De novo design, synthesis, and characterization of antimicrobial beta-peptides

beta-Peptides are a class of polyamides that have been demonstrated to adopt a variety of helical conformations. Recently, a series of amphiphilic L(+2) helical beta-peptides were designed, which were intended to mimic the overall physicochemical properties of a class of membrane-active antimicrobial peptides, including magainin and cecropin. Although these peptides showed potent antimicrobial activity, they also showed significant activity against human erythrocytes. Operating under the assumption that their lack of specificity arose from excessive hydrophobicity, two additional beta-peptides H-(beta(3)-HAla-beta(3)-HLys-beta(3)-HVal)(n)-NH(2) (n = 4, 5) were designed and synthesized. Both have high antimicrobial activities, but very low hemolytic potencies. The peptides bind in an L(+2) conformation to phospholipid vesicles, inducing leakage of entrapped small molecules. The peptides have a low affinity for membranes consisting of neutral phosphatidylcholine lipids, but bind avidly to vesicles containing 10 mol % of acidic phosphatidylserine lipids. Differences in vesicle leakage kinetics for the two peptides suggest that chain length could affect their mechanisms of disrupting cell membranes. Thus, insights gained from the study of variants of natural alpha-peptides have provided a useful guide for the design of nonnatural antimicrobial beta-peptides.     

De novo design, synthesis, and function of semiartificial myoglobin conjugated with coiled-coil two-alpha-helix peptides

The introduction of a flavin chromophore on the myoglobin (Mb) surface and an effective electron-transfer (ET) reaction through the flavin were successfully achieved by utilizing the self-assembly of heterostranded coiled-coil peptides. We have prepared a semiartificial Mb, named Mb-1alphaK, in which an amphiphilic and cationic alpha-helix peptide is conjugated at the heme propionate (Heme-1alphaK). Heme-1alphaK has a covalently bound iron-protoporphyrin IX (heme) at the N terminus of a 1alphaK peptide sequence. This sequence was designed to form a heterostranded coiled-coil in the presence of a counterpart amphiphilic and anionic 1alphaE peptide sequence in a parallel orientation. Two peptides, Fla(1)-1alphaE and Fla(31)-1alphaE, both incorporating a 10-methylisoalloxazine moiety as an artificial flavin molecule, were also prepared (Fla=2-[7-(10-methyl)isoalloxazinyl]-2-oxoethyl). Heme-1alphaK was successfully inserted into apomyoglobin to give Mb-1alphaK. Mb-1alphaK recognized the flavin-modified peptides and a two-alpha-helix structure was formed. In addition, an efficient ET from reduced nicotinamide adenine dinucleotide to the heme center through the flavin unit was observed. The ET rate was faster in the presence of Fla(1)-1alphaE than in the presence of Fla(31)-1alphaE or the equivalent molecule that has no peptide chain. These results demonstrate that the introduction of a functional chromophore on the Mb surface can be achieved by using specific peptide-peptide interactions. Moreover, the dependence of the ET rate on the position of the flavin indicated that the distance between the heme active site and the flavin chromophore was regulated by the three-dimensional structure of the designed polypeptide.     

Mono- and binuclear ruthenium corroles: synthesis,spectroscopy, electrochemistry,and structural characterization

The aim of this research was to prepare mononuclear ruthenium corroles, because of the well-documented potency of analogous porphyrin complexes in catalysis. The syntheses of the mononuclear nitrosyl complexes [Ru(tpfc)(NO)] and [Ru(tdcc)(NO)] (tpfc=trianion of 5,10,15-tris(pentafluorophenyl)corrole, tdcc=trianion of 5,10,15-tris(2,6-dichlorophenyl)corrole), and of the binuclear [[Ru(tpfc)](2)] were achieved by using [[Ru(cod)Cl(2)](x)] (cod=cyclooctadiene) as the metal source. The NMR spectra of all three complexes clearly demonstrate that they are diamagnetic; this is consistent with a triple bond between the metal ions in [[Ru(tpfc)](2)] and is expected for classical [MNO](6) complexes. These features were further substantiated by the stretching frequencies of the [MNO] moieties, electrochemical measurements on all complexes, and the X-ray crystal structures of [Ru(tpfc)(NO)] and [[Ru(tpfc)](2)]. A comparison of the spectroscopic and structural characteristics of these new complexes with analogous iron corroles, as well as with iron and ruthenium porphyrins, suggests that it will be hard to obtain mononuclear ruthenium corroles without pi-accepting ligands.     

