Interaction of water-soluble bridged porphyrin with DNA

A water-soluble porphyrin dimer (Por Dimer) containing eight positive charges, bridged by 4,4′-dicarboxy-2,2′-bipyridine, has been synthesized. With Meso-tetrakis(N-methyl-pyridium-4-yl)porphyrin (H₂TMPyP) as the reference compound, the water-soluble porphyrin dimer was investigated for its interaction with DNA by absorption, fluorescence, and circular dichroism (CD) spectroscopy. The apparent affinity binding constant (K _app = 1.2 × 10⁶) of Por Dimer binding to CT DNA was measured by a competition method with ethidium bromide (EB) (that of H₂TMPyP was 6.9 × 10⁶). The cleavage ability of Por Dimer to pBR322 plasmid DNA was studied by gel electrophoresis. The results suggest that the binding modes of Por Dimer were complex and involve both intercalation and outside binding. __________ Translated from Acta Chimica Sinica, 2007, 65(22): 2597–2603     

Electronic and vibrational circular dichroism spectroscopic study of non-covalent interactions of meso-5,10,15,20-tetrakis(1-methylpyridinium-4-yl)porphyrin with (dG-dC)10 and (dA-dT)10

The non-covalent interactions of (dG-dC)₁₀ and (dA-dT)₁₀ with 5,10,15,20-tetrakis(1-methylpyridinium-4-yl)porphyrin (TMPyP) were studied using the combination of electronic circular dichroism (ECD), vibrational circular dichroism (VCD) spectroscopy, and UV–vis and IR absorption spectroscopy at different ratios of both components r = [oligonucleotide]/[TMPyP] = 2/1–10/1 where [oligonucleotide] and [TMPyP] are the amount concentrations of oligonucleotide per base-pair and TMPyP, respectively. It was shown that TMPyP with (dG-dC)₁₀ provided hemiintercalative binding mode for r = 4/1 that is manifested in vibrational spectra: The absorption band assigned to the C6O6 stretching vibration of guanine is shifted from 1683 to 1672 cm⁻¹, the corresponding VCD couplet from 1694(−)/1674(+) to 1684(−)/1663(+) cm⁻¹ and its intensity decreases. The absorption band assigned to the C2O2 stretching vibration of cytosine is shifted from 1652 to 1644 cm⁻¹ and its intensity increases. TMPyP with (dA-dT)₁₀ provided three binding modes: (i) external binding to the phosphate backbone, (ii) external minor groove binding for the ratios >6/1 and (iii) external major groove binging associated with the partial B- to Z-transition for the ratios <4/1. The major groove binding is manifested in VCD spectra by the intensity decrease of the bands 1655 and 1638 cm⁻¹ assigned to the thymine vibrations while the bands assigned to the adenine vibrations are unchanged. In the (dA-dT)₁₀–TMPyP complexes, the external binding to the phosphate backbone accompanied by self-stacking of porphyrins along the phosphate backbone chain is preferred at temperatures higher than 40 °C.     

水溶性桥联双卟啉与DNA相互作用的研究

以4,4'-二羧酸-2,2'-联吡啶为桥联试剂, 合成了一种含8个阳离子的水溶性桥联双卟啉(PD). 以5,10,15,20-四(4-N-甲基吡啶盐)卟啉(H₂TMPyP)为参照物, 使用紫外-可见光谱、荧光光谱、圆二色谱研究了水溶性双卟啉与小牛胸腺DNA (CT DNA)的相互作用, 以溴化乙啶(EB)竞争法测定了PD与CT DNA的表观键合常数(K_app)为1.2×10⁶ L•mol^－1 (H₂TMPyP为6.9×10⁶ L•mol^－1), 并使用凝胶电泳研究了PD对pBR322质粒DNA的切割能力. 实验结果表明PD与CT DNA的作用方式是插入和外部结合的混合模式.     

