Novel bifunctional acridine-acridinium conjugates: synthesis and study of their chromophore-selective electron-transfer and DNA-binding properties

Novel bifunctional conjugates 1-3, with varying polymethylene spacer groups, were synthesized, and their DNA interactions have been investigated by various biophysical techniques. The absorption spectra of these systems showed bands in the regions of 300-375 and 375-475 nm, corresponding to acridine and acridinium chromophores, respectively. When compared to 1 (Phi(f) = 0.25), bifunctional derivatives 2 and 3 exhibited quantitative fluorescence yields (Phi(f) = 0.91 and 0.98) and long lifetimes (tau = 38.9 and 33.2 ns). The significant quenching of fluorescence and lifetimes observed in the case of 1 is attributed to intramolecular electron transfer from the excited state of the acridine chromophore to the acridinium moiety. DNA-binding studies through spectroscopic investigations, viscosity, and thermal denaturation temperature measurements indicate that these systems interact with DNA preferentially through intercalation of the acridinium chromophore and exhibit significant DNA association constants (K(DNA) = 10(5)-10(7) M(-1)). Compound 1 exhibits chromophore-selective electron-transfer reactions and DNA binding, wherein only the acridinium moiety of 1 interacts with DNA, whereas optical properties of the acridine chromophore remain unperturbed. Among bifunctional derivatives 2 and 3, the former undergoes DNA mono-intercalation, whereas the latter exhibits bis-intercalation; however both of them interact through mono-intercalation at higher ionic strength. Results of these investigations demonstrate that these novel water-soluble systems, which exhibit quantitative fluorescence yields, chromophore-selective electron transfer, and DNA intercalation, can have potential use as probes in biological applications.     

一种新的DNA探针-2-(N-二茂铁酰氨丙氧基)-6-氯-9-氨基吖啶的合成与性质

本文合成了一种含二茂铁侧基的DNA荧光探针-2-(N-二茂铁酰氨丙氧基)-6-氯-9-氨基吖啶, 并对该化合物的紫外可见光谱, 荧光光谱, NMR谱以及它和小牛胸腺DNA的作用与二茂铁侧基的吖啶作了比较和讨论。     

DNA cleavage activity of Fe(II)N4Py under photo irradiation in the presence of 1,8-naphthalimide and 9-aminoacridine: unexpected effects of reactive oxygen species scavengers

The DNA cleavage activity of the iron(II) complex of the ligand N,N-bis(2-pyridylmethyl)-N-bis(2-pyridyl)methylamine (N4Py) was investigated in the presence of the chromophores 1,8-naphthalimide (NI) and 9-aminoacridine (AA) under photo irradiation at 355 and 400.8 nm and compared to the activity of the complex without the chromophores. Whereas in most cases no synergistic effect of the added chromophores on DNA cleavage efficiency was observed, it was found that for Fe(II)N4Py, in combination with NI under irradiation at 355 nm, the DNA cleavage activity was increased. Surprisingly, it was found that the addition of reactive oxygen species (ROS) scavengers gave rise to significantly increased DNA cleavage efficiency, which is a highly counterintuitive observation since ROS are needed to achieve DNA cleavage. A hypothesis is put forward to explain, at least partly, these results. It is proposed that the addition of scavengers inhibits quenching of (3)NI*, thus making photo-induced electron transfer between (3)NI* and Fe(III)N4Py more efficient. This results in reduction of Fe(III)N4Py to Fe(II)N4Py, which can then react with ROS giving rise to DNA cleavage. Hence the role of the scavengers is to maintain a close to optimal concentration of ROS. The present study serves as an illustration of the care that needs to be exercised in interpreting the results of experiments using standard ROS scavengers, since especially in complex systems such as presented here they can give rise to unexpected phenomena. In the presence of 1,8-naphthalimide or 9-aminoacridine, ROS scavengers can increase the DNA cleavage efficiency of Fe(II)N4Py complex under photo irradiation.     

Luminol-K2S2O8体系中金属离子化学发光行为的研究

报导了在自行设计的流动注射式化学发光分析仪上,对Luminal-K2S2O8体系中32种金属离子的化学发光行为的系统研究.确定了对金属离子的最优测定条件以及大多数金属离子的检出极限和线性范围.     

