Stabilization of G‐Quadruplex DNA,Inhibition of Telomerase Activity and Live Cell Imaging Studies of Chiral Ruthenium(II) Complexes

Telomerase inhibition is an attractive strategy for cancer chemotherapy. In the current study, we have synthesized and characterized two chiral ruthenium(II) complexes, namely, Λ‐[Ru(phen)₂(p‐MOPIP)]²⁺ and Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺, where phen is 1,10‐phenanthroline and p‐MOPIP is 2‐(4‐methoxyphenyl)‐imidazo[4,5f][1,10]phenanthroline. The chiral selectivity of the compounds and their ability to discriminate quadruplex DNA were investigated by using UV/Vis, fluorescence spectroscopy, circular dichroism spectroscopy, fluorescence resonance energy transfer melting assay, polymerase chain reaction stop assay and telomerase repeat amplification protocol. The results indicate that the two chiral compounds could induce and stabilize the formation of antiparallel G‐quadruplexes of telomeric DNA in the presence or absence of metal cations. We report the remarkable ability of the two complexes Λ‐[Ru(phen)₂(p‐MOPIP)]²⁺ and Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺ to stabilize selectively G‐quadruplex DNA; the former is a better G‐quadruplex binder than the latter. The anticancer activities of these complexes were evaluated by using the MTT assay. Interestingly, the antiproliferative activity of Λ‐[Ru(phen)₂(p‐MOPIP)]²⁺ was higher than that of Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺, and Λ‐[Ru(phen)₂(p‐MOPIP)]²⁺ showed a significant antitumor activity in HepG2 cells. The status of the nuclei in Λ/Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺‐treated HepG2 cells was investigated by using real‐time living cell microscopy to determine the effects of Λ/Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺ on intracellular accumulation. The results show that Λ/Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺ can be taken up by HepG2 cells and can enter into the cytoplasm as well as accumulate in the nuclei; this suggests that the nuclei were the cellular targets of Λ/Δ‐[Ru(phen)₂(p‐MOPIP)]²⁺.     

Photophysical Properties of Ruthenium(II) Polypyridyl DNA Intercalators: Effects of the Molecular Surroundings Investigated by Theory

The environmental effects on the structural and photophysical properties of [Ru(L)₂(dppz)]²⁺ complexes (L=bpy=2,2′‐bipyridine, phen=1,10‐phenanthroline, tap=1,4,5,8‐tetraazaphenanthrene; dppz=dipyrido[3,3‐a:2′,3′‐c]phenazine), used as DNA intercalators, have been studied by means of DFT, time‐dependent DFT, and quantum mechanics/molecular mechanics calculations. The electronic characteristics of the low‐lying triplet excited states in water, acetonitrile, and DNA have been investigated to decipher the influence of the environment on the luminescent behavior of this class of molecules. The lowest triplet intra‐ligand (IL) excited state calculated at λ≈800 nm for the three complexes and localized on the dppz ligand is not very sensitive to the environment and is available for electron transfer from a guanine nucleobase. Whereas the lowest triplet metal‐to‐ligand charge‐transfer (³MLCT) states remain localized on the ancillary ligand (tap) in [Ru(tap)₂(dppz)]²⁺, regardless of the environment, their character is drastically modified in the other complexes [Ru(phen)₂(dppz)]²⁺ and [Ru(bpy)₂(dppz)]²⁺ upon going from acetonitrile (MLCT_dppz/phen or MLCT_dppz/bpy) to water (MLCT_dppz) and DNA (MLCT_phen and MLCT_bpy). The change in the character of the low‐lying ³MLCT states accompanying nuclear relaxation in the excited state controls the emissive properties of the complexes in water, acetonitrile, and DNA. The light‐switching effect has been rationalized on the basis of environment‐induced control of the electronic density distributed in the lowest triplet excited states.     

Effect of the Ancillary Ligands on the Spectral Properties and G‐Quadruplexes DNA Binding Behavior: A Combined Experimental and Theoretical Study