Interactions between meso-tetrakis(4-(<Emphasis Type="Italic">N</Emphasis>-methylpyridiumyl))porphyrin TMPyP4 and DNA G-quadruplex of telomeric repeated sequence TTAGGG

The binding properties between meso-tetrakis(4-(N-methylpyridiumyl))porphyrin (TMPyP4) and the parallel DNA G-quadruplex (G4) of telomeric repeated sequence 5′-TTAGGG-3′ have been characterized by means of circular dichroism, steady-state absorption, steady-state fluorescence and picosecond time-resolved fluorescence spectroscopies. The binding constant and the saturated binding number were determined as 1.29×10⁶ (mol/L)⁻¹ and 3, respectively, according to steady-state absorption spectroscopy. Based on the findings by the use of time-resolved fluorescence spectroscopic technique, it is deduced that TMPyP4 binds to a DNA G-quadruplex with both the thread-intercalating and end-stacking modes and at the saturated binding state, one TMPyP4 molecule intercalates into the intervals of G-tetrads while the other two stack to the ends of the DNA G-quadruplex. Supported by the National Natural Science Foundation of China (Grant Nos. 20442004, 10576002 and 20703067)     

Immobilization of porphyrins in poly(hydroxymethylsiloxane)

Three tetracationic porphyrins differing in the position of charged nitrogen atoms on the peripheral substituents — 5,10,15,20-tetrakis(N-methylpyridinium-4-yl)porphyrin (TMPyP4), 5,10,15,20-tetrakis(N-methylpyridinium-2-yl)porphyrin (TMPyP2), 5,10,15,20-tetrakis(4-trimethylammoniophenyl) porphyrin (TMAPP), and hydrophobic 5,10,15,20-tetraphenylporphyrin (TPP), were immobilized by adsorption and encapsulation in poly(hydroxymethylsiloxane) (PHOMS). The so prepared porphyrin-PHOMS composites were characterized by porosimetry, scanning electron microscopy, fluorescence and diffuse reflectance UV-VIS spectroscopy. It was found that porphyrins are immobilized in the PHOMS matrix in the free base monomer form Their irradiation produced singlet oxygen O₂(¹Δ_g) with the lifetime of 10–30 μs.     

Study on the Intercalation and Interlayer State of Porphyrins into α-Zirconium Phosphate

In this work, a new approach for TMPyP [5,10,15,20-tetrakis (1-methylpyridinium-4-yl) porphyrin] and TMAPP [5,10,15,20-tetrakis (N,N,N-trimethyl-anilinium-4-yl) porphyrin] intercalation into α-phase of zirconium hydrogen phosphate (α-ZrP) was described: porphyrins were inserted through exchanging pre-intercalated alkylamine. Pre-intercalated n-butylamine (BA) could form either a mobile monolayer or a stable bilayer in α-ZrP. The exchange speed between porphyrins and BA in mobile monolayer is obviously faster than that in stable bilayer. Therefore mobility of spacers is one important intercalation factor. In addition, we investigated the interlayer state of TMPyP by XRD, visible spectrum, fluorescence spectrum and molecular modeling. The results collectively revealed that the porphyrin was orderly arranged with their planes inclined to the host lamella and was presented as monomer instead of aggregation in the gallery of α-ZrP.     

Interaction of water‐soluble tetrakis‐(1‐methyl‐4‐pyridiniyl)‐porphyrin and CdS naonoparticles

The interaction between positively charged porphyrin TMPyP(4) (tetrakis‐(1‐methyl‐4‐pyridiniyl) porphyrin) and negatively charged surface of colloidal CdS nanoparticles has been studied by absorption spectrum, fluorescence spectroscopy, and time‐correlated single‐photon‐counting methods. Addition of CdS colloid to a TMPyP(4) solution leads to TMPyP(4) adsorption onto the surface of CdS colloid with an apparent association constant of 4643 L/mol. This adsorption results in distinct changes in absorption spectrum of TMPyP (4) and the quenching of its′ fluorescence, but the biexponential fluorescence decay changes hardly. Nearly 90% of the fluorescence of 5 × 10^?6 mol/L TMPyP(4) can be quenched with 1.5 × 10^?4 mol/L CdS colloid. These spectral changes are attributed to the formation of a certain form complex TMPyP(4)‐CdS.     

