 ( t , j = 7 . 1 hz , 2h ), 2 . 15 ( quintet , j = 7 . 1 hz , 2h ), 2 . 04 ( s , 3h ), 0 . 90 ( s , 9h ), 0 . 05 ( s , 3h ), 0 . 04 ( s , 3h ). lrms ( es + ) m / z : calcd for ( c 31 h 40 n 2 o 7 si + h ) + , 581 ; found , 581 . 3 . the fourth eluted material was 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[ 1 -( t - butyldimethylsilyloxy )- 3 -( hydroxy ) propan - 2 - yloxy ] indoline 18 ( 0 . 48 g , 13 %) as white crystals , mp 74 - 76 ° c . ( from etoac - hexanes ): 1 h nmr ( 500 mhz ) δ 7 . 82 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 73 ( d , j = 8 . 2 hz , 1h ), 7 . 68 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 07 ( t , j = 8 . 2 hz , 1h ), 6 . 62 ( d , j = 8 . 2 hz , 1h ), 4 . 41 ( quintet , j = 5 hz , 1h ), 4 . 03 ( t , j = 8 . 5 hz , 2h ), 3 . 80 - 3 . 95 ( m , 6h ), 3 . 10 ( t , j = 8 . 5 hz , 2h ), 2 . 48 ( t , j = 7 . 1 hz , 2h ), 2 . 10 - 19 ( m , 3h ), 0 . 90 ( s , 9h ), 0 . 07 ( s , 3h ), 0 . 06 ( s , 3h ). anal . calcd for c 29 h 38 n 2 o 6 si : c , 64 . 66 ; h , 7 . 11 ; n , 5 . 20 . found : c , 64 . 44 ; h , 7 . 10 ; n , 5 . 06 . 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -[( 1 , 3 - dihydroxy ) propan - 2 - yloxy ] indoline ( 19 ). the indole 14 ( 3 . 88 g , 8 . 9 mmol ) was reduced and coupled with 4 -( n - phthalimido ) butyric acid as described above . the crude product ( 5 . 84 g ) was dissolved in thf and treated with acetic acid ( 1 . 18 g , 18 . 2 mmol ) and tbaf ( 1 m solution in thf ; 16 . 6 ml , 16 . 6 mmol ) and the mixture was kept at room temperature for 24 h . the solvent was concentrated to ˜ 50 ml , diluted with etoac ( 350 ml ) and washed with brine ( 2 × 400 ml ). the organic phase was allowed to stand and the white precipitate formed was filtered off , washed with cold etoac and dried under vacuum . the filtrate washed with saturated aq . nahco 3 and brine , dried and evaporated to give more solid . the combined solids were recrystallised from meoh to give 19 ( 1 . 99 g , 57 %) as white crystals , mp 173 - 175 ° c . : 1 h nmr ( cdcl 3 - dmso - d 6 , 500 mhz ) δ 7 . 80 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 72 ( dd , j = 5 . 4 , 2 . 9 hz , 2h ), 7 . 65 ( d , j = 8 . 2 hz , 1h ), 7 . 03 ( t , j = 8 . 2 hz , 1h ), 6 . 69 ( d , j = 8 . 2 hz , 1h ), 4 . 36 ( quintet , j = 5 . 1 hz , 1h ), 4 . 16 ( t , j = 6 . 1 hz , 2h ), 4 . 03 ( t , j = 8 . 5 hz , 2h ), 3 . 77 - 3 . 82 ( m , 6h ), 3 . 14 ( t , j = 8 . 5 hz , 2h ), 2 . 48 ( t , j = 7 . 0 hz , 2h ), 2 . 10 ( quintet , j = 7 . 0 hz , 2h ); hrms ( maldi ): calcd for ( c 23 h 24 n 2 o 6 + h ) + , 425 . 1707 ; found , 425 . 1695 ; anal . calcd for c 23 h 24 n 2 o 6 : c , 65 . 08 ; h , 5 . 70 ; n , 6 . 60 . found : c , 64 . 84 ; h , 5 . 68 ; n , 6 . 59 . 1 -[ 4 -( n - phthalimido ) butanoyl ]- 4 -{ 1 , 3 - bis [ di ( t - butoxy ) phosphoryloxy ]- propan - 2 - yloxy } indoline ( 20 ). a suspension of the diol 19 ( 0 . 98 g , 2 . 3 mmol ) in dry thf ( 115 ml ) was treated under nitrogen with 1h - tetrazole ( 1 . 29 g , 18 . 4 mmol ) and di - t - butyl - n , n - diethylphosphoramidite ( 93 % purity ; 2 . 47 g , 9 . 2 mmol ) and the mixture was stirred under nitrogen at room temperature overnight . the solution was cooled to 0 ° c . and treated dropwise with a solution of m - chloroperbenzoic acid ( 55 % peracid ; 4 . 