In an effort to explore the effect of ancillary ligands on the spectral properties and overall G‐quadruplex DNA binding behavior, two new ruthenium(II) complexes [Ru(phen)₂(dppzi)]²⁺ ( 1 ) and [Ru(dmp)₂(dppzi)]²⁺ ( 2 ) (phen=1,10‐phenanthroline, dmp=2,9‐dimethyl‐1,10‐phenanthroline, dppzi=dipyrido[3,2‐a:2′,3′‐c]phenazine‐10,11‐imidazole) were prepared. Complex 1 can emit luminescence in the absence and presence of G‐quadruplexes DNA. However, with ?CH₃ substituent on the 2‐ and 9‐positions of the phen ancillary ligand, no detectable luminescence is observed for complex 2 in any organic solvent or in the absence and/or presence of G‐quadruplex DNA. Experimental and molecular docking studies indicated that both complexes interacted with the human telomeric repeat AG3(T2AG3)3 (22AG) G‐quadruplex with the stoichiometric ratio of 1:1, but the two complexes showed different G‐quadruplex DNA binding affinity. Complex 1 binds to the G‐quadruplexes DNA more tightly than complex 2 does. Our results demonstrate that methyl groups on the phen ancillary ligand significantly affect the spectral properties and the overall DNA binding behavior of the complexes. Such difference in spectral properties and DNA binding affinities of these two complexes can be reasonably explained by DFT/TD‐DFT calculations. This work provides guidance not only on exploring the G‐quadruplexes DNA binding behavior of complexes, but also understanding the unique luminescence mechanism.     

Ruthenium Complex “Light Switches” that are Selective for Different G‐Quadruplex Structures

Recognition and regulation of G‐quadruplex nucleic acid structures is an important goal for the development of chemical tools and medicinal agents. The addition of a bromo‐substituent to the dipyridylphenazine (dppz) ligands in the photophysical “light switch”, [Ru(bpy)₂dppz]²⁺, and the photochemical “light switch”, [Ru(bpy)₂dmdppz]²⁺, creates compounds with increased selectivity for an intermolecular parallel G‐quadruplex and the mixed‐hybrid G‐quadruplex, respectively. When [Ru(bpy)₂dppz‐Br]²⁺ and [Ru(bpy)₂dmdppz‐Br]²⁺ are incubated with the G‐quadruplexes, they have a stabilizing effect on the DNA structures. Activation of [Ru(bpy)₂dmdppz‐Br]²⁺ with light results in covalent adduct formation with the DNA. These complexes demonstrate that subtle chemical modifications of Ru^II complexes can alter G‐quadruplex selectivity, and could be useful for the rational design of in vivo G‐quadruplex probes.     

Tuning the Excited State of Water‐Soluble IrIII‐Based DNA Intercalators that are Isostructural with [RuII(NN)2(dppz)] Light‐Switch Complexes

The synthesis of two new Ir^III complexes which are effectively isostructural with well‐established [Ru(NN)₂(dppz)]²⁺ systems is reported (dppz=dipyridophenazine; NN=2,2′‐bipyridyl, or 1,10‐phenanthroline). One of these Ir^III complexes is tricationic and has a conventional N₆ coordination sphere. The second dicationic complex has a N₅C coordination sphere, incorporating a cyclometalated analogue of the dppz ligand. Both complexes show good water solubility. Experimental and computational studies show that the photoexcited states of the two complexes are very different from each other and also differ from their Ru^II analogues. Both of the complexes bind to duplex DNA with affinities that are two orders of magnitude higher than previously reported Ir(dppz)‐based systems and are comparable with Ru^II(dppz) analogues.     

Photodriven Multi‐electron Storage in Disubstituted RuII Dppz Analogues

Four derivatives of the laminate acceptor ligand dipyrido‐[3,2‐a:2′,3′‐c]phenazine (dppz) and their corresponding ruthenium complexes, [Ru(phen)₂(dppzX₂)]²⁺, were prepared and characterized by NMR spectroscopy, ESI‐MS, and elemental analysis. The new ligands, generically denoted dppzX₂, were symmetrically disubstituted on the distal benzene ring to give 10,13‐dibromodppz (dppz‐p‐Br), 11,12‐dibromodppz (dppz‐o‐Br), 10,13‐dicyanodppz (dppz‐p‐CN), 11,12‐dicyanodppz (dppz‐o‐CN). Solvated ground state MO calculations of the ruthenium complexes reveal that these electron‐withdrawing substituents not only lower the LUMO of the dppz ligand (dppz(CN)₂<dppzBr₂<dppz), but that the para disubstitution results in a lower LUMO than the ortho disubstitution (dppz‐p‐CN<(dppz‐o‐CN), and dppz‐p‐Br<dppz‐o‐Br). The validity of the calculations was confirmed experimentally using cyclic voltammetry. Of the complexes evaluated in this study, only the dicyanodppz complexes showed multiple dppz‐based reductions prior to reduction of the phen ligands. The capacity to form singly and doubly reduced dppz‐based anions at modest reduction potentials was confirmed using a combination of spectroelectrochemical and chemical titration methods. When subjected to photolysis with visible light in the presence of a sacrificial donor, such as triethylamine, both cyano complexes showed multi‐electron reduction. The other complexes only show a single reduction.     