Unexpected reactivity of the 9-aminoacridine chromophore in guanidylation reactions

The 9-aminoacridine chromophore is an important building block of DNA-targeted chemotherapeutic agents. The success of 1-[2-(acridin-9-ylamino)ethyl]-1,3-dimethylthiourea as a carrier group in cytotoxic platinum-intercalator conjugates prompted us to explore the synthesis of an analogous guanidine-functionalized acridine. In a successful effort to generate such a derivative, various methods of guanidylation were employed, which demonstrate that the acridine C9-N9 linkage is highly susceptible to electrophilic and nucleophilic attack. The newly established reactivities provide efficient pathways to novel cyclic and spirocyclic acridine derivatives.     

DNA‐Based Oligochromophores as Light‐Harvesting Systems

The chromophores ethynyl pyrene as blue, ethynyl perylene as green and ethynyl Nile red as red emitter were conjugated to the 5‐position of 2′‐deoxyuridine via an acetylene bridge. Using phosphoramidite chemistry on solid phase labelled DNA duplexes were prepared that bear single chromophore modifications, and binary and ternary combinations of these chromophore modifications. The steady‐state and time‐resolved fluorescence spectra of all three chromophores were studied in these modified DNA duplexes. An energy‐transfer cascade occurs from ethynyl pyrene over ethynyl perylene to ethynyl Nile red and subsequently an electron‐transfer cascade in the opposite direction (from ethynyl Nile red to ethynyl perylene or ethynyl pyrene, but not from ethynyl perylene to ethynyl pyrene). The electron‐transfer processes finally provide charge separation. The efficiencies by these energy and electron‐transfer processes can be tuned by the distances between the chromophores and the sequences. Most importantly, excitation at any wavelength between 350 and 700 nm finally leads to charge separated states which make these DNA samples promising candidates for light‐harvesting systems.     

Syntheses of Conjugated Polymers for Photonics

Summary: By the Suzuki coupling reaction of 9,9-dioctyl-2,7-bis(1,3,2-dioxaborinan-2-yl)fluorene ( I ) and 3,5-di-tert-butylphenyl 2,5-dibromobenzenesulfonate ( II ) the alternating poly{[9,9-dioctylfluoren-2,7-diyl]-alt-[2-(3,5-di-tert-butyl-phenoxysulfonyl)-1,4-phenylene]} ( III ) was synthesized. Alkaline hydrolysis of III gave a conjugated polyelectrolyte carrying sulfonic acid groups ( IV ). Monomers 2,5-dibromo-3-[2-(pyren-1-yl)vinyl]thiophene and 2,5-dibromo-3-[2-(quinolin-4-yl)vinyl)thiophene were prepared and copolymerized with I to afford poly{[9,9-dioctylfluoren-2,7-diyl]-alt-[3-(2-(pyren-1-yl)vinyl)thiophen-2,5-diyl]} ( V ) and poly{[9,9-dioctylfluoren-2,7-diyl]-alt-[3-(2-(quinolin-4-yl)-vinyl)thiophen-2,5-diyl] ( VI ), respectively. Conjugated backbone of V contains the conjugated pyrene unit in the side chain. Similarly the side chain of VI contains the conjugated quinoline structure unit which can be for instance protonated. By the Suzuki polycondensation reaction of I and of the prepared methyl 3-(2,7-dibromocarbazole-9-yl)propionate ( VII ) the new poly{[9,9-dioctylfluorene-2,7-diyl]-alt-[9-(2-methoxycarbonylethyl)carbazole-2,7-diyl]} ( VIII ) was synthesized and characterized.     