New homoleptic organometallic derivatives of vanadium(III) and vanadium(IV): synthesis, characterization, and study of their electrochemical behaviour

The arylation of [VCl3(thf)3] with LiR(Cl), where R(Cl) is a polychlorinated phenyl group [C6Cl5, 2,4,6-trichlorophenyl(tcp), or 2,6-dichlorophenyl (dcp)] gives four-coordinate, homoleptic organovanadium(III) derivatives with the formula [Li(thf)(4)][V(III)(R(Cl))(4)] (R(Cl) = C(6)Cl(5) (1), tcp (2), dcp (3)). The anion [V(III)(C6Cl5)4]- has an almost tetrahedral geometry, as observed in the solid-state structure of [NBu4][V(C6Cl5)4] (1') (X-ray diffraction). Compounds 1-3 are electrochemically related to the neutral organovanadium(IV) species [V(IV)(R(Cl))4] (R(Cl) = C6Cl5 (4), tcp (5), dcp (6)). The redox potentials of the V(IV)/V(III) semisystems in CH2Cl2 decrease with decreasing chlorination of the phenyl ring (E(1/2) = 0.84 (4/1), 0.42 (5/2), 0.25 V (6/3)). All the [V(IV)(R(Cl))4] derivatives involved in these redox couples could also be prepared and isolated by chemical methods. The arylation of [VCl(3)(thf)(3)] with LiC6F5 also gives a homoleptic organovanadium(III) compound, but with a different stoichiometry: [NBu4]2[V(III)(C6F5)5] (7). In this five-coordinate species, the C6F5 groups define a trigonal bipyramidal environment for the vanadium atom (X-ray diffraction). EPR spectra for the new organovanadium compounds 1-6 are also given and analysed in terms of an elongated tetrahedral structure with C(2v) local symmetry. It is suggested that the R(Cl) groups exert a protective effect towards the vanadium centre.     

Covalent tethering of organic functionality to the surface of glassy carbon electrodes by using electrochemical and solid-phase synthesis methodologies

Organic linkers such as (N-Boc-aminomethyl)phenyl (BocNHCH2C6H4) and N-Boc-ethylenediamine (Boc-EDA) have been covalently tethered onto a glassy carbon surface by employing electrochemical reduction of BocNHCH2C6H4 diazonium salt or oxidation of Boc-EDA. After removal of the Boc group, anthraquinone as a redox model was attached to the linker by a solid-phase coupling reaction. Grafting of anthraquinone to electrodes bearing a second spacer such as 4-(N-Boc-aminomethyl)benzoic acid or N-Boc-beta-alanine was also performed by following this methodology. The surface coverage, stability and electron transfer to/from the tethered anthraquinone redox group through the linkers were investigated by cyclic voltammetry. The effects of pH and scan rate were studied, and the electron-transfer coefficient and rate constant were determined by using Laviron's equation for the different types of linker. The combination of electrochemical attachment of protected linkers and subsequent modifications under the conditions of solid-phase synthesis provides a very versatile methodology for tailoring a wide range of organic functional arrangements on a glassy carbon surface.     

De novo design and spectroscopic characterization of a dinucleating copper-binding pentadecapeptide

A spectroscopic study of aqueous solutions of Ac-WGHGHGHGPGHGHGH-NH(2) (HGP) indicates that copper(II) binds to the peptide to form a 2:1 Cu(2+)/HGP complex with four nitrogen atoms in the copper coordination environment. Electron paramagnetic resonance (EPR) and UV-visible data suggest copper binding through the peptide backbone and imidazole nitrogen donors. Circular dichroism data show that HGP is unbound below pH 5.5 and is copper-saturated at pH 9 and above. The apo form of the peptide is unstructured in solution and is organized into a turn conformation in the presence of 2 mol equiv of Cu(2+) at basic pH. EPR measurements for 2:1 Cu(2+)/HGP solutions in the g = 2 region and within the pH range 7-11 exhibit axial spectra. A molecular-mechanics-minimized model of the Cu(2+)/HGP complex gave a Cu...Cu separation of 8 A.     