Cobalt(III), nickel(II) and ruthenium(II) complexes of 1,10-phenanthroline family of ligands: DNA binding and photocleavage studies

DNA binding and photocleavage characteristics of a series of mixed-ligand complexes of the type [M(phen)₂LL]ⁿ⁺ (where M = Co(III), Ni(II) or Ru(II), LL = 1,10-phenanthroline (phen), phenanthroline-dione (phen-dione) or dipyridophenazine (dppz) andn = 3 or 2) have been investigated in detail. Various physico-chemical and biochemical techniques including UV/Visible, fluorescence and viscometric titration, thermal denaturation, and differential pulse voltammetry have been employed to probe the details of DNA binding by these complexes; intrinsic binding constants (K _b) have been estimated under a similar set of experimental conditions. Analysis of the results suggests that intercalative ability of the coordinated ligands varies as dppz>phen>phen-dione in this series of complexes. While the Co(II) and Ru(II) complexes investigated in this study effect photocleavage of the supercoiled pBR 322 DNA, the corresponding Ni(II) complexes are found to be inactive under similar experimental conditions. Results of detailed investigations carried out inquiring into the mechanistic aspects of DNA photocleavage by [Co(phen)₂(dppz)]³⁺ have also been reported.     

Detection of oncoprotein platelet-derived growth factor using a fluorescent signaling complex of an aptamer and TOTO

There have recently been advances in the application of aptamers, a new class of nucleic acids that bind specifically with target proteins, as protein recognition probes for biomedical study. The development of a signaling aptamer with the capability of simple and rapid real-time detection of disease-related proteins has attracted increasing interest. We have recently reported a new protein-detection strategy using a signaling aptamer based on a DNA molecular light-switching complex, [Ru(phen)₂(dppz)]²⁺. In this work we have used the commercially available DNA-intercalating dye, TOTO, to replace [Ru(phen)₂(dppz)]²⁺ for detection of oncoprotein platelet-derived growth factor BB (PDGF-BB), a potential cancer marker. Taking advantage of the high affinity of the aptamer to PDGF-BB and the sensitive fluorescence change of the aptamer–TOTO signaling complex on protein binding, PDGF-BB was detected in physiological buffer with high selectivity and sensitivity. The detection limit was 0.1 nmol L⁻¹, which was better than that of other reported aptamer-based methods for PDGF-BB, including that using [Ru(phen)₂(dppz)]²⁺. The method is very simple with no need for covalent labeling of the aptamer or probe synthesis. It facilitates wide application of the signaling mechanism to the analysis and study of cancer markers and other proteins.      

Charge separation in a ruthenium-quencher conjugate bound to DNA

A novel tris heteroleptic dipyridophenazine complex of ruthenium(II), [{Ru(phen)(dppz)(bpy'-his)}{Ru(NH3)5}]5+, containing a covalently tethered ruthenium pentammine quencher coordinated through a bridging histidine has been synthesized and characterized spectroscopically and biochemically in a DNA environment and in organic solvent. Steady-state and time-resolved luminescence measurements indicate that the tethered Ru complex is quenched relative to the parent complexes [Ru(phen)(dppz)(bpy')]2+ and [Ru(phen)(dppz)(bpy'-his)]2+ in DNA and acetonitrile, consistent with intramolecular photoinduced electron transfer. Intercalated into guanine-containing DNA, [{Ru(phen)(dppz)(bpy'-his)}{Ru(NH3)5}]5+, upon excitation and intramolecular quenching, is capable of injecting charge into the duplex based upon the EPR detection of guanine radicals. DNA-mediated charge transport is also indicated using a kinetically fast cyclopropylamine-substituted base as an electron hole trap. Guanine damage is not observed, however, in measurements using the guanine radical as the kinetically slower hole trap, indicating that back electron-transfer reactions are competitive with guanine oxidation. Moreover, transient absorption measurements reveal a novel photophysical reaction pathway for [{Ru(phen)(dppz)(bpy'-his)}{Ru(NH3)5}]5+ in the presence of DNA that is competitive with the intramolecular flash-quench process. These results illustrate the remarkably rich redox chemistry that can occur within a bimolecular ruthenium complex intercalated in duplex DNA.     

