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Biologically relevant phosphoranes: synthesis and structural characterization of glucofuranose-derived phosphoranes with penta- and hexacoordination at phosphorus.

Carbohydrate-based phosphoranes were synthesized by reacting the appropriate diphenol with phosphorus trichloride followed by the addition of chloralose to form 1 and by the addition of isopropylidene-D-glucofuranose to form 2 and 3. Phosphorane 4 was obtained by reacting 1,2-O-isopropylidene-alpha-D-glucofuranosyl-3,5,6-phosphite (13) with a diphenol. For the synthesis of 5-9, the appropriate phosphite was reacted with isopropylidene-glucofuranose. X-ray analyses of 1-9 were carried out successfully. Hexacoordinated structures resulted via oxygen donor action at phosphorus in the cases of phosphoranes 1-3 and via sulfur donor action for phosphoranes 4-6. Trigonal bipyramidal structures formed for 7-9 with the carbohydrate components occupying axial-equatorial sites. The eight-membered ring of the diphenol moiety with weak or no donor groups in 7-9 occupied diequatorial sites of the trigonal bipyramid. Solution NMR data are in agreement with the assigned solid-state structures. Isomerism between penta- and hexacoordination is present in solution for 7. The isomerism observed for 7 and our previous study showing a rapid exchange process that reorients the carbohydrate component of the trigonal bipyramidal phosphorane suggest that these biophosphoranes may serve as models for active sites of phosphoryl-transfer enzymes. At an active site, this type of pseudorotational behavior provides a mechanism that could bring another active site residue into play and account for a means by which some phosphoryl-transfer enzymes express promiscuous behavior.

Carbohydrates↗

Biologically relevant phosphoranes: structural characterization of a nucleotidyl phosphorane.

The first successful crystal structures of biorelevant nucleoside and carbohydrate-based phosphoranes are reported. Employing thymidine, a nucleotidyl phosphorane was synthesized in 90% yield and was shown by X-ray analysis to possess a trigonal bipyramidal geometry. With the use of 1,2-O-isopropylidene-alpha-d-glucofuranose, a carbohydrate-based phosphorane was formed and similarly found to have a trigonal bipyramidal geometry. NMR studies demonstrated the existence of isomerism in solution associated with the nucleotidyl phosphorane and rapid exchange for the carbohydrate-based phosphorane. The geometrical representations reported here are expected to have significant applications associated with active site mechanisms of phosphoryl transfer enzymes, for example, in DNA, RNA, c-AMP, and others.

Crystallography, X-Ray↗

Biologically relevant phosphoranes: structural characterization of glucofuranose- and xylofuranose-based phosphoranes.

Carbohydrate-based phosphoranes were synthesized by reacting 2,2'-ethylidenebis(4,6-di-tert-butylphenyl)fluorophosphite with 1,2-O-isopropylidene-alpha-D-glucofuranose, beta-chloralose, and 1,2-isopropylidene-alpha-D-xylofuranose to form the monocyclic biophosphoranes 1-3, respectively, in the presence of N-chlorodiisopropylamine. Synthesis of the monocyclic biophosphorane 4 was achieved by reacting tris(2,6-di-isopropylphenyl)phosphite with 1,2-O-isopropylidene-alpha-D-glucofuranose in the presence of N-chlorodiisopropylamine. X-ray analysis of 1-4 revealed trigonal bipyramidal structures with the carbohydrate components occupying axial-equatorial sites. An eight-membered ring in 1-3 occupied diequatorial sites of the trigonal bipyramid. Solution and solid state 31P and solution 19F, 1H, and 13C NMR measurements including variable temperature and correlation spectroscopy studies established retention of the solid state structure in solution. A dynamic equilibrium exists among two isomeric forms. These biophosphoranes serve as models for active sites of phosphoryl transfer enzymes. The rapid exchange process reorients the carbohydrate component of the trigonal bipyramidal phosphorane. At an active site, this type of pseudorotational behavior provides a mechanism that could bring another active site residue into play and account for a means by which some phosphoryl transfer enzymes express promiscuous behavior.

Chloralose↗

Phosphinofenchol or metastable phosphorane? Phosphorus derivatives of fenchol.