Probing the Functionalization of Gold Surfaces and Protein Adsorption by PM‐IRRAS

The control of morphology and coating of metal surfaces is essential for a number of organic electronic devices including photovoltaic cells and sensors. In this study, we monitor the functionalization of gold surfaces with 11‐mercaptoundecanoic acid (MUA, HS(CH₂)₁₀CO₂H) and cysteamine, aiming at passivating the surfaces for application in surface plasmon resonance (SPR) biosensors. Using polarization‐modulated infrared reflection–absorption spectroscopy (PM‐IRRAS), cyclic voltammetry, atomic force microscopy and quartz crystal microbalance, we observed a time‐dependent organization process of the adsorbed MUA monolayer with alkyl chains perpendicular to the gold surface. Such optimized condition for surface passivation was obtained with a systematic search for experimental parameters leading to the lowest electrochemical signal of the functionalized gold electrode. The ability to build supramolecular architectures was also confirmed by detecting with PM‐IRRAS the adsorption of streptavidin on the MUA‐functionalized gold. As the approaches used for surface functionalization and its verification with PM‐IRRAS are generic, one may now envisage monitoring the fabrication of tailored electrodes for a variety of applications.     

Energy-level tailoring in a series of redox-rich quinonoid-bridged diruthenium complexes containing tris2-pyridylmethyl)amine as a co-ligand

Reactions of [{Ru(tmpa)}₂(μ‐Cl)₂][ClO₄]₂, ( 2 [ClO₄]₂, tmpa=tris(2‐pyridylmethyl)amine) with 2,5‐dihydroxy‐1,4‐benzoquinone ( L¹ ), 2,5‐di‐[2,6‐(dimethyl)‐anilino]‐1,4‐benzoquinone ( L² ), or 2,5‐di‐[2,4,6‐(trimethyl)‐anilino)]‐1,4‐benzoquinone ( L³ ) in the presence of a base led to the formation of the dinuclear complexes [{Ru(tmpa)}₂(μ‐ L¹ _{?2 H})][ClO₄]₂ ( 3 [ClO₄]₂), [{Ru(tmpa)}₂(μ‐ L² _{?2 H})][ClO₄]₂ ( 4 [ClO₄]₂), and [{Ru(tmpa)}₂(μ‐ L³ _{?2 H})][ClO₄]₂ ( 5 [ClO₄]₂). Structural characterization of 5 [ClO₄]₂ showed the localization of the double bonds within the quinonoid ring and a twisting of the mesityl substituents with respect to the quinonoid plane. Cyclic voltammetry of the complexes show two reversible oxidation and quinonoid‐based reduction processes. Results obtained from UV/Vis/NIR and EPR spectroelectrochemistry are invoked to discuss ruthenium‐ versus quinonoid‐ligand‐centered redox activity. The complex 3 [ClO₄]₂ is compared to the reported complex [{Ru(bpy)}₂(μ‐ L¹ _{?2 H})]²⁺ ( 1²⁺ , bpy=2,2′‐bipyridine). The effects of substituting the bidentate and better π‐accepting bpy co‐ligands with tetradentate tmpa ligands [pure σ‐donating (amine) as well as σ‐donating and π‐accepting (pyridines)] on the redox and electronic properties of the complexes are discussed. Comparisons are also made between complexes containing the dianionic forms of the all‐oxygen‐donating L¹ ligand with the L² and L³ ligands containing an [O,N,O,N] donor set. The one‐electron oxidized forms of the complexes show absorption in the NIR region. The position as well as the intensity of this band can be tuned by the substituents on the quinonoid bridge. In addition, this band can be switched on and off by using tunable redox potentials, making such systems attractive candidates for NIR electrochromism.     