Study on the Intercalation and Interlayer State of Porphyrins into <Emphasis Type="Italic">α</Emphasis>-Zirconium Phosphate

In this work, a new approach for TMPyP [5,10,15,20-tetrakis (1-methylpyridinium-4-yl) porphyrin] and TMAPP [5,10,15,20-tetrakis (N,N,N-trimethyl-anilinium-4-yl) porphyrin] intercalation into α-phase of zirconium hydrogen phosphate (α-ZrP) was described: porphyrins were inserted through exchanging pre-intercalated alkylamine. Pre-intercalated n-butylamine (BA) could form either a mobile monolayer or a stable bilayer in α-ZrP. The exchange speed between porphyrins and BA in mobile monolayer is obviously faster than that in stable bilayer. Therefore mobility of spacers is one important intercalation factor. In addition, we investigated the interlayer state of TMPyP by XRD, visible spectrum, fluorescence spectrum and molecular modeling. The results collectively revealed that the porphyrin was orderly arranged with their planes inclined to the host lamella and was presented as monomer instead of aggregation in the gallery of α-ZrP.This revised version was published online in July 2005 with a corrected issue number.     

Composites with photosensitive 5,10,15,20-tetrakis(<Emphasis Type="Italic">N</Emphasis>-methylpyridinium-4-yl)porphyrin entrapped into silica gels

Photosensitive cationic 5,10,15,20-tetrakis(1-methyl-4-pyridinio)porphyrin (TMPyP) was entrapped into microporous silica gels prepared by sol–gel method from tetrakis(2-hydroxyethoxy)silane (THES) and tetramethoxysilane (TMOS), resp., using different water and PEG 600 contents in the initial mixture. The absorption spectra of both composites showed that incorporation of TMPyP has led to a bathochomic shift (ca. 8 nm) of the Soret band and to a decrease in their molar absorption coefficient compared to TMPyP in solution. The TMPyP encapsulation kept the molecular state of the porphyrin in the free-base monomer form. In comparison to TMOS analogs, THES composites showed prolonged shape stability at least for 3 months, one-order higher rate of chemical substrate photooxidation and higher photobiocidal activity against E. coli.     

Synthesis,characterization, molecular modeling,and DNA interaction studies of a Cu(II) complex containing drug of chronic hepatitis B: adefovir dipivoxil

A new copper(II) complex [Cu(adefovir)₂Cl₂], where adefovir = adefovir dipivoxil drug, was synthesized and characterized by using different physicochemical methods. Binding interaction of this complex with calf thymus DNA (ct-DNA) has been investigated by multi-spectroscopic techniques and molecular modeling study. The complex displays significant binding properties of ct-DNA. The results of fluorescence and UV–vis absorption spectroscopy indicated that, this complex interacted with ct-DNA in a groove-binding mode, and the binding constant was 4.3(±0.2) × 10⁴ M^?1. The fluorimeteric studies showed that the reaction between the complex and ct-DNA is exothermic (ΔH = 73.91 kJ M^?1; ΔS = 357.83 J M^?1 K^?1). Furthermore, the complex induces detectable changes in the CD spectrum of ct-DNA and slightly increases its viscosity which verified the groove-binding mode. The molecular modeling results illustrated that the complex strongly binds to the groove of DNA by relative binding energy of the docked structure ?5.74 kcal M^?1. All experimental and molecular modeling results showed that the Cu(II) complex binds to DNA by a groove-binding mode.     

Synthesis of a new Pt(II) complex containing valganciclovir drug and calf-thymus DNA interaction study using multispectroscopic methods

A new complex, [Pt(valcyte)(DMSO)Cl]Cl, in which valcyte (trade name) served as valganciclovir hydrochloride drug ([2-[(2-amino-6-oxo-3H-purin-9-yl)methoxy]-3-hydroxypropyl](2S)-2-amino-3-methylbutanoate), was synthesized and characterized by different physicochemical methods. Binding interaction of this complex with calf-thymus DNA (ct-DNA) has been investigated by multispectroscopic techniques. The complex displays significant binding properties with ct-DNA. The results of fluorescence and UV–vis absorption spectroscopy indicated that this complex interacted with ct-DNA in a groove-binding mode, and the binding constant was 3.8 × 10⁴ M^?1. Furthermore, the complex induced detectable changes in the CD spectrum of ct-DNA and slightly changed its viscosity which verified the groove-binding mode. Finally, all results indicated that Pt(II) complex interact with DNA via groove-binding mode.     