Not the expected phosphinofenchol 1 but phosphorane 2 is obtained after reaction of 2-lithio(diphenylphosphino)benzene with (-)-fenchone. Surprisingly, ONIOM(B3LYP/6-31G*:UFF) computations of 1 and 2 as well as B3LYP analyses of smaller model systems point to a lower thermodynamic stability of phosphoranes relative to their isomeric alkoxyphosphines. An analogue inherent instability is computed for the methylphosphorane 10, which is also synthesized and characterized by X-ray analysis. Decreasing ring size in cyclic phosphoranes, that is, from five- to four-membered ring systems, destabilizes cyclic phosphoranes even more. This computational prediction is verified experimentally by reaction of lithiomethyl(diphenylphosphine) with (-)-fenchone and subsequent isolation of the corresponding phosphinofenchol. Protonation or alkylation of phosphoranide intermediates can account for the formation of metastable phosphoranes.

Journal Article↗

Theoretical evaluation of pK(a) in phosphoranes: implications for phosphate ester hydrolysis.

Knowledge of the pK(a) of phosphoranes is important for the interpretation of phosphate ester hydrolysis. Calculated pK(a)'s of the model phosphorane, ethylene phosphorane, are reported. The method of calculation is based on the use of dimethyl phosphate as a reference state for evaluating relative pK(a) values, and on the optimization of the oxygen and acidic hydrogen van der Waals radii to give reasonable pK(1)(a), pK(2)(a), and pK(3)(a) for phosphoric acid in solution. Density functional theory is employed to calculate the gas-phase protonation energies, and continuum dielectric methods are used to determine the solvation corrections. The calculated pK(1)(a) and p(2)(a) for the model phosphorane are 7.9 and 14.3, respectively. These values are within the range of proposed experimental values, 6.5-11.0 for pK(1)(a), and 11.3-15.0 for pK(2)(a). The mechanistic implications of the calculated pK(a)'s are discussed.

Hydrolysis↗

Unsuccessful/successful attempts to produce penta(heteroaryl)-phosphoranes/-arsoranes R5E (E = P, As; R = 2-furyl, 2-thienyl).

Tri(2-thienyl)phosphine (1) has been transformed into chlorotri(2-thienyl)phosphonium chloride (3) in the reaction with hexachloroethane, into tetra(2-thienyl)phosphonium bromide (4) in a NiBr2-catalyzed quaternization with 2-bromothiophene, and into the p-tolylsulfonyliminotri(2-thienyl)phosphorane (6) using "chloramine T". Attempts to generate the homoleptic penta(2-thienyl)phosphorane (2-C4H3S)5P (5) by treating 3, 4, 6 or the known (PhO)3P=NSO2C6H4-2-Me (9) with 2-thienyllithium were unsuccessful. Tri(2-furyl)phosphine (2) was converted into the related imine 7, but the reaction of 7 or of 9 with 2-furyllithium failed to give (2-C4H3O)5P (8). It was only with the strained phosphorane Ph(C12H8)P=NSO2C6H4-4-Me (C12H8= 2,2'-biphenylylene) (10) that with 2-C4H3OLi the corresponding phosphorane Ph(C12H8)P(C4H3O-2)2 (11) could be obtained (31P NMR: delta-106.7 ppm). In the arsenic series, tri(2-thienyl)- and tri(2-furyl)arsine (12, 13) were converted into the tosylimino compounds (14, 15) and successfully transformed into the homoleptic arsoranes with 2-C4H3E-Li: penta(2-thienyl)- (16) and penta(2-furyl)-arsorane (17) are stable colourless crystalline solids, the NMR spectra of which indicate rapid pseudo-rotation in solution. The single crystal structure analysis of 17 shows an only slightly distorted trigonal-bipyramidal configuration. In crystals of the phosphine 2 and the arsine 13 the molecules have a propeller configuration with approximate C3v symmetry for the former, but Cs symmetry for the latter. The crystal structures of the precursors or intermediates 3, 4, 6, 9, and 10 have also been determined.

Journal Article↗

Experimental determination of the nN --> sigma*P-O interaction energy of O-equatorial C-apical phosphoranes bearing a primary amino group.