Structural,Vibrational, Thermal,and Electrochemical Studies of a Cyclohexaphosphate Complex, (C5H14N2)2Cd2CL2P6O18.4H2O

Abstract

A novel cadmium cyclohexaphosphate (C₅H₁₄N₂)₂Cd₂Cl₂P₆O₁₈.4H₂O has been prepared and characterized by single-crystal X-ray diffraction, infrared and Raman spectroscopies, thermogravimetric analysis, and cyclic voltammetry. The structure consists of vertex linked of CdO₅Cl octahedral and P₆O₁₈ rings assembled into a two-dimensional macroanionic layers. Organic double-protonated homopiperazine cations are located between these layers and interact with the framework both electrostatically and via hydrogen bonds of N–H···O(Cl).

[Supplemental materials are available for this article. Go to the publisher's online edition of Phosphorus, Sulfur, and Silicon and the Related Elements to view the following free supplemental files: Additional figures]     

Electrosynthesis of Poly(para)phenylene in an Ionic Liquid: Cyclic Voltammetry and in Situ STM/Tunnelling Spectroscopy Studies

The electropolymerization of benzene in the air and water‐stable ionic liquid 1‐hexyl‐3‐methylimidazolium tris(pentafluoroethyl)trifluorophosphate (HMIm)FAP is investigated. The study comprises cyclic voltammetry, IR and in situ STM/tunnelling spectroscopy measurements. The IR results indicate that poly(para)phenylene is the end product of the electropolymerization of benzene in the employed ionic liquid. The resulting conjugation lengths of the product fall between 19 and 21. A polymer reference electrode is used successfully for the electrochemical polymerization of benzene. The first in situ STM results show that the electropolymerization of benzene in the ionic liquid can be probed on the nanoscale and the band gap of the prepared polymer can be determined. The electrodeposited polymer film obtained at a constant potential of 1.0 V vs PPP (polyparaphenylene) exhibits a band gap of 2.9±0.2 eV.     

De novo ligand design with explicit water molecules: an application to bacterial neuraminidase

Most computer-aided drug design methods ignore the presence of crystallographically-determined water molecules in the binding site of a target protein. In this paper, our de novo ligand design methods are applied to the X-ray crystal structure of bacterial neuraminidase in the presence of some selected water molecules. We have found that, for this particular protein, the complete removal of all bound water molecules leads to difficulties in generating any potential ligands if the unsatisfied hydrogen-bonding sitepoints left by removing these water molecules are to be satisfied by a ligand. As more of the crystallographically determined water molecules are allowed in the binding site, it becomes much easier to generate ligands in larger numbers and with wider chemical diversity. This example shows that, in some cases, bound water molecules can be more accessible for hydrogen bonding to an incoming ligand than the actual protein binding sitepoints associated with them. From the point of view of de novo ligand design, water molecules can thus act as versatile amphiprotic hydrogen-bonding sitepoints and reduce the conformational constraints of a particular binding site.     

De novo design and characterization of copper centers in synthetic four-helix-bundle proteins.

The design and chemical synthesis of de novo metalloproteins on cellulose membranes with the structure of an antiparallel four-helix bundle is described. All possible combinations of three different sets of amphiphilic helices were assembled on cyclic peptide templates which were bound by a cleavable linker to the cellulose. In the hydrophobic interior, the four-helix bundle proteins carry a cysteine and several histidines at various positions for copper ligation. This approach was used successfully to synthesize, for the first time, copper proteins based on a four-helix bundle. UV-vis spectra monitored on the solid support showed ligation of copper(II) by about one-third out of the 96 synthesized proteins and tetrahedral complexes of cobalt(II) by most of these proteins. Three of the most stable copper-binding proteins were synthesized in solution and their structural properties analyzed by spectroscopic methods. Circular dichroism, one-dimensional NMR, and size-exclusion chromatography indicate a folding into a compact state containing a high degree of secondary structure with a reasonably ordered hydrophobic core. They displayed UV-vis absorption, resonance Raman, and EPR spectra intermediate between those of type 1 and type 2 copper centers. The present approach provides a sound basis for further optimizing the copper binding and its functional properties by using combinatorial protein chemistry guided by rational principles.     

