Synthesis,reactivity and biological activity of N(4)-boronated derivatives of 2′-deoxycytidine

By seeking new stable boron-containing nucleoside derivatives, potential BNCT boron delivery agents, a novel synthetic approach was tested, aimed at a boron attachment via a single bond to an aliphatic carbon of sp³ hybridization. The latter allowed successful modification of deoxycytidine in the reaction with 2-(iodomethyl)-4,4,5,5-tetramethyl-1,3,2-dioxaborolane of the deoxynucleoside amino group. For new compounds, detailed NMR, LDI HRMS (Laser Desorption/Ionization High-Resolution Mass Spectrometry) analyses along with in vivo phosphorylation studies, toxicity assays and DFT modelling are presented.     

Influence of nucleotide identity on ribose 2′-hydroxyl reactivity in RNA

Hydroxyl-selective electrophiles, including N-methylisatoic anhydride (NMIA) and 1-methyl-7-nitroisatoic anhydride (1M7), are broadly useful for RNA structure analysis because they react preferentially with the ribose 2′-OH group at conformationally unconstrained or flexible nucleotides. Each nucleotide in an RNA has the potential to form an adduct with these reagents to yield a comprehensive, nucleotide-resolution, view of RNA structure. However, it is possible that factors other than local structure modulate reactivity. To evaluate the influence of base identity on the intrinsic reactivity of each nucleotide, we analyze NMIA and 1M7 reactivity using four distinct RNAs, under both native and denaturing conditions. We show that guanosine and adenosine residues have identical intrinsic 2′-hydroxyl reactivities at pH 8.0 and are 1.4 and 1.7 times more reactive than uridine and cytidine, respectively. These subtle, but statistically significant, differences do not impact the ability of selective 2′-hydroxyl acylation analyzed by primer extension-based (SHAPE) methods to establish an RNA secondary structure or monitor RNA folding in solution because base-specific influences are much smaller than the reactivity differences between paired and unpaired nucleotides.     

Protein reactivity of natural product-derived γ-butyrolactones

The discovery of novel and unique target-drug pairs for the treatment of human diseases such as cancer and bacterial infections is an urgent goal of chemical and pharmaceutical sciences. Natural products represent an inspiring source of compounds for designing chemical biology methods with applications in target identification and characterization. Inspired by the huge structural diversity of γ-butyrolactones, which constitute up to 10% of all known compounds of natural origin, we extended the "activity-based protein profiling" (ABPP) target identification technology to this promising and so far unexplored natural compound class. We designed and synthesized a comprehensive set of natural product-derived γ-lactones and thiolactones that varied in protein reactivity. Several important bacterial enzymes that are involved in diverse cellular functions such as metabolism (dihydrolipoyl dehydrogenase and 6-phosphofructokinase), cell wall biosynthesis (MurA1 and MurA2), and protein folding (trigger factors) were obtained. Especially protein folding in bacteria could represent a novel strategy for antibiotic intervention and requires chemical tools for characterization and inhibition. Future studies that extend structural modifications to protein reactive α-methylene-γ-butyrolactone as well as to reversible binding γ-lactones and thiolactones will reveal if this premise holds true.     

The reactivity of bromoform with [Au(CH2)2PPh2]2. The completion of the halomethane series CHyX4−y (y=3,2,1,0; X=Cl,Br, I) and reactivity with [Au(CH2)2PPh2]2

The reaction of [Au(CH₂)₂PPh₂]₂ with excess CHBr₃ in benzene initially gives [Au(CH₂)₂PPh₂]₂₋ (CHBr₂)Br. This observation establishes that halomethanes, CH_yX_4−y (y=3,2,1,0; X=Cl, Br, I), react with [Au(CH₂)₂PPh₂]₂ to initially give Au(II) adducts of the general form [Au(CH₂)₂PPh₂]₂₋(CH_yX_3−y)X (y=3,2,1,0) via oxidative addition across the carbon-halogen bond. The order of reactivity inversely follows the order of carbon-halogen bond dissociation energies of haloalkanes. Methyl chloride is the only halomethane of the series that does not give a Au(II) adduct under similar reaction conditions.     

Synthesis and photochemical redox reactivity of an unsymmetrically substituted MnMn Bond: mer,fac-Mn2(CO)6(PMe2CH2PMe2)2

The reaction of Mn₂(CO)₁₀ with the diphosphine bis(dimethylphosphino)methane, dmpm, gives a mixture of two isomers: mer, fac-Mn₂(CO)₆(dmpm)₂, 1, and mer,mer-Mn₂(CO)₆(dmpm)₂, 2. Complex 1 is the first example of a bis(dmpm) complex with a cis,trans arrangement of the dmpm ligands. Both 1 and 2 can be thermally oxidized by one-electron to give the relatively stable binuclear radial cations [mer,fac-Mn₂(CO)₆(dmpm)₂]⁺, 3, and [mer,mer- Mn₂(CO)₆(dmpm)₂]⁺ , 4, respectively. The EPR spectra of 3 and 4 in THF indicate localization of unpaired spin density on one of the