A bis(2,2′-Bipyridine) (Dipyrido[3, 2-a:2′ 3′-c]Phenazine-N4N5) Ruthenium(II)-Based Electrochemiluminescence Biosensor for Evaluation of DNA Damage

The electrochemiluminescence of bis(2, 2′-bipyridine) (dipyrido[3, 2-a:2′ 3′-c]phenazine-N₄N₅) ruthenium(II) ([Ru(bpy)₂(dppz)]²⁺) was used to monitor deoxyribonucleic acid (DNA) charge transfer with tri-n-propylamine as a coreactant. This system was used to measure damage to DNA induced by perfluorooctanoic acid. Fifteen-base pairs of double-stranded DNA with a thiol group at the 5′ end position were covalently bonded to a gold electrode. An electrochemiluminescence sensor was then constructed by incubating the modified gold electrode in [Ru(bpy)₂(dppz)]²⁺ solution for 30 min. For comparison, single-stranded DNA, well-matched double-stranded DNA, and single base-mismatched double-stranded DNA were assembled on the gold surface. The results showed that the electrochemiluminescence behavior of the DNA sensors were unique. The electrochemiluminescence decreased when the [Ru(bpy)₂(dppz)]²⁺-DNA ECL sensor was incubated in a perfluorooctanoic acid solution. The damage to DNA caused by perfluorooctanoic acid was monitored using a combination of DNA charge transfer theory and the interaction between DNA and [Ru(bpy)₂(dppz)]²⁺. The detection limit for perfluorooctanoic acid was 1 × 10^?12 mol/L. [Ru(bpy)₂(dppz)]²⁺ was shown to be a sensitive electrochemiluminescence sensor for the determination of DNA damage.     

Experimental and Theoretical Studies on DNA‐Binding and Spectral Properties of ‘Light Switch’ Complexes [Ru(L)2(ppn)]2+ (L=2,2′‐Bipyridine and 1,10‐Phenanthroline; ppn=Pteridino[6,7‐f] [1,10]phenanthroline‐11,13‐diamine)

The ligand pteridino[6,7‐f] [1,10]phenanthroline‐11,13‐diamine (ppn) and its Ru^II complexes [Ru(bpy)₂(ppn)]²⁺ ( 1 ; bpy=2,2′‐bipyridine) and [Ru(phen)₂(ppn)]²⁺ ( 2 ; phen=1,10‐phenanthroline) were synthesized and characterized by elemental analysis, electrospray MS, ¹H‐NMR, and cyclic voltammetry. The DNA‐binding behaviors of 1 and 2 were studied by spectroscopic and viscosity measurements. The results indicate that both complexes strongly bind to calf‐thymus DNA in an intercalative mode, with DNA‐binding constants K_b of (1.7±0.4)?10⁶ M ^?1 and (2.6±0.2)?10⁶ M ^?1, respectively. The complexes 1 and 2 exhibit excellent DNA‐‘light switch’ performances, i.e., they do not (or extremely weakly) show luminescence in aqueous solution at room temperature but are strongly luminescent in the presence of DNA. In particular, the experimental results suggest that the ancillary ligands bpy and phen not only have a significant effect on the DNA‐binding affinities of 1 and 2 but also have a certain effect on their spectral properties. [Ru(phen)₂(ppn)]²⁺( 2 ) might be developed into a very prospective DNA‐‘light switch’ complex. To explain the DNA‐binding and spectral properties of 1 and 2 , theoretical calculations were also carried out applying the DFT/TDDFT method.     

DNA Sequence and Ancillary Ligand Modulate the Biexponential Emission Decay of Intercalated [Ru(L)2dppz]2+ Enantiomers

The bi‐exponential emission decay of [Ru(L)₂dppz]²⁺ (L=N,N′‐diimine ligand) bound to DNA has been studied as a function of polynucleotide sequence, enantiomer, and nature of L (phenanthroline vs. bipyridine). The lifetimes (τ_i) and pre‐exponential factors (α_i) depend on all three parameters. With [poly(dA‐dT)]₂, the variation of α_i with [Nu]/[Ru] has little dependence on L for Λ‐[Ru(L)₂dppz]²⁺ but a substantial dependence for Δ‐[Ru(L)₂dppz]²⁺. With [poly(dG‐dC)]₂, by contrast, the Λ‐enantiomer α_i values depend strongly on the nature of L, whereas those of the Δ‐enantiomer are relatively unaffected. DNA‐bound linked dimers show similar photophysical behaviour. The lifetimes are identified with two geometries of minor‐groove intercalated [Ru(L)₂dppz]²⁺, resulting in differential water access to the phenazine nitrogen atoms. Interplay of cooperative and anti‐cooperative binding resulting from complex–complex and complex–DNA interactions is responsible for the observed variations of α_i with binding ratio. [Ru(phen)₂dppz]²⁺ emission is quenched by guanosine in DMF, which may further rationalise the shorter lifetimes observed with guanine‐rich DNA.     