Semiquinone Intermediates in the Two‐Electron Reduction of Quinones in Aqueous Media and their Exceptionally High Reactivity towards Oxygen Reduction

We report the catalytic anthraquinone‐mediated reduction of oxygen at a boron‐doped diamond electrode. Scheme of squares modelling confirms the existence of and reveals the role of the semiquinone intermediates, which are shown to have an exceptional reactivity towards oxygen (as compared to the di‐reduced anthraquinone).     

A kinetically stabilized ferrocenyl diphosphene: synthesis, structure, properties, and redox behavior

A new, stable ferrocenyl diphosphene [Tbt-P==P-Fc] (1) (Tbt=2,4,6-tris[bis(trimethylsilyl)methyl]phenyl, Fc = ferrocenyl) was synthesized by the dehydrochlorination reaction of the corresponding diphosphane, [Tbt-P(H)-P(Cl)-Fc] (8), with 1,8-diazabicyclo[5.4.0]undec-7-ene (DBU) in good yield. Diphosphene 1 is very stable in the solid state and also in solution. In the 31P NMR spectrum (C6D6), diphosphene 1 showed a low-fielded AB quartet at delta 501.7 and 479.5 ppm with the coupling constant 1J(PP)=546 Hz, which is characteristic of an unsymmetrically substituted trans-diphosphene. The molecular structure of 1 was established by X-ray crystallographic analysis, which showed a trans-diphosphene with a C-P-P-C torsion angle of 177.86(17) degrees . The phosphorus-phosphorus bond length of 1 [2.0285(15) A] which is considerably shorter than the typical P-P single-bond lengths (ca. 2.22-2.24 A) and within the range of reported P=P double-bond lengths (1.985-2.051 A) for diaryl diphosphenes, evidenced the P=P double-bond character of 1 in the solid state. In addition, the cyclic voltammograms of 1 showed reversible reduction and oxidation couples at -1.95 and +0.34 V versus SCE, respectively. The electrochemical results for 1 were reasonably supported by the DFT calculations, which suggested that the LUMO and HOMO orbitals should be mainly pi* orbital of the diphosphene moiety and d orbitals of the iron(II) atom, respectively.     

Hydrogen bonding association in the electroreduced intermediates of benzoquinones and naphthoquinones

Keeping in view the importance of chemical and biological functions of quinone based couples; two different series of quinones, namely benzoquinones and naphthoquinones, are investigated electrochemically. Five compounds of each series are studied systematically in dichloromethane, acetonitrile, and propylene carbonate and from there the half-wave potentials of first and second reductions are obtained through cyclicoltammetry measurements. Four different alcohols are used with increasing concentrations as hydrogen bond donors on the basis of their increasing acidity. The hydrogen-bonding power is analyzed from the positive shifts in both the waves with increasing concentrations of alcohols. The quantitative comparison is made while calculating the thermodynamic association constants and number of alcohol molecules bonded to both anion and dianion of quinones. The qualitative behavior and quantitative data both indicate the quinone-alcohol interaction as hydrogen bonding and the strength of hydrogen bond is dependant upon the nature of species involved in this couple. From the cyclic voltammetric data the relative effects of hydroxylic additives and different substituted quinones on equilibrium constant are also observed. Solvent effect is rationalized in favor of hydrogen bonding in terms of solvent polarity parameters. Published in Russian in Elektrokhimiya, 2007, Vol. 43, No. 7, pp. 851–860. The text was submitted by the authors in English.     