The reaction of a chlorophosphorane (9-Cl) with primary amines produced anti-apicophilic spirophosphoranes (5, O-equatorial phosphoranes), which violate the apicophilicity concept, having an apical carbon-equatorial oxygen configuration, along with the ordinarily expected O-apical stereoisomers (6) with the apical oxygen-equatorial carbon configuration. Although the amino group is electronegative in nature, the O-equatorial phosphoranes were found to be stable at room temperature and could still be converted to their more stable O-apical pseudorotamers (6) when they were heated in solution. X-ray analysis implied that this remarkable stability of the O-equatorial isomers could be attributed to the orbital interaction between the lone-pair electrons of the nitrogen atom (n(N)) and the antibonding sigma(P-O) orbital in the equatorial plane. A kinetic study of the isomerization of 5 to 6 and that between diastereomeric O-apical phosphoranes 13b-exo and 13b-endo revealed that 5b bearing an n-propylamino substituent at the central phosphorus atom was found to be less stable than the corresponding isomeric 6b by ca. 7.5 kcal mol(-1). This value was smaller than the difference in energy (11.9 kcal mol(-1)) between the O-equatorial (1b) and the O-apical n-butylphosphorane (2b) by 4.4 kcal mol(-1). This value of 4.4 kcal mol(-1) can be regarded as the stabilization energy induced by the n(N) --> sigma(P-O) interaction. The experimentally determined value was in excellent agreement with that derived from density functional theory (DFT) calculations at the B3PW91 level (4.0 kcal mol(-1)) between the nonsubstituted aminophosphoranes (5g is less stable than 6g by 10.1 kcal mol(-1)) and their P-methyl-substituted counterparts (1a is less stable than 2a by 14.1 kcal mol(-1)).

Amines↗

The structure and stability of biological metaphosphate, phosphate, and phosphorane compounds in the gas phase and in solution.

Density functional calculations of a series of metaphosphates, acyclic and cyclic phosphates and phosphoranes relevant to RNA catalysis are presented. Solvent effects calculated with three well-established solvation models are analyzed and compared. The structure and stability of the compounds are characterized in terms of thermodynamic quantities for isomerization and ligand substitution reactions, gas-phase proton affinities, and microscopic solution pK(a)() values. The large dataset of compounds allows the estimation of bond energies to determine the relative strengths of axial and equatorial P-O phosphorane single bonds and P-O single and double bonds in metaphosphates and phosphates. The relative apicophilicty of hydroxyl and methoxy ligands in phosphoranes are characterized. The results presented here provide quantitative insight into RNA catalysis and serve as a first step toward the construction of a high-level quantum database for development of new semiempirical Hamiltonian models for biological reactions

Catalysis↗

Chloro- and Fluoro-Substituted Phosphites, Phosphates, and Phosphoranes Exhibiting Sulfur and Oxygen Coordination(1).

New cyclic phosphoranes, O(2)S[Me(t-Bu)C(6)H(2)O](2)PCl(3) (1), O(2)S[Me(t-Bu)C(6)H(2)O](2)P(OC(6)H(4)-m-CF(3))(3) (2), and O(2)S[(t-Bu)(2)C(6)H(2)O](2)PCl(3) (3), containing sulfone donor groups and halogen substituents were synthesized by oxidative addition reactions of a diol with a tricoordinated phosphorus precursor. Cyclic phosphates, O(2)S[(t-Bu)(2)C(6)H(2)O](2)P(O)Cl (4) and O(2)S[Me(t-Bu)C(6)H(2)O](2)P(O)(OC(6)H(4)-m-CF(3)) (5), resulted from hydrolysis reactions of 3 and 2, respectively. Phosphate O(2)S[Me(t-Bu)C(6)H(2)O](2)P(O)(OC(6)F(5)) (6) was prepared from a known phosphorane precursor and independently from the reaction of an N-oxide molecule with a parent phosphite, O(2)S[Me(t-Bu)C(6)H(2)O](2)P(OC(6)F(5)). Two additional compounds containing a sulfur atom in place of the sulfone group, a cyclic phosphite, S[Me(2)C(6)H(2)O](2)P(OC(6)F(5)) (7), and a cyclic phosphate, S[Me(2)C(6)H(2)O](2)P(O)Cl (8), were synthesized. X-ray analysis and NMR data were obtained on all of these compounds to establish the role of electronegative ligands in promoting donor interaction. Compounds 1-3 were hexacoordinate as a consequence of oxygen atom coordination while 7 and 8 were trigonal bipyramidal due to sulfur atom coordination. The chlorine atom and the pentafluorophenoxy group promote similar degrees of coordination in these compounds. The results support the conclusion that the sulfur atom and oxygen atom of the sulfone group show similar coordination abilities in donor action with phosphoranes containing strongly electronegative ligands while in the presence of less electronegative ligands sulfur is the stronger coordinating agent. With phosphates and phosphites the sulfur atom exerts the stronger donor action independent of the electronegativity of the attached ligands.