Elaboration of covalently linked polyoxometalates with ruthenium and pyrene chromophores and characteriation of their photophysical properties

Keggin and Dawson-type polyoxometalates (POMs) decorated by organometallic [cyclometalated ruthenium(II) polypyridine complex] or organic (pyrene) chromophores were prepared by postfunctionalization of hybrid disilylated POM platforms. The connection is made in a very efficient and modular way via Sonogashira coupling reactions, which provide a rigid linkage between the POM and the photoactive centers. Electronic properties have been inferred from electrochemical and photophysical studies and reflect poor electronic interactions between both partners. The presence of the POM leads to luminescence quenching of the chromophores, which was attributed to an intramolecular electron transfer from the chromophore to the POM. The rate of this process is much faster in the POM-pyrene than in the POM-Ru system. It depends on the driving force dictated by the redox potentials of both partners but also in the case of the POM-Ru system on the presence of the metallacycle, which acts as a molecular insulator and delays the intramolecular electron transfer. In the POM-Ru system, a comparative study of the luminescence quenching showed that the electron transfer is still more important in the covalently bonded hybrids than in systems where the POM and the ruthenium complexes are assembled via electrostatic interactions.     

Probing the interior of peptide amphiphile supramolecular aggregates

We present a study of the aqueous solvation within self-assembled structures formed from peptide amphiphiles. We have placed tryptophan and pyrene chromophores onto the peptide backbone to enable spectroscopic examinations of the interior of the resulting supramolecular objects. Self-assembly constrains the chromophores to a defined location within an aggregate, and they experience differing degrees of quencher penetration reflective of their depth within the nanostructure. Tryptophan fluorescence indicates that the interiors remain well-solvated, suggesting that the supramolecular aggregates maintain high degrees of free volume. The Stern-Volmer quenching constants and the fractional accessibility (of covalently bound pyrene) progressively increase as the chromophore is placed closer to the aggregate exterior. Furthermore, these aggregates encourage chromophore uptake from aqueous solution as evidenced by the solubilization of free pyrene chromophores. Our findings demonstrate that covalently bound fluorophores within an aggregate can interact with the external environment. Studies with small molecular probes indicate that these self-assembled architectures may represent viable vehicles to sequester hydrophobic, insoluble organic molecules (within the interior) and to present signaling protein epitopes to cells (on the periphery).     

A DNA–Fullerene Conjugate as a Template for Supramolecular Chromophore Assemblies: Towards DNA‐Based Solar Cells

A fullerene was covalently attached to a (dA)₂₀ template that serves as structural scaffold to self‐assemble an ordered and mixed array of ethynyl‐pyrene‐ and ethynyl‐Nile‐red‐nucleoside conjugates. Fluorescence spectroscopy revealed evidence for energy transfer between the two different chromophores. Moreover, fluorescence quenching is significantly enhanced by the attached fullerene in mixed assemblies of different chromophore ratios. This indicates exciton dissociation by electron transfer from the photo‐generated exciton on the chromophore stack to the fullerene. The fullerene–DNA‐conjugate was integrated as a photo‐active layer in solar cells that showed charge‐carrier generation in the spectral regime of all three components of the conjugate. This work clearly demonstrates that DNA is suitable as structural element for chromophore assemblies in future organic optoelectronic devices, such as solar cells.     

Tunable DNA photocleavage by an acridine-imidazole conjugate

We report the synthesis and characterization of photonucleases N,N'-bis[2-[bis(1H-imidazol-4-ylmethyl)amino]ethyl]-3,6-acridinediamine (7) and N-[2-[bis(1H-imidazol-4-ylmethyl)amino]ethyl]-3,6-acridinediamine (10), consisting of a central 3,6-acridinediamine chromophore attached to 4 and 2 metal-coordinating imidazole rings, respectively. In DNA reactions employing 16 metal salts, photocleavage of pUC19 plasmid is markedly enhanced when compound 7 is irradiated in the presence of either Hg(II), Fe(III), Cd(II), Zn(II), V(V), or Pb(II) (low-intensity visible light, pH 7.0, 22 degrees C, 8-50 microM 7). We also show that DNA photocleavage by 7 can be modulated by modifying buffer type and pH. Evidence of metal complex formation is provided by EDTA experiments and by NMR and electrospray ionization mass spectral data. Sodium azide, sodium benzoate, superoxide dismutase, and catalase indicate the involvement of type I and II photochemical processes in the metal-assisted DNA photocleavage reactions. Thermal melting studies show that compound 7 increases the Tm of calf thymus DNA by 10 +/- 1 degrees C at pH 7.0 and that the Tm is further increased upon the addition of either Hg(II), Cd(II), Zn(II), or Pb(II). In the case of Fe(III) and V(V), a colorimetric assay demonstrates that compound 7 sensitizes one electron photoreduction of these metals to Fe(II) and V(IV), likely accelerating the production of type I reactive oxygen species. Our data collectively indicate that buffer, pH, Hg(II), Fe(III), Cd(II), Zn(II), V(V), Pb(II), and light can be used to "tune" DNA cleavage by compound 7 under physiologically relevant conditions. The 3,6-acridinediamine acridine orange has demonstrated great promise for use as a photosensitizer in photodynamic therapy. In view of the distribution of iron in living cells, compound 7 and other metal-binding acridine-based photonucleases should be expected to demonstrate excellent photodynamic action in vivo.     