Spectral properties and solution behavior of gold(III) coordination compounds with water-soluble porphyrins

Gold(III) coordination compounds with three water-soluble porphyrins―5,10,15,20-tetrakis(4-sulfonatophenyl)porphyrin (H₂TSPP^4–), 5,10,15,20-tetrakis(4-N-methylpyridyl)porphyrin (H₂TMPyP⁴⁺), and 5,10,15,20-tetrakis(4-N,N,N-trimethylaminophenyl)porphyrin (H₂TTMAPP⁴⁺)―have been studied. Complex [Au(TTMAPP)]⁵⁺ has been prepared for the first time. The analysis of coordination-induced shifts of proton signals in NMR spectra and intensities of Q bands in absorption spectra indicates the high degree of bond covalence in the studied metal porphyrins and a partial transfer of electron density from porphyrin to gold ion. The cationic complexes [Au(TMPyP)]⁵⁺ and [Au(TTMAPP)]⁵⁺ in aqueous solutions has been found to exist in monomeric form, while anionic complex [Au(TSPP)]^3– undergoes dimerization upon growth of concentration and solution ionic strength. Equilibrium constant for dimerization has been calculated, the constant has been found to decrease when temperature rises. Thermodynamic parameters of dimerization process have been determined: ΔH° =–31.8 kJ/mol and ΔS° =–13.8 J/mol K.     

Fluorescent recognition of deoxyribonucleic acids by a quantum dot/meso-tetrakis(N-methylpyridinium-4-yl)porphyrin complex based on a photo induced electron-transfer mechanism

We have developed a new fluorescent probe of thioglycolic acid (TGA)-capped CdTe quantum dots (QDs) complexed with a model drug, meso-tetrakis(N-methylpyridinium-4-yl)porphyrin (TMPyP) for detecting deoxyribonucleic acids (DNAs). This probe operates with an “Off–On” mode: TMPyP quenches the photoluminescence (PL) of QDs via a photo induced electron-transfer (PIET) process; the presence of DNA can break the QD/TMPyP complexation, interrupting the PIET process, and switch on the PL of QDs. Sensitive detection of DNA with the detection limit of 0.16 nM and a linear detection range of 0.25–6.0 nM are achieved. Importantly, this probe can be used to distinguish the binding modes of DNA–TMPyP interactions, exhibiting the DNA sequence-dependent PL recovery behaviors. The obtained binding constant for poly(dA)·poly(dT) is ∼3.30 × 10⁷ L mol⁻¹, which is approximately one order of magnitude larger than those for native DNAs and poly(dG)·poly(dC). Furthermore, the thymine bases preferential of the TMPyP–DNA interaction is proved by this probe.     

Synthesis,characterization and comparative DNA interaction studies of new copper(II) and nickel(II) complexes containing mesalamine drug using molecular modeling and multispectroscopic methods

Complexes of copper(II) and nickel(II) containing the drug mesalamine (5-ASA) have been synthesized and characterized by FT-IR, mass and UV–vis spectra, elemental analysis, and theoretical methods. The binding interactions between mesalamine and its Cu(II) and Ni(II) complexes with calf thymus DNA (ct-DNA) were investigated using absorption, fluorescence emission and circular dichroism (CD) spectroscopies, and viscosity measurements. Absorption spectra of 5-ASA, Cu(II) and Ni(II) complexes showed hypochromism. The calculated binding constants (K_b) obtained from UV–vis absorption studies were 1.27 × 10³, 1.6 × 10³, and 1.2 × 10⁴ M^?1 for 5-ASA, Cu(II) and Ni(II) complexes, respectively. The compounds induced detectable changes in the CD spectra of ct-DNA (B → A structural transition, B → C structural transition and stabilization of the right-handed B form, for mesalamine, Cu(II) and Ni(II) complexes, respectively). The competitive binding experiments with Hoechst 33258 indicated that 5-ASA and copper complex could interact as groove binders. Furthermore, Ni complex had no effect on the fluorescence intensity and peak position of MB-DNA system. Finally, the results obtained from experimental and molecular modeling showed that complexes bind to DNA via minor-groove binding.     