Journal Article↗

Structure and binding of Mg(II) ions and di-metal bridge complexes with biological phosphates and phosphoranes.

Divalent Mg(2+) ions often serve as cofactors in enzyme or ribozyme-catalyzed phosphoryl transfer reactions. In this work, the interaction of Mg(2+) ions and di-metal bridge complexes with phosphates, phosphoranes, and other biological ligands relevant to RNA catalysis are characterized with density functional methods. The effect of bulk solvent is treated with two continuum solvation methods (PCM and COSMO) for comparison. The relative binding affinity for different biological ligands to Mg(2+) are quantified in different protonation states. The structure and stability of the single-metal and di-metal complexes are characterized, and the changes in phosphate and phosphorane geometry induced by metal ion binding are discussed. Di-metal bridge complexes are a ubiquitous motif and the key factors governing their electrostatic stabilization are outlined. The results presented here provide quantitative characterization of metal ion binding to ligands of importance to RNA catalysis, and lay the groundwork for design of new generation quantum models that can be applied to the full biological enzymatic systems.

Bridged-Ring Compounds↗

Effect of phosphonium salts and phosphoranes on the acetylcholinesterase activity and on the viability of Schistosoma mansoni parasites.

In this study we investigated the effects of a series of phosphonium salts and phosphoranes on the catalytic activity of acetylcholinesterase and on the viability of the various life stages of Schistosoma mansoni worms. All the tested compounds showed an inhibitory effect towards the S. mansoni acetylcholinesterase (AChE) activity. The most effective compound, p-xylylene bis(triphenylphosphonium) dibromide (No. 16) displayed approximately 100% inhibition at concentration of 10(-5)-10(-6)M. No significant difference was found in the sensitivity of the enzyme obtained from the various stages of the parasite life cycle to the effect of the drugs. Each compound was also tested for its toxicity towards 3 h old schistosomula and 7-9 week adult worms under in vitro culture conditions. In the case of the larvae, after 2 days in culture, only three compounds (Nos. 4, 11 and 12) out of sixteen tested exhibited efficient killing of the schistosomula while the others had a very slight toxic activity or no toxicity at all. On the other hand, all the compounds showed a significant toxicity towards the adult worms and the most effective one, allytriphenylphosphonium bromide (No. 11), retained its toxic effect even at an extremely high dilution (10(-8)M). However, the cumulative results in this paper do not demonstrate a significant correlation between the inhibitory effect of the phosphonium salts and phosphoranes on the AChE activity of the schistosomes and their toxicity towards the worms. The LD50 value (i.v.) of the compound which showed the highest toxic effect in vitro (No. 11) was found to be 30 +/- 1.7 mg/kg in mice.(ABSTRACT TRUNCATED AT 250 WORDS)

Acetylcholinesterase↗

Characteristic reactions and properties of C-apical O-equatorial (O-cis) spirophosphoranes: effect of the sigma(P)(-)(O) orbital in the equatorial plane and isolation of a hexacoordinate oxaphosphetane as an intermediate of the Wittig type reaction of 10-P-5 phosphoranes.

Novel spirophosphoranes (O-cis) that exhibit reversed apicophilicity having an apical carbon-equatorial oxygen array in a five-membered ring showed enhanced reactivity toward nucleophiles such as n-Bu(4)N(+)F(-) or MeLi in comparison with the corresponding stable isomeric spirophosphoranes (O-trans) having an apical oxygen-equatorial carbon configuration. The enhanced reactivity of the O-cis isomer could be explained by the presence of a lower-lying sigma(P)(-)(O(equatorial)) orbital as the reacting orbital in the equatorial plane, whereas the corresponding orbital is a higher-lying sigma(P)(-)(C(equatorial)) in the O-trans isomer. Density functional theory (DFT) calculation on the actual compounds provided theoretical support for this assumption. In addition, we found that the benzylic anion alpha to the phosphorus atom in O-cis benzyl phosphorane is much more stable than that generated from the corresponding O-trans compounds. The experimental results were considered to be due to the n(C) --> sigma(P)(-)(O) interaction in the O-cis anion, and this was confirmed by DFT calculations. Furthermore, the hexacoordinate anionic species derived from the reaction of the benzylic anion from O-cis benzylphosphorane with an aldehyde was also found to be stabilized as compared with analogous species from the corresponding O-trans isomer. The first X-ray structural characterization of a hexacoordinate phosphate intermediate in the Wittig type reaction using pentacoordinate phosphoranes is reported.