Redox-induced η5 ⇔ η3 haptotropy of the fluorenyl ligand in 9-substituted η5-fluorenylmanganesetricarbonyl complexes

It has been shown by cyclic voltammetry in THF within the –90 to 40 °C temperature range that fluorenyl (⁵-9-R-C₁₃H₈)Mn(CO)₃ complexes (R=Bu^t (3) and Ph (4)) undergo two-electron reduction to form allyl type [(³-9-R-C₁₃H₈)Mn(CO)₃]^2– dianions as final products. At low temperatures complexes3 and4 are reduced in two one-electron steps according to the EEC-scheme. The first step is reversible and corresponds to the formation of 19-radical anions 3^–. and 4^–.. TheE ⁰ values for redox pairs3 ^0/–. and4 ^0/–. are –1.88 and –1.73 V, respectively. The further reduction of radical anions3 ^–. and4 ^–. at more negative potentials is accompanied by fast ^{5 3} haptocoordination of the fluorenyl ligand to form 18-dianions [(³-9-R-C₁₃H₈)Mn(CO)₃]^2–. These dianions obtained by the reduction of complexes3 and4 by the radical anion of pyrene are stable at –80 °C and are characterized by their IR spectra. At room temperature the ^{5 3} hapticity change is a fast and reversible process occurring at the step of 19-radical anions3 ^–. and4 ^–. and leading to the electron deficient 17-species [(³-9-R-C₁₃H₈)Mn(CO)₃]^–., which are reduced easier than the initial complexes. As a result, complexes3 and4 are reduced to the corresponding dianions [(³-9-R-C₁₃H₈)Mn(CO)₃]^2– at room temperature in one reversible two-electron step according to the ECE-scheme. Reactivities of 19e^–-species of the isomeric ⁵- and ⁶-fluorenylmanganesetricarbonyl complexes are compared.Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 7, pp. 1347–1353, July, 1995.The work was financially supported by the Russian Foundation for Basic Research (Project No. 93-03-05209) and the International Science Foundation (Grant No. REV 000).     

Novel nonperipheral octa-3-hydroxypropylthio substituted metallo-phthalocyanines: synthesis,characterization, and investigation of their electrochemical,photochemical and computational properties

The current study describes the synthesis, electrochemical, computational, and photochemical properties of octa (3-hydroxypropylthio) substituted cobalt (II) ( 4 ), copper (II) ( 5 ), nickel (II) ( 6 ) and zinc(II) ( 7 ) phthalocyanine derivatives. These novel compounds were characterized by elemental analysis,¹H,¹³C NMR, FT-IR, UV-Vis, and MS. The redox behaviors of these metallo-phthalocyanines were investigated by the cyclic voltammetric method. The optimized molecular structure and gauge-including atomic orbital (GIAO)¹H and¹³C NMR chemical shift values of these phthalocyanines in the ground state had been calculated by using B3LYP/6–31G(d,p) basis set. The outcomes of the optimized molecular structure were given and compared with the experimental NMR values. The photochemical properties including photodegradation and singlet oxygen generation of zinc(II) phthalocyanine were studied in DMSO solution for the determination of its photosensitizer behaviors.     

Sol–gel synthesis and structural characterization of niobium-silicon mixed-oxide nanocomposites

(Nb₂O₅) _x ·(SiO₂)_1−x gels of four different compositions with x = 0.025 (2.5Nb), 0.050 (5Nb), 0,10 (10Nb) and 0.20 (20Nb) were synthesized at room temperature from niobium penta-chloride and tetra-ethoxysilane and their structural evolution with the temperature was examined by X-ray diffraction, thermogravimetry/differential thermal analysis, Raman and IR spectroscopy (Fourier transform). The synthesis procedure tuned in this work allowed to obtain for each studied composition transparent chemical gels in which the niobium dispersion resulted to be strongly dependent on the Nb₂O₅ loading: it was on the atomic scale for the 2.5Nb and 5Nb gel samples whereas the gel structure of the 10Nb and 20Nb appears formed by phase separated niobia-silica nanodomains. All dried gels keep their amorphous nature up to 873 K, while at higher temperatures crystallization of T- and H-Nb₂O₅ polymorphs were observed according to the Nb₂O₅ loading: at low loading T-Nb₂O₅ was the main crystallising phase, whereas at higher one the H-Nb₂O₅ prevails. Particularly, T-Nb₂O₅ was the sole crystallising phase in the whole explored temperature range for the 2.5Nb, keeping its nanosize up to 1273 K for all samples except for the 20Nb.