Fluorescence Quenching by Intercalation of a Pyrene Group Tethered to an N4‐modified Cytosine in Duplex DNA

A series of duplex DNA oligomers was prepared that contain a pyrene chromophore linked by a trimethylene chain (‐(CH₂)₃‐) to N⁴ of a cytosine. The pyrene group stabilizes the DNA as evidenced by an increase in melting temperature. The absorption spectrum of the linked pyrene chromophore shows a temperature‐dependent shift and there is also a strong induced circular dichroism spectrum attributed to the pyrene group. The fluorescence of the pyrene chromophore is strongly quenched at room temperature by linkage to the DNA, but it increases above the melting temperature. We attribute these observations to intramolecular intercalation of the pyrene group at a base pair adjacent to its linkage site at cytosine.     

Synthesis and antitumor activity of fused quinoline derivatives

Some tetracyclic quinolines (9 and 14) with a [2-methoxy-4-[(methylsulfonyl)amino]phenyl]amino side chain were prepared and their deoxyribonucleic acid (DNA) intercalative properties, KB cytotoxicity, antitumor activity (P388 leukemia), and ability to induce topoisomerase II dependent DNA cleavage were investigated. The indoloquinoline derivative 9 exhibited the most potent activity (dose = 6.3 mg, T/C% = 300) in this series. The steric structural features of the chromophores of the compounds previously and newly synthesized were studied by a computer-associated molecular graphics technique. Relationships between the steric structural features of the chromophores and biological activities are also discussed.     

Photochemical and Photobiotogical Studies with Acridine and Phenanthridine Hydroperoxides in Cell-free DNA

Abstract— The acridine and phenanthridine hydroperoxides 3 and 7 were synthesized as photochemical hydroxyl radical sources for oxidative DNA damage studies. The generation of hydroxyl radicals upon UVA irradiation (Λ. = 350 nm) was verified by trapping experiments with 5,5-di-methyl-1-pyrroline N -oxide and benzene. The enzymatic assays of the damage in cell-free DNA from bacteriophage PM2 caused by the acridine and phenanthridine hydroperoxides 3 and 7 under near-UVA irradiation revealed a wide range of DNA modifications. Particularly, extensive single-strand break formation and DNA base modifications sensitive to formamidopyrimidine DNA glycosylase (Fpg protein) were observed. In the photooxida-tion of calf thymus DNA, up to 0.69±0.03% 8-oxo-7,8-dihydroguanine was formed by the hydroperoxides 3 and 7 on irradiation, whose yield was reduced up to 40% in the presence of the hydroxyl radical scavengers mannitol and fert-butanol. The acridine and phenanthridine hydroperoxides 3 and 7 also induce DNA damage through the type I photooxidation process, for which photoinduced electron transfer from 2'-deoxyguanosine to the singlet states of 3 and 7 was estimated by the Rehm-Weller equation to possess a negative Gibb's free energy of cα -5 kcal/ mol. Control experiments with the sensitizers acridine 1 and the acridine alcohol 4 in calf thymus and PM2 DNA confirmed the photosensitizing propensity of the UVA-ab-sorbing chromophores. The present study emphasizes that for the development of selective and efficient photochemical hydroxyl radical sources, chromophores with low photosensitizing ability must be chosen to avoid type I and type II photooxidation processes.     