Aldehydes↗

Synthesis and hydrolysis of a phenylalanyl adenylate pentacoordinated phosphorane.

Amino acid-nucleotide conjugates have important biological functions and therapeutic applications. For example, aminoacyl adenylates are key intermediates in aminoacyl tRNA synthetase reactions. They may also be involved in the prebiotic synthesis of polypeptides. Finally, various amino acid carbomethoxy aryl phosphoramidates of nucleotide prodrugs may be activated through a mechanism involving a pentacoordinated phosphorane intermediates. In order to understand better the chemistry of these compounds, a phenylalanyl adenylate pentacoodinated phosphorane has been synthesized in 72% yield and its decomposition in aqueous solution studied. Hydrolysis gave 2('),3(')-O-isopropylidene adenosine 5(')-monophosphate, 2('),3(')-O-isopropylidene adenosine, and phenylalanine. The results provide model chemistry for the enzymatic degradation mechanism of antiviral aryl amino acid phosphodiester amidates in cells, which leads to their activation.

Adenosine Monophosphate↗

Convenient solid-phase synthesis of oligopeptides using pentacoordinated phosphoranes with amino acid residue as building blocks.

The reactive intermediates of pentacoordinated phosphoranes with amino acids (P(5)-AA) as building blocks, which were obtained by the reaction of O-phenylene phosphorochloridate with N,O-bis(trimethylsilyl)amino acids, were linked to a solid-phase support containing a hydroxymethyl polystyrene functional group. The first amino acid residue was coupled to the solid-phase support after washing the resin with organic solvent. Repeating the procedure led to oligopeptides linked on the resin. A series of free oligopeptides including tetra-Gly, di-Val, tri-Val, di-Leu, di-Phe, and Phe-Leu were obtained after cleavage from solid-phase support. The structure of these oligopeptides were determined by IR, (1)H NMR, FAB-MS, and HPLC.

Amino Acids↗

Chemical confirmation of a pentavalent phosphorane in complex with beta-phosphoglucomutase.

This communication reports the X-ray crystal structure of the alpha-d-galactose-1-phosphate complex with that of Lactococcus lactis beta-phosphoglucomutase (beta-PGM) crystallized in the presence of Mg2+ cofactor and the enzyme-to-phosphorus ratio determined by protein and phosphate analyses of the crystalline complex. The 1:1 ratio determined for this complex was compared to the 1:2 ratio determined for the crystals of beta-PGM grown in the presence of substrate and Mg2+ cofactor. This result verifies the published structure assignment of this latter complex as the phosphorane adduct formed by covalent bonding between the active site Asp8 carboxylate to the C(1)phosphorus of the beta-glucose 1,6-bisphosphate ligand and rules out the proposal of a beta-PGM-glucose-6-phosphate-1-MgF3- complex.

Galactosephosphates↗

[ReO3(bipy)]+[X]--catalyzed aldehyde olefination: carbene and phosphorane intermediates.

The aldehyde olefination reaction, catalyzed by cationic high-valent oxorhenium complexes, shows evidence of the intermediacy of both carbene complexes and phosphoranes. The solution-phase reaction is facile and amenable to tuning and is, hence, likely to prove to be of practical significance. Individual steps in the catalytic cycle are observed in the gas phase. Catalytic competence of each of the putative intermediates can be demonstrated.

Journal Article↗

Reactivity of 1-hydro-5-carbaphosphatrane based on tautomerization between pentavalent phosphorane and trivalent cyclic phosphonite.

The reaction behavior of 1-hydro-5-carbaphosphatrane (1 a) was examined. Treatment of 1 a with oxidants such as 3-chloroperoxybenzoic acid (mCPBA) and tBuOCl gave cyclic phosphonate 2 and 1-chloro-5-carbaphosphatrane (4), respectively, via cyclic phosphonite 3, a tautomer of 1 a. Compound 4 was readily hydrolyzed to afford 2. Compound 1 a was also sulfurized via 3 by elemental sulfur to afford cyclic thioxophosphonate 5, which was also obtained by reactions in the presence of bases. Treatment of 1 a with bases also proceeded through 3 to give an equilibrium mixture of the corresponding phenoxide anion 10 and the phosphoranide anion 9, which was quenched with MeI to afford a mixture of 11 and 1-methyl-5-carbaphosphatrane (1 b). Such reactivities are typical for neutral phosphoranes. Theoretical investigations of these reactivities were also performed.

Journal Article↗