33 g , 13 . 8 mmol ) in ch 2 cl 2 ( 115 ml ). the solution was stirred at 4 ° c . for 1 h , diluted with ch 2 cl 2 and washed successively with 10 % aq . na 2 s 2 o 5 , saturated aq . nahco 3 and brine , dried and evaporated . flash chromatography [ meoh - etoac ( 2 : 98 )] gave 20 ( 1 . 79 g , 96 %) as a white foam : 1 h nmr ( 500 mhz ) δ 7 . 81 ( dd , j = 5 . 3 , 2 . 1 hz , 2h ), 7 . 73 ( d , j = 8 . 2 hz , 1h ), 7 . 69 ( dd , j = 5 . 3 , 3 . 1 hz , 2h ), 7 . 08 ( t , j = 8 . 2 hz , 1h ), 6 . 67 ( d , j = 8 . 2 hz , 1h ), 4 . 67 ( quintet , j = 4 . 9 hz , 1h ), 4 . 17 ( dd , j = 6 . 6 , 5 . 1 hz , 4h ), 4 . 00 ( t , j = 8 . 4 hz , 2h ), 3 . 82 ( t , j = 6 . 5 hz , 2h ), 3 . 11 ( t , j = 8 . 4 hz , 2h ), 2 . 47 ( t , j = 7 . 1 hz , 2h ), 2 . 14 ( quintet , j = 6 . 8 hz , 2h ), 1 . 47 ( s , 18h ), 1 . 46 ( s , 18h ). hrms ( es + ): calcd for ( c 39 h 58 n 2 o 12 p 2 + h ) + , 809 . 3538 ; found , 809 . 3519 . 1 -( 4 - aminobutanoyl )- 4 -[ 1 , 3 - bis ( dihydroxyphosphoryloxy ) propan - 2 - yloxy ]- 7 - nitroindoline ( 6 ). to a solution of 20 ( 437 mg , 0 . 54 mmol ) in a mixture of dry ch 2 cl 2 ( 10 ml ) and acetic anhydride ( 20 ml ) was added copper nitrate hemipentahydrate ( 137 mg , 0 . 59 mmol ) and the mixture was stirred at room temperature overnight , then filtered and concentrated in vacuo . the residue was re - evaporated from toluene ( 2 × 20 ml ), diluted with etoac ( 50 ml ) and washed with saturated aq . nahco 3 ( 2 × 50 ml ) and brine , dried and evaporated to a brown viscous oil ( 254 mg ). flash chromatography [ etoac - meoh ( 96 : 4 )] gave a pale viscous oil ( 105 mg ), and this step was omitted in later runs . this material was dissolved in tfa ( 10 ml ), stirred at room temperature for 1 h and concentrated in vacuo . the residue was dissolved in cold , 250 mm na phosphate ph 6 . 0 ( 24 ml ) and adjusted carefully to ph 6 . 0 with 1 m aq . naoh . the solution washed with ether and analysed by reverse - phase hplc [ mobile phase 25 mm na phosphate , ph 6 . 0 - mecn ( 100 : 12 . 5 v / v )]. there was a major and a minor peak , with t r 19 . 8 and 24 . 8 min respectively , that were later identified as 7 - and 5 - nitro isomers . the solution was diluted to 50 ml with 25 mm na phosphate , ph 6 . 0 and pumped onto the preparative hplc column , that was previously equilibrated with 25 mm na phosphate , ph 6 . 0 . the column was first washed with the same buffer for 3 h , then eluted with 25 mm na phosphate , ph 6 . 0 - mecn ( 10 : 1 v / v ). fractions containing the main peak were analysed by reverse - phase hplc as above , combined and quantified by uv spectroscopy at 340 nm ( 46 μmol ), and concentrated . the residue was dissolved in water ( 20 ml ) and desalted by re - application to the preparative hplc column , which was again pre - equilibrated in 25 mm na phosphate , ph 6 . 