Polarographic study of acridine and 9-chloroacridine and its derivatives in dimethylformamide

Polarographic data on the reduction of acridine (I) and its 9-chloro (II), 2-methoxy-9-chloro (III), 4-methoxy-9-chloro (IV), 2-methyl-9-chloro (V), 4-methyl-9-chloro (VI), 2,9-dichloro (VII), and 4,9-dichloro (VIII) derivatives and a mechanism for the reduction are presented. In dimethylformamide (DMF) the polarographic reduction of acridine I takes place in two steps with participation of one electron in each step and the intermediate formation of an anion radical. Acridine II is reduced in four steps: The second and fourth waves correspond to the reduction of the heteroring, while the first and third waves are associated with detachment of a chlorine atom. The addition of phenol as a proton donor facilitates the reduction but does not affect the number of electrons consumed by the depolarizer during its reduction. A linear correlation between E_1/2 and the corresponding constants of quinoline is observed for acridines II, III, V, and VII; this made it possible to calculate the previously unknown constants for acridines that contain a substituent in the 4 position. The E_1/2 ¹ values for acridine II and its derivatives correlate with the rate constants for chemical dehalogenation.Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 12, pp. 1660–1665, December, 1978.     

Effect of spermine conjugation on the interaction of acridine with alternating purine-pyrimidine oligodeoxyribonucleotides studied by CD, fluorescence and absorption spectroscopies

We studied by electronic spectroscopies the interaction between double-stranded oligonucleotides containing either adenine-thymine or guanine-cytosine alternating sequences and N(1)-(acridin-9-yl)-1,16-diamino-4,8,13-triazahexadecane, which is a conjugated molecule formed by the covalent binding of spermine and 9-aminoacridine moieties via a trimethylene chain. Solutions containing the oligonucleotides and the conjugate, at different molar ratios, were studied by using electronic absorption, fluorescence emission and circular dichroism. Calculated association constants and fluorescence emission spectra showed that spermine conjugation induces sequence selectivity. The orientation of the intercalated acridine rings with respect to the oligonucleotide base planes was deduced from the electronic circular dichroism spectra. Evidence of the formation of spermine-induced aggregated structures, with potential applications to DNA packaging, gene therapy and anti-tumor therapy, was also achieved. Our data demonstrates that this spermine-acridine conjugate adds several specific characteristics provided by the polyamine moiety, as sequence selectivity, to the interesting properties of acridine derivatives.     

The effect of polyamine homologation on the transport and cytotoxicity properties of polyamine-(DNA-intercalator) conjugates

An efficient five-step synthetic method was developed to access a homologous series of spermidine-acridine and spermidine-anthracene conjugates. The derivatives were comprised of a spermidine fragment covalently tethered at its N4 position to either an acridine or anthracene nucleus via an aliphatic chain (e.g., spermidine-[aliphatic tether]-acridine). The distance separating the spermidine and aromatic nucleus was altered by using different tethers comprised of four or five methylene units, respectively. These ligands (2-5) were shown to inhibit human DNA topoisomerase-II (TOPO-II) activity at 10 microM. Enzymatic activity was assessed as the ability to unknot (decatenate) and cleave kinetoplast DNA (kDNA). Polyamine conjugation did not disrupt the ability of the acridine-spermidine conjugates 2 and 3 to inhibit TOPO-II activity as compared with the 9-aminoacridine and 9-(N-butyl)aminoacridine controls (at 10 microM). In general, the acridine derivatives (2 and 3) showed higher TOPO-II inhibitory activity than their anthracene counterparts (4 and 5). However, this trend was reversed in a whole cell assay with L1210 (murine leukemia) cells, wherein the anthracene analogues were more potent than their acridine counterparts. In this regard the qualitative enzyme-based assay did not predict the trends in the corresponding IC(50) values. Within either series insertion of an additional methylene unit did not significantly alter activity. While the appended spermidine unit did not disrupt TOPO II inhibition by the tethered DNA intercalator, it did provide an alternative mode of entry into the cell as demonstrated by spermidine protection assays. These results were compared with a spermine-intercalator analogue. Of all the conjugates tested the N(4)-(4-(9-aminoacridinyl)butyl)spermine hexahydrochloride (conjugate 16)resulted in the highest degree of L1210 cell rescue upon cotreatment of the cells with exogenous spermidine. It was concluded that the monoalkylated spermine motif present in 16 holds promise as a better vector than its N4 monoalkylated spermidine counterpart.     