Oxovanadium complex as potential nucleic acid binder

DNA binding study of a vanadium(V) complex, Oxo-chloro-bis-N-phenylbenzohydroxamto-vanadium(V), derived from N-phenylbenzohydroxamic acid(PBHA) form a violet color complex with vanadium (V) in presence of hydrochloric acid is performed using absorption, fluorescence and viscometric techniques. The binding parameters of the PBHA-V(V) complex using calf thymus DNA (ct-DNA) and torula yeast RNA (t-RNA) have been determined. The complex shows the ability of cooperatively minor groove binding with ct-DNA as indicated by remarkable hyperchromicity and a blue shift of the absorption spectra. Quenching of metal complex calculation was carried out with Stern-Volmer equation and K_sv was found to be 2.32 ± 0.18 × 10⁴ M^?1, while in the case of t-RNA, enhancement is observed and that means the compound was not able to displace the Ethidium Bromide(EB)-t-RNA complex. Molecular docking was also applied to predict the mode of interaction of the hydroxamic acid with ct-DNA and t-RNA. DNA binding results of the complex are compared with those of the parent ligand.     

DNA-interaction studies of a copper(II) complex containing ceftobiprole drug using molecular modeling and multispectroscopic methods

Abstract

The interaction of the [Cu(cef)(phen)Cl₂] complex with calf-thymus DNA (ct-DNA) at physiological pH was investigated by UV-visible spectrophotometry, fluorescence measurement, dynamic viscosity measurements, circular dichroism spectroscopy, and molecular modeling. UV-vis spectra showed 5?nm bathochromic shift of the absorption band at 270?nm along with significant hypochromicity for the absorption band of the complex. The binding constant obtained of UV-vis (1?×?10⁵ M^?1) is more in keeping with intercalators and suggests this binding mode. Moreover, thermodynamic parameters indicated that hydrogen bond and van der Waals interactions play main roles in the binding of [Cu(cef)(phen)Cl₂] to ct-DNA. In addition, [Cu(cef)(phen)Cl₂]-DNA docked model is in approximate correlation with the experimental results.     

QUANTUM YIELDS AND KINETICS OF THE PHOTOBLEACHING OF HEMATOPORPHYRIN, PHOTOFRIN II, TETRA(4-SULFONATOPHENYL)-PORPHINE AND UROPORPHYRIN

Abstract Porphyrins used as sensitizers for the photodynamic therapy (PDT) of tumors are progressively destroyed (photobleached) during illumination. If the porphyrin bleaches too rapidly, tumor destruction will not be complete. However, with appropriate sensitizer dosages and bleaching rates, irreversible photodynamic injury to the normal tissues surrounding the tumor, which retain less sensitizer, may be significantly decreased. This paper surveys the quantum yields and kinetics of the photobleaching of four porphyrins: hematoporphyrin (HP), Photofrin II (PF II), tetra(4-sulfonatophenyOporphine (TSPP) and uroporphyrin I (URO). The initial quantum yields of photobleaching, as measured in pH 7.4 phosphate buffer in air, were: 4.7 × 10^-5, 5.4 × 10^-5, 9.8 × 10^-5, and 2.8 × 10^-5 for HP, PF II, TSPP and URO respectively; thus, the rates of photobleaching are rather slow. Low oxygen concentration (2 μM) significantly reduced the photobleaching yields. However, D₂O increased the yields only slightly, and the singlet oxygen quencher, azide, had no effect, even at 0.1 M. Photosensitizing porphyrins in body fluids, cells and tissues may be closely associated with various photooxidizable molecules and electron acceptors and donors. Therefore, selected model compounds in these categories were examined for their effects on porphyrin photobleaching. A number inhibited and/or accelerated photobleaching, depending on the compound, the porphyrin and the reaction conditions. For example, 1.0 mM furfuryl alcohol increased the photobleaching yields of HP and URO more than 5-fold, with little effect on PF II or TSPP. In contrast, the electron acceptor, methyl viologen, increased the photobleaching yield of TSPP more than 10-fold, with little accelerating effect on the other porphyrins. These results suggest that the mechanism(s) of the photobleaching of porphyrin photosensitizers in cells and tissues during PDT may be complex.     

