Syntheses, spectra and crystal structures of ruthenium(II) complexes with polypyridyl: [Ru(bipy)2(phen)](ClO4)2 · H2O and [Ru(bipy)2(Me-phen)](ClO4)2

Two ruthenium(II) complexes with polypyridyl, Ru(bipy)₂(phen)](ClO₄)₂·H₂O (1) and [Ru(bipy)₂(Me-phen)](ClO₄)₂ (2), (phen = 1,10-phenanthroline, bipy = 2,2′-bipyridine, Me-phen = 5-methyl-1,10-phenanthroline), were synthesized and characterized by IR, MS and NMR spectra. Their structures were determined by single crystal X-ray diffraction techniques. The strong steric interaction between the polypyridyl ligands was relieved neither by the elongation of the Ru---N bonds nor increase of the N---Ru---N bite angles. The coordination sphere was distorted to relieve the ligand interaction by forming specific angles (δ) between the polypyridyl ligand planes and coordination planes (N---Ru---N), and forming larger twisted angles between the two pyridine rings for each bipy. The bond distances of Ru---N(bipy) and Ru---N(phen) were virtually identical with experimental error, as expected of π back-bonding interactions which statistically involve each of the ligands present in the coordination sphere.     

[Ru(phen)2(dppz)] as an efficient optical probe for staining nuclear components

The ‘molecular light switch’ complexes [Ru(bpy)₂(dppz)]²⁺ (1) and [Ru(phen)₂(dppz)]²⁺ (2), where bpy = 2,2′-bipyridine, phen = 1,10-phenanthroline and dppz = dipyrido[3,2-a:2′,3′-c]phenazine, have been explored as probes for diagnosing and staining nuclear components. The phen complex acts as a better staining agent for nonviable cells than for viable cells and exhibits a staining efficiency in tail region of comet more specific and stronger than the already known dye Hoechst 33258.     

DNA-binding and photocleavage studies of [Ru(phen)2(NMIP)]

A novel ligand 2′-(2″-nitro-3″,4″-methylenedioxyphenyl)imidazo[4′,5′-f][1,10]-phenanthroline (NMIP) and its complex [Ru(phen)₂(NMIP)]²⁺ have been synthesized and characterized by mass spectroscopy, ¹H NMR and cyclic voltammetry. Binding of the complex with calf thymus DNA (CT DNA) has been investigated by spectroscopic methods, viscosity and electrophoresis measurements. The experimental results indicate that [Ru(phen)₂(NMIP)]²⁺ binds to DNA via partial intercalative mode and the individual enantiomers of it bind to DNA in different rates. [Ru(phen)₂(NMIP)]²⁺ has also been found to promote cleavage of plasmid pBR 322 DNA from the supercoiled Form I to the open circular Form II upon irradiation.     

Synthesis, DNA-binding and photocleavage studies of ruthenium complexes [Ru(bpy)2(mitatp)] and [Ru(bpy)2(nitatp)]

Two new ruthenium complexes [Ru(bpy)₂(mitatp)](ClO₄)₂1 and [Ru(bpy)₂(nitatp)](ClO₄)₂2 (bpy = 2,2′-bipyridine, mitatp = 5-methoxy-isatino[1,2-b]-1,4,8,9-tetraazatriphenylene, nitatp = 5-nitro-isatino[1,2-b]-1,4,8,9-tetraazatriphenylene) have been synthesized and characterized by elemental analysis, ¹H NMR, mass spectrometry and cyclic voltammetry. Spectroscopic and viscosity measurements proved that the two Ru(II) complexes intercalate DNA with larger binding constants than that of [Ru(bpy)₂(dppz)]²⁺ (dppz = dipyrido[3,2-a:2′,3′-c]phenazine) and possess the excited lifetime of microsecond scale upon binding to DNA. Both complexes can efficiently photocleave pBR322 DNA in vitro under irradiation. Singlet oxygen (¹O₂) was proved to contribute to the DNA photocleavage process, the ¹O₂ quantum yields was determined to be 0.43 and 0.36 for 1 and 2, respectively. Moreover, a photoinduced electron transfer mechanism was also found to be involved in the DNA cleavage process.     