Excited-state intramolecular charge transfer in 9-aminoacridine derivative

A new fluorochromic dye was obtained from the reaction of 9-aminoacridine with ethyl-2-cyano-3-ethoxyacrylate. It displays complex fluorescence that is ascribed to normal emission from the acridine chromophore in addition to excited-state intramolecular charge transfer (ESICT) formed upon light excitation. The analysis of the fluorescence decays in different solvents reveals two short-lived components in the range of 80-450 ps and 0.7-3.2 ns, ascribed to the formation and decay of the intramolecular charge transfer (ICT) state, in addition to a third component of about 9.0 ns, which is related to the normal emission from the acridine singlet excited state, probably in an enol-imine tautomeric form. The ICT emission is readily quenched by water addition to polar solvents, and this effect is ascribed to changes in the keto-amine/enol-imine equilibrium of this fluorochromic dye.     

Reductions by titanium(II) as catalyzed by titanium(IV)

The cobalt(III) complexes, [(NH3)5CoBr]2+ and [(NH3)5CoI]2+ are reduced by Ti(II) solutions containing Ti(IV), generating nearly linear (zero-order) profiles that become curved only during the last few percent of reaction. Other Co(III)-Ti(II) systems exhibit the usual exponential traces with rates proportional to [Co(III)]. Observed kinetics of the biphasic catalyzed Ti(II)-Co(III)Br and Ti(II)-Co(III)I reactions support the reaction sequence: [Ti(II)(H20)n]2+ + [Ti(IV)F5]- (k1)<==>(k -1) [Ti(II)(H2O)(n-1)]2+ + [(H2O)Ti(IV)F5]-, [Ti(II)(H2O)(n-1)]2+ + Co(III) (k2)--> Ti(III) + Co(II) with rates determined mainly by the slow Ti(IV)-Ti(II) ligand exchange (k1 = 9 x 10(-3) M(-1) s(-1) at 22 degrees C). Computer simulations of the catalyzed Ti(II)-Co(III) reaction in perchlorate-triflate media yield relative rates for reduction by the proposed active [Ti(II)(H2O)(n-1)]2+ intermediate; k(Br)/k(I) = 8.     

STRUCTURAL DIFFERENCES BETWEEN PHYCOCYANIN and ALLOPHYCOCYANIN FROM THEIR RESONANCE RAMAN SPECTRA*

Abstract— Resonance Raman spectra of the chromophores of the cyanobacterial light-harvesting proteins phycocyanin (CPC) and allophycocyanin (APC) were recorded using 364 nm excitation. The1500–1700 cm^-1 regions of these spectra were analyzed for the pH-induced structural changes accompanying the disruption of the native trimers into monomers as well as the progressive denaturation of these monomers. Computer-assisted decomposition of the 1642 cm^-1 marker bands of these spectra yielded up to four components (named I-IV), the frequencies of which were constant within 5 cm^-1 (CPC) and 10 cm^-1 (APC). The relative intensities of two of these components, namely I and III, were sensitive to chromophore conformations. The previously reported downshift of the 1642 cm^-1 band upon folding of the chromophores was shown to result from a weakening of component I and a concomitant enhancement of component III. Components I-IV had different relative intensity patterns in CPC and APC spectra. In particular, the higher relative intensity of component I at 1646 cm^-1 indicated more extended average conformations of the chromophores in trimeric APC than in trimeric CPC. This difference likely resulted from the extra β-155 chromophore present in CPC. Component III was sizably active in RR spectra of monomelic APC but was not observed either in those of monomelic CPC or in those of trimeric APC and CPC. This indicated that, in APC monomers, chromophore(s) did not assume the native conformations found in the trimer, while monomer formation did not sizably alter the structures of the CPC chromophores.