DNA Interactions of the Functionalized (Mixed Polypyridine)ruthenium(II) Complex Bis(2,2′‐bipyridine‐κN1,κN1′)(methyl dipyrido[3,2‐a : 2′,3′‐c]phenazine‐11‐carboxylate‐κN4,κN5)ruthenium(2+) ([Ru(bpy)2(dppz‐11‐CO2Me)]2+)

A novel polypyridine ligand, dipyrido[3,2‐a:2′,3′‐c]phenazine‐11‐carboxylic acid methyl ester (=dppz‐11‐CO₂Me), and its ruthenium(II) complex, [Ru(bpy)₂(dppz‐11‐CO₂Me)]²⁺ ( 1 ), were synthesized and characterized. The binding properties of this complex to calf‐thymus DNA (CT‐DNA) were investigated by different spectrophotometric methods and viscosity measurements. The results suggest that the complex binds to DNA in an intercalative mode and serves as a molecular ‘light switch’ for DNA. When irradiated at 365 nm, the complex 1 promoted the photocleavage of plasmid pBR‐322 DNA.     

Reversal of a Single Base‐Pair Step Controls Guanine Photo‐Oxidation by an Intercalating Ruthenium(II) Dipyridophenazine Complex

Small changes in DNA sequence can often have major biological effects. Here the rates and yields of guanine photo‐oxidation by Λ‐[Ru(TAP)₂(dppz)]²⁺ have been compared in 5′‐{CCGG AT CCGG}₂ and 5′‐{CCGG TA CCGG}₂ using pico/nanosecond transient visible and time‐resolved IR (TRIR) spectroscopy. The inefficiency of electron transfer in the TA sequence is consistent with the 5′‐TA‐3′ versus 5′‐AT‐3′ binding preference predicted by X‐ray crystallography. The TRIR spectra also reveal the differences in binding sites in the two oligonucleotides.     

Synthesis, DNA-binding and photocleavage studies of [Ru(phen)2(pbtp)] and [Ru(bpy)2(pbtp)] (phen = 1,10-phenanthroline; bpy = 2,2′-bipyridine; pbtp = 4,5,9,11,14-pentaaza-benzo[b]triphenylene)

Based on the ligand dppz (dppz = dipyrido-[3,2-a:2′,3′-c]phenazine), a new ligand pbtp (pbtp = 4,5,9,11,14-pentaaza-benzo[b]triphenylene) and its polypyridyl ruthenium(II) complexes [Ru(phen)₂(pbtp)]²⁺ (1) (phen = 1,10-phenanthroline and [Ru(bpy)₂(pbtp)]²⁺ (2) (bpy = 2,2′-bipyridine) have been synthesized and characterized by elemental analysis, ES-MS and ¹H NMR spectroscopy. The DNA-binding of these complexes were investigated by spectroscopic methods and viscosity measurements. The experimental results indicate that both complexes 1 and 2 bind to CT-DNA in classical intercalation mode, and can enantioselectively interact with CT-DNA. It is interesting to note that the pbtp ruthenium(II) complexes, in contrast to the analogous dppz complexes, do not show fluorescent behavior when intercalated into DNA. When irradiated at 365 nm, both complexes promote the photocleavage of pBR 322 DNA.     

Luminescent Ruthenium(II) Polypyridyl Complexes as Nonviral Carriers for DNA Delivery

Two new luminescent ruthenium(II) polypyridyl complexes, [Ru(bpy)₂(tpt‐phen)]Cl₂ ( 1 ; bpy=2,2′‐bipyridine, tpt‐phen=triptycenyl‐1,10‐phenanthroline) and [Ru(phen)₂(tpt‐phen)]Cl₂ ( 2 ; phen=1,10‐phenanthroline), have been developed as potential nonviral vectors for DNA delivery. Photophysical and electrochemical properties of the complexes have been investigated and corroborated with electronic structure calculations. DNA condensation by these complexes has been investigated by UV/Vis and emission spectroscopy, circular dichroism spectroscopy, atomic force microscopy, dynamic light scattering, confocal microscopy, and electrophoretic mobility studies. These complexes interact with DNA and efficiently condense DNA into globular nanoparticles that are taken up efficiently by HeLa cells. DNA cleavage inability and biocompatibility of complexes have been explored. Both complexes have good gene transfection abilities.     

Synthesis,Characterization, and DNA Interaction Studies of the Ruthenium(II) Complexes [Ru(bpy)2(ipbp)]2+ and [Ru(ipbp)(phen)2]2+ (ipbp=3‐(1H‐Imidazo[4,5‐f][1,10]phenanthrolin‐2‐yl)‐4H‐1‐benzopyran‐2‐one; bpy=2,2′‐Bipyridine; phen=1,10‐Phenanthroline)

A novel ligand 3‐(1H‐imidazo[4,5‐f][1,10]phenanthrolin‐2‐yl)‐4H‐1‐benzopyran‐4‐one (ipbp) and its ruthenium(II) complexes [Ru(bpy)₂(ipbp)]²⁺ ( 1 ) and [Ru(ipbp)(phen)₂]²⁺ ( 2 ) (bpy=2,2′‐bipyridine, phen=1,10‐phenanthroline) were synthesized and characterized by elemental analysis and mass, ¹H‐NMR, and electronic‐absorption spectroscopy. The electrochemical behavior of the complexes was studied by cyclic voltammetry. The DNA‐binding behavior of the complexes was investigated by spectroscopic methods and viscosity measurements. The results indicate that complexes 1 and 2 bind with calf‐thymus DNA in an intercalative mode. In addition, 1 and 2 promote cleavage of plasmid pBR 322 DNA from the supercoil form I to the open circular form II upon irradiation.     

Ru(TAP)2(dppz)]2+: a DNA intercalating complex, which luminesces strongly in water and undergoes photo-induced proton-coupled electron transfer with guanosine-5'-monophosphate

The lowest excited state of [Ru(TAP)2(dppz)]2+ (TAP = 1,4,5,8-tetraazaphenanthrene, dppz = dipyrido[3,2-a:2',3'-c]phenazine) 1 is strongly luminescent, even in water, and very oxidizing. Therefore it is able to oxidise not only guanosine-5'-monophosphate (GMP), as demonstrated by laser flash photolysis, but also guanine-containing polynucleotides such as calf thymus DNA and [poly(dG-dC)]2. The luminescence quenching was found to be faster in H2O than in D2O, as is the back reaction, indicating that both processes probably proceed by proton-coupled electron transfer. These properties, that are controlled by the triplet MLCT state in which the charge has been transferred from the Ru to a TAP ligand, contrast with those of the well known [Ru(phen)2(dppz)]2+ 2.     

Synthesis, characterization and DNA-binding studies of ruthenium(II) mixed-ligand complexes containing dipyrido[1,2,5]oxadiazolo[3,4-b]quinoxaline

A novel ligand dipyrido[1,2,5]oxadiazolo[3,4-b]quinoxaline (dpoq) and its complexes [Ru(bpy)₂(dpoq)]²⁺ and [Ru(phen)₂(dpoq)]²⁺ (bpy = 2,2′-bipyridine; phen = 1,10-phenanthroline) have been synthesized and characterized by elemental analysis, electrospray mass spectra and ¹H NMR. The interaction of Ru(II) complexes with calf thymus DNA (CT-DNA) was investigated by absorption spectroscopy, fluorescence spectroscopy, thermal denaturation and viscosity measurements. Results suggest that two Ru(II) complexes bind to DNA via an intercalative mode.     

Caught in the Loop: Binding of the [Ru(phen)2(dppz)]2+ Light-Switch Compound to Quadruplex DNA in Solution Informed by Time-Resolved Infrared Spectroscopy

Ultrafast time-resolved infrared (TRIR) is used to report on the binding site of the [Ru(phen)₂(dppz)]²⁺ “light-switch” complex with both bimolecular (Oxytricha nova telomere) and intramolecular (human telomere) guanine-quadruplex structures in both K⁺ and Na⁺ containing solutions. TRIR permits the simultaneous monitoring both of the “dark” and “bright” states of the complex and of the quadruplex nucleobase bases, the latter via a Stark effect induced by the excited state of the complex. These data are used to establish the contribution of guanine base stacking and loop interactions to the binding site of this biologically relevant DNA structure in solution. A particularly striking observation is the strong thymine signal observed for the Na⁺ form of the human telomere sequence, which is expected to be in the anti-parallel conformation.