Substituents effect on the electronic structure, spectra and photochemistry of [Ru(NH3)5(Py-X)] complexes

The diagrams of MLCT and d-d excited states of the complexes [Ru(NH₃)₅(py-X)]²⁺ are calculated using semiempirical CINDO/S method. Comparison of the relative energies of MLCT and d-d excited states leads to the understanding of the background of the rules, found earlier by Ford et al., that govern photochemical activity of the Ru(II) complexes under consideration.     

Halogenation of Ru(COD)(8-quinolinolate)2 and Ru(COD)(5-formyl-8-quinolinolate)2

An improved synthesis of Ru(COD)(8-quinolinolate)₂ (COD = 1,5-cyclooctadiene) and the synthesis of Ru(COD)(5-formyl-8-quinolinolate)₂ is reported. Electrophilic halogenation of these complexes with N-halosuccinimides proceeded smoothly resulting in 5,7-dihalogenation of the quinolinolate ligands in Ru(COD)(8-quinolinolate)₂ and in 7-halogenation of Ru(COD)(5-formyl-8-quinolinolate)₂. All compounds exhibit strong absorbance in the visible up to 500 nm, resulting in an intensively yellow colour. With all complexes no luminescence was observed.     

Synthesis and DNA threading properties of quaternary ammonium [Ru(phen)2(dppz)] derivatives

Ruthenium complexes with one dipyrido[3,2-a:2′-3′-c]phenazine (dppz) ligand, e.g. [Ru(phen)₂(dppz)]²⁺ (phen = phenanthroline), shows strong binding to double helical DNA and are well-known DNA “light-switch” molecules. We have here investigated four new [Ru(phen)₂(dppz)]²⁺ derivatives with different bulky quaternary ammonium substituents on the dppz ligand to find relationships between molecular structure and intercalation kinetics, which is considered to be of importance for antitumor applicability. Linear dichroism spectroscopy shows that the enantiomers of the new complexes exhibit very similar binding geometries (intercalation of dppz moiety between adjacent DNA base pairs) as the enantiomers of the parent [Ru(phen)₂(dppz)]²⁺ complex. Absorption spectra and luminescence properties provide further evidence for a final intercalative binding mode which has to be reached by threading of a bulky moiety between the strands of the DNA. Δ-enantiomers of all the new complexes show much slower association and dissociation kinetics than that of a reference complex without a cationic substituent. Kinetics were not very different whether the bulky quaternary group was derived from hexamethylene tetramine or 1,4-diazabicyclo-(2,2,2)octane (DABCO) or whether it had one or two positive charges. However, a complex in which the hexamethylene tetramine substituent is attached via a phenyl group showed a lowered association rate, in addition to an improved quantum yield of luminescence. A second positive charge on the DABCO substituent resulted in a much slower dissociation rate, suggesting that the distance from the Ru-centre and the amount of charge are both important for threading intercalation kinetics.     

Studies on electronic structures and related properties of [Ru(bpy)2(dpq)] and its 9,9′-substituted derivates with DFT method

Studies on electronic structures and related properties of [Ru(bpy)₂(dpq)]²⁺ and its 9,9′-substituted derivates are carried out using DFT method at B3LYP/LanL2DZ level. The substituent effects caused by the electron-pushing group (OH) and the electron-withdrawing groups (F) on the electronic structures and its related properties, e.g. the energies and components of some frontier molecular orbitals, the spectral properties, and the net charge populations of some main atoms of the complexes, etc. have been investigated. The computational results show that: first, the substituents have some important effects on the first excited state properties. Both electron-withdrawing group (F) and the electron-pushing group (OH) can all activate the main ligand and passivate the co-ligands in the first excited states of [Ru(bpy)₂(9,9′-2R-dpq)]²⁺, and both can lead to a little red shift in the electronic ground bands of the substitutive derivates, respectively, in particular, the electron-pushing group (OH) can lead to that more. Secondly, the most negative charges are populated on N1 or N5, and the next most negative charges are populated on C8 among all atoms of aromatic ring skeleton. In addition, the substituents have slight effects on coordination-bond lengths of complexes. The above theoretical results should be important to further inquire into the interaction mechanism between the complexes and DNA active units from the interactions between molecular orbitals, or from the interactions between atomic charges.     

Photochemical reactions of trans-[Ru(NH3)4L(NO)] complexes

The photochemical behavior of a series of trans-[Ru(NH₃)₄L(NO)]³⁺ complexes, where L=nitrogen bound imidazole, L-histidine, 4-picoline, pyridine, nicotinamide, pyrazine, 4-acetylpyridine, or triethylphosphite is reported. In addition to ligand localized absorption bands (<300 nm), the electronic spectra of these complexes are dominated by relatively low intensity bands assigned as ligand field (LF) and metal to ligand (d_π → NO) charge transfer (MLCT) transitions. Irradiation of aqueous solutions of these complexes with near-UV light (300-370 nm) labilizes NO, i.e.,

     

Interaction of [Ru(bpy)2(dppz)] with human telomeric DNA: Preferential binding to G-quadruplexes over i-motif

Inspired by the enormous importance attributed to the structure and function of human telomeric DNA, we focus our attention on the interaction of [Ru(bpy)₂(dppz)]²⁺ with the guanine-rich single-strand oligomer 5′-AGGGTTAGGGTTAGGGTTAGGG-3′ (22AG) and the complementary cytosine-rich strand (22CT). In Na⁺ buffer, 22AG may adopt an antiparallel basket quadruplex, whereas, it favours a mixed parallel/antiparallel structure in K⁺ buffer. 22CT may self-associate at acidic pH into an i-motif. In this paper, the interaction between [Ru(bpy)₂(dppz)]²⁺ and each unusual DNA was evaluated. It was interesting that [Ru(bpy)₂(dppz)]²⁺ could promote the human telomeric repeat 22AG to fold into intramolecular antiparallel G-quadruplex without any other cations. What's more, [Ru(bpy)₂(dppz)]²⁺ was found to have a strong preference for binding to G-quadruplexes that were induced through either Na⁺ or K⁺, while weak binding to i-motif was observed. The results also indicated that [Ru(bpy)₂(dppz)]²⁺ could serve as a prominent molecular “light switch” for both G-quadruplexes, revealing a potential application of the title complex in luminescent signaling of G-quadruplex DNA.     

Ru(phen)2(bis-thioether) complexes: Synthesis and photosubstitution reactions

Three new ruthenium(II) complexes which contain two 1,10-phenanthroline units and a third bis-thioether chelate have been prepared and characterized. For two complexes, the X-ray structure shows a perfect fit between the two phen ligands and the bis-thioethers, with almost perfect C₂ symmetry for the Ru(phen)₂ unit and the S-containing ligand. This geometrical complementarity is also reflected by π-π stacking between the phen nuclei and the S-borne phenyl rings. In relatively harsher preparation conditions a ruthenium complex composed of one phenanthroline and two bis-thioethers is formed as a result of a scrambling reaction. When a bis-thioether chelate incorporated in a macrocycle also including a 6,6′-disubstituted-2,2′-bipyridine unit is used, ¹H NMR study shows that an exo S-bonded ruthenium(II) complex is obtained. In presence of chloride anions a photosubstitution reaction of the bis-thioether chelate takes place selectively and efficiently.     

Synthesis and properties of the dichloro [tetramethyl (trifluoromethyl)cyclopentadienyl]ruthenium dimer: X-ray structure of [M2(η-C5Me4CF3)2Cl2(μ-Cl)2] (M=Ru, Rh)

The reaction of RuCl₃(H₂O), with C₅Me₄CF₃J in refluxing EtOH gives [Ru₂(η⁵-C₅Me₁CF₂)₂ (μ-Cl₂] (20 in 44% yield. Dimer 2 antiferromagnetic (−2J=200 cm¹). The crystal structures of 2 (rhombohedral system, R3 space group, Z=9, R=0.0589) and [Rh₂(η⁵-C₅Me₄CF₃(₂Cl₂(μ-Cl)₂] (3) (rhombohedral system. space group, Z = 9, R = 0.0641) were solved; both complexes have dimeric structures with a trans arrangement of the η⁵-C₅Me₄CF₄ rings. Comparison of the geometry of 2 and 3 with those of the corresponding η⁵-C₅Me₅ complexes shows that lowering the ring symmetry causes significant distortion of the M₂(μ-Cl)₂ moiety. The analysis of the MCl₃ fragment conformations in 2 and 3 and in the η⁵-C₅ME₅ analogues shows that they are correlated with the M---M distances. The Cl atoms are displaced by Br on reaction of 2 with KBr in MeOH to give the diamagnetic dimer [Ru₂(η⁵-C₅Me₄CF₃)₂Br₂ (μ-Br₂] (4). Complex 2 reacts with O₂ in CH₂Cl₂ solution at ambient temperature to form a mixture of isomeric η⁶-fulvene dimers [Ru₂(η⁶-C₅Me₃CF₃ = CH₂)₂Cl₂(μ-Cl)₂] (5). Reactions of 5 with CO and allyl chloride give Ru(η⁵-C₅Me₃CF₃CH₂Cl)(CO)₂Cl (6) and Ru(η⁵-C₅Me₃CF₃CF₃CH₂Cl)(η³-C₃H₅)Cl₂ (7) respectively.     

Ru2(CO)4(OOCR)2L2 sawhorse-type complexes containing axial 5-(4-pyridyl)-10,15,20-triphenylporphyrin ligands

The thermal reaction of Ru₃(CO)₁₂ with various carboxylic acids (benzoic, 4-hydroxyphenylacetic, ferrocenic, stearic, oleic, 4-(octadecyloxy)benzoic) in refluxing tetrahydrofuran, followed by addition of 5-(4-pyridyl)-10,15,20-triphenylporphyrin (L), gives the dinuclear complexes Ru₂(CO)₄(OOCR)₂L₂ (1: R = -C₆H₅, 2: R = -CH₂-p-C₆H₄OH, 3: R = -C₅H₄FeC₅H₅, 4: R = -(CH₂)₁₆CH₃, 5: R = -(CH₂)₇CHCH(CH₂)₇CH₃, 6: R = -p-C₆H₄O(CH₂)₁₇CH₃). Complexes 1-6 were characterised by IR, NMR, and ESI-MS as well as by elemental analysis. The UV-Vis spectra show the Soret band centred at 417 nm and the Q bands at 515, 550, 590 and 645 nm, respectively.     

A [4+2] mixed ligand approach to ruthenium DNA metallointercalators [Ru(tpa)(N–N)](PF6)2 using a tris(2-pyridylmethyl)amine (tpa) capping ligand

A series of five tris(2-pyridylmethyl)amine (tpa) ruthenium complexes [Ru(tpa)(N–N)](PF₆)₂ with N–N = bpy (2,2′-bipyridine), phen (1,10-phenanthroline), dpq (dipyrido[3,2-d:2′,3′-f]quinoxaline), dppz (dipyrido[3,2-a;2′,3′-c]phenazine), and dppn (4,5,9,16-tetraazadibenzo[a,c]naphthacene) was prepared and characterized by NMR, UV–Visible (UV/Vis), and fluorescence spectroscopy as well as cyclic voltammetry. Structures optimized with density functional theory methods (DFT, BP86, TZVP) without constraints show C₁ symmetry while in solution, the ¹H and ¹³C NMR spectra are in accordance with an average C_s symmetry. This is thought to be due to a low energy barrier for flipping of the equatorial pyridine ring from one side of the N–N plane to the other. The electronic structure of the compounds was studied with DFT and a change in the highest occupied molecular orbital (HOMO) character from Ru t_2g for the bpy, phen, and dpq to N–N ligand-based for the dppz and dppn complexes was found. TDDFT calculations showed dominant N–N-based intra-ligand charge transfer (ILCT) transitions in the latter two complexes mixed with metal-to-ligand charge transfer (MLCT) bands found for all five compounds. DNA binding of the complexes was studied with UV/Vis titrations, the fluorescent ethidium bromide displacement assay, and CD spectroscopy. The affinity increases with the aromatic surface area of of the bidentate N–N ligand in the order bpy  phen < dpq < dppz  dppn. Viscosity measurements support an intercalative binding mode for the latter three compounds, while the others did not show a pronounced effect of the hydrodynamic properties of calf thymus (CT) DNA.     

Synthesis and structures of bimetallic silicon-containing imido alkylidene complexes of molybdenum Me2Si[CHMo(NAr)(ORF3)2]2 and PhVinSi[CHMo(NAr)(ORF3)2]2

Bimetallic alkylidene complexes of molybdenum (R_F3O)₂(ArN)MoCH-SiMe₂-CHMo(NAr)(OR_F3)₂ (1) and (R_F3O)₂(ArN)MoCH-SiPhVin-CHMo(NAr)(OR_F3)₂ (2) (Ar = 2,6-C₆H₃; R_F3 = CMe₂CF₃) have been prepared by the reactions of vinyl silicon reagents Me₂Si(CHCH₂)₂ and PhSi(CHCH₂)₃ with known alkylidene compound PhMe₂C-CHMo(NAr)(OR_F3)₂. Complexes 1 and 2 were structurally characterized. Ring opening metathesis polymerization (ROMP) of cyclooctene using compounds 1 and 2 as initiators led to the formation of high molecular weight polyoctenamers with predominant trans-units content in the case of 1 and predominant cis-units content in the case of 2.     

DNA binding and cleavage activity of [Ru(NH3)4(diimine)]Cl2 complexes

The interaction of a series of mixed ligand complexes of the type [Ru(NH₃)₄(diimine)]Cl₂, where diimine=2,2^′-bipyridine (bipy), 1,10-phenanthroline (phen), 5,6-dimethyl-1,10-phenanthroline (5,6-dmp), 4,7-dimethyl-1,10-phenanthroline (4,7-dmp), 2,9-dimethyl-1,10-phenanthroline (2,9-dmp), 3,4,7,8-tetra-methyl-1,10-phenanthroline (Me₄phen), with calf thymus DNA has been studied using absorption, emission and circular dichroic spectral measurements and viscometry and electrochemical techniques. On interaction with DNA the complexes show hypochromism and red-shift in their MLCT band suggesting that the complexes bind to DNA. The magnitude of the binding constant (K_b) obtained from absorption spectral titration varies depending upon the nature of the diimine ligand: Me₄phen > 5,6-dmp > 4,7-dmp > phen suggesting the use of diimine ‘face’ of the octahedral complexes in binding to DNA. The interaction of phen complex possibly involves phen ring partially inserted into the DNA base pairs. In contrast, the methyl-substituted phen complexes would involve hydrophobic interaction of the phen ring in the grooves of DNA, which is supported by hydrogen bonding interactions of the ammonia ligands with the intrastrand nucleobases. Also the shape and size of the phen ligand as modified by the methyl substituents determine the DNA binding site sizes (0.12-0.45 base pairs). The relative emission intensities (I/I₀) of the DNA-bound complexes parallel the variation in K_b values. Almost all the metal complexes exhibit induced CD bands on binding to B DNA, with the 4,7-dmp and Me₄phen complexes inducing certain structural modifications on the biopolymer. DNA melting curves obtained in the presence of metal complexes reveal a monophasic melting of the DNA strands, the Me₄phen complex exhibiting a slightly enhanced tendency to stabilize the double-stranded DNA. There were slight to appreciable changes in the relative viscosities of DNA, which are consistent with enhanced hydrophobic interaction of the methyl-substituted phen rings. Upon interaction with CT DNA, the Me₄phen, 4,7-dmp and 5,6-dmp complexes, in contrast to bipy, phen and 2,9-dmp complexes, show a decrease in anodic peak current in their cyclic voltammograms suggesting that they exhibit enhanced DNA binding. DNA cleavage experiments show that all the complexes induce cleavage of pBR322 plasmid DNA, the Me₄phen and 5,6-dmp complexes being remarkably more efficient than other complexes.     

Mg-activated double-stranded DNA cleavage by [(bpy)2(OH2)Ru---O---Ru(H2O) (bpy)2]

The reaction of the title complex with DNA has been examined. Addition of [(bpy)₂(OH₂)RuORu(OH₂) (bpy)₂]⁴⁺ to DNA leads to the reduction of the complex to Ru(bpy)₂(OH₂)₂²⁺, as indicated by absorption spectroscopy and cyclic voltammetry. The reaction is accelerated by Mg²⁺. The combined evidence points to a mechanism where the oxo-bridged dimer is hydrolyzed to a monomeric Ru(III) complex that is capable of oxidizing DNA to effect strand scission. Gel electrophoresis demonstrates nicking of supercoiled /gfX174 DNA by [(bpy)₂(OH₂)RuORu(OH₂) (bpy)₂]⁴⁺, and double-stranded cleavage is observed in the presence of Mg²⁺. Linearization of the plasmid prior to treatment with the complex does not lead to further fragmentation, suggesting that supercoiling is required to realize double-stranded cleavage.     

Bis(mercapto) and hydrido(thiolate) complexes of Ru(II)–dppm (dppm=Ph2PCH2PPh2)

From a mixture of cis- and trans-Ru(SH)₂(dppm)₂ (4), formed from reaction of H₂S with trans-Ru(H)Cl(dppm)₂ (2), a crystal of cis-4 has been isolated and its structure determined by X-ray analysis. The mercapto protons are located within the centrosymmetric structure, although the S-atoms are partially disordered (S–H1.06 Å). The thiolate complexes, trans-Ru(H)SR(dppm)₂ (R=Ph, 5a; C₆F₅, 5b), have been isolated from reaction of trans-2 with 1 equiv. of RSH. trans-Ru(H)SH(dppm)₂ (3) has been isolated from reaction of H₂S with a mixture of cis- and trans-Ru(H)₂(dppm)₂ (1). An improved synthetic route for 1 is presented.     

Ligand connected metal clusters. The molecular structures and solid state packing of {Ru3(CO)11}2(bis(diphenylphosphino)ethane) and {Ru3(CO)11}2(1,4-bis(diphenylphosphino)benzene)

The preparation and structural characterization of {Ru₃(CO)₁₁}₂(1,4-bis(diphenylphosphino)benzene), a modified synthesis of 1,4-bis(diphenylphosphino)benzene, and the structural characterization of {Ru₃(CO)₁₁}₂(bis(diphenylphosphino)ethane) are reported. In both compounds two metal cluster units are connected through ditertiary-phosphine ligands. Both molecules consist of centrosymmetric units in which the diphosphine ligands are largely covered by the triangular ruthenium clusters. No direct interaction between the two cluster units occurs within individual molecules. Molecular packing in the solid state is dominated by interactions between sets of carbon monoxide ligands in motifs that were previously identified in the solid state structure of the parent cluster, Ru₃(CO)₁₂.     

The electronic structure of Ti(BH4)3: Photoelectron spectra and calculation of vertical ionization energies

He I and He II PE spectra of Ti(BH₄)₃ are reported and assigned by reference to density functional calculations on the molecule and cation. The performance of different functionals in predicting the first vertical ionization energy is assessed. Calculations based on hybrid functionals are found to give ionisation energies closer to the experimental value than those using pure density functionals. The accuracy of the ΔSCF method and time dependent density functional theory in calculating higher vertical ionization energies is also examined.