Simultaneous binding of meso-tetrakis(N-methylpyridinium-4-yl)porphyrin and 4',6-diamidino-2-phenylindole at the minor grooves of poly(dA).poly(dT) and poly[d(A-T)(2)]: fluorescence resonance energy transfer between DNA bound drugs

The spectral properties of meso-tetrakis(N-methylpyridinium-4-yl)porphyrin (TMPyP) bound to poly(dA).poly(dT) and poly[d(A-T)(2)] in the presence and in the absence of 4',6-diamidino-2-phenylindole (DAPI) have been studied. DAPI fits deeply into the minor groove of both poly(dA).poly(dT) and poly[d(A-T)(2)], and TMPyP is also situated at the minor groove. The nature of the absorption, circular dichroism (CD), and flow linear dichroism (LD) spectra of the TMPyP-poly(dA).poly(dT) and -poly[d(A-T)(2)] complexes in the Soret band is essentially unaffected whether the minor groove is blocked by DAPI or not, although small variations been noticed in the presence of DAPI. Furthermore, a close analysis of the reduced LD spectrum in the Soret band results in angles of approximately 80 degrees and 55 degrees between transition moments of the TMPyP and DNA helix axes in the absence of DAPI. All these observations indicate that the side of TMPyP whose structure resembles that of classical minor groove binding drugs does not fit deeply into the minor groove. This suggests that TMPyP binds across the minor groove: two positively charged pyridiniumyl rings interact electrostatically with negatively charged phosphate groups of DNA. When DAPI and TMPyP are simultaneously bound to poly(dA).poly(dT) or poly[d(A-T)(2)], the fluorescence intensity of DAPI decreases as TMPyP concentration increases, indicating that the excited energy of DAPI is transferred to TMPyP.     

Synthesis,characterization, and DNA band of a five-coordinate cadmium(II) complex with 1,3-bis(1-benzylbenzimidazol-2-yl)-2-thiapropane

A five-coordinate cadmium(II) complex with 1,3-bis(1-benzylbenzimidazol-2-yl)2-thiapropane (L), [Cd(L)Br₂]?·?DMF, has been synthesized and characterized by elemental analysis, electrical conductivities, IR, and UV-Vis spectral measurements. The crystal structure of the complex has been determined by single-crystal X-ray diffraction. The Cd(II) is five-coordinate with two nitrogens and a sulfur from one ligand, and two bromides. The N₂SBr₂ donors are in a distorted square-pyramidal geometry (τ?=?0.32). Electronic absorption titration spectra, EB (ethidium bromide) competitive experiment, and viscosity measurement indicated that the complex can bind to DNA via intercalation.     

Preparation and characterization of tetra(4-pyridyl)porphyrinatomanganese(III) cation supported covalently on poly(siloxane)

Tetra(4-pyridyl)porphyrinatomanganese(III), [Mn^III(TPyP)]⁺, has been covalently bonded to the surface of a chlorinated crosslinked poly(siloxane) which contains the immobilized chloropropyl group, -CH₂CH₂CH₂Cl. The metalloporphyrin complex was found to react with the immobilized ligand via a quaternization reaction of the 4-pyridine N-atom. The porphyrin binding involves a chemical process rather than physical adsorption. There is evidence that two porphyrins species coexist, both bonded to the surface, one being [Mn^III(TPyP)]⁺ and the other (H₂TPyP), both in the quaternary salt forms, when the quaternization reaction is carried out at higher temperature (150 °C). At moderate reaction temperatures (70–80 °C) the quaternization reaction resulted in only one species, supported [Mn^III(TPyP)]⁺, as evident from electronic spectra of the solid. Also, visible absorption spectra taken of the solution remaining after the quaternization reaction showed no demetallated porphyrm. Solid state electronic absorption, dispersive IR and FT-IR spectra have been used for confirmation.