0 . the column was first washed with this buffer for 1 h and then with water . the product began to elute in the water wash and elution was completed with water - mecn ( 100 : 15 v / v ). fractions were analysed as above , combined and quantified by uv spectroscopy ( 41 μmol ). the solution was concentrated and the residue taken up in water ( 9 ml ) and lyophilised . the yellow powder was dissolved in water ( 2 ml ) and exchanged its tetrakis ( tetrabutyl ) ammonium salt by application to a 1 × 20 cm column of dowex 50 ( bu 4 n + form ). the eluate was lyophilised and re - dissolved in water ( 1 ml ). the solution was diluted with isopropanol ( 4 ml ) and treated with nabh 4 ( 15 mg , 0 . 4 mmol ) in two portions over a period of 1 h and the mixture was stirred at room temperature overnight . the solution was then acidified to ph 4 - 5 with glacial acetic acid , heated to 80 ° c . for 3 . 5 h and the solvent was evaporated . the residue was dissolved in water ( 20 ml ) and adjusted to ph 6 . 0 with 2m aq . naoh , then washed with ether and analysed by both reverse - phase hplc ( mobile phase 100 mm na phosphate , ph 6 . 0 , ( t r 5 . 2 min , large peak and 8 . 8 min , small peak ) and anion exchange hplc ( mobile phase 100 mm na phosphate , ph 6 . 0 - mecn ( 5 : 1 , v / v ), ( t r 5 . 2 min , large peak and 9 . 4 min , small peak ). the eluent corresponding to the smaller peak in both analytical columns was collected separately and its uv spectrum in each case suggested that the product was the salt of 4 -[ 1 , 3 - bis ( dihydroxyphosphoryloxy ) propan - 2 - yloxy ]- 7 - nitroindoline 23 . the main solution was diluted with water to a conductivity of 0 . 85 ms cm − 1 and subjected to anion - exchange chromatography on deae - cellulose ( column 2 × 20 cm ) using a linear gradient formed from 10 and 500 mm naoac , ph 6 . 0 ( each 250 ml ). fractions containing the product , which eluted at ˜ 260 mm naoac , were analysed as above , combined and quantified by uv spectroscopy ( 10 μmol ). the solution was concentrated and the residue was taken up in water ( 5 ml ), passed through a 0 . 2 μm membrane , treated with 2 m ba ( oac ) 2 ( 1 ml ) and etoh ( 2 . 5 ml ) and allowed to stand at 4 ° c . overnight . the mixture was centrifuged and the supernatant , re - quantified by uv spectroscopy , showed that ˜ 80 % of the compound had precipitated as its barium salt . the precipitate was washed water - etoh ( 1 : 1 ) ( 3 × 8 ml ) and redissolved in water ( 3 ml ) and mixed with dowex 50 ( na + form ; 0 . 5 g ) for 1 h . the dowex was filtered , washed with water ( 3 ml ) and the combined filtrates were passed through a 0 . 2 μm membrane filter and lyophilised . the residue was dissolved in water ( 0 . 5 ml ) and quantified by uv spectroscopy to give 6 ( 7 . 2 mm , 3 . 6 μmol ) as the na + salt . 1 h nmr ( 500 mhz , d 2 o , acetone ref .) δ 7 . 72 ( d , j = 9 . 2 hz , 1h ), 7 . 19 ( d , j = 9 . 2 hz , 1h ), 4 . 87 ( quintet , j = 4 . 8 hz , 1h ), 4 . 31 ( t , j = 7 . 8 hz , 2h ), 3 . 96 - 4 . 05 ( m , 4h ), 3 . 23 ( t , j = 7 . 8 hz , 2h ), 3 . 05 ( t , j = 7 . 7 hz , 2h ), 2 . 72 ( t , j = 7 . 1 hz , 2h ), 2 . 00 ( quintet , j = 7 . 5 hz , 2h ). lrms ( esi ) ( m / z ): ( m + 2h ) − found : 498 . 2 ; calcd for ( c 15 h 20 n 3 o 12 p 2 + 2h ) − , 498 . 1 . 1 . g . papageorgiou , d . c . ogden , a . barth and j . e . t . corrie . j . am . chem . soc . 121 , 6503 - 6504 , 1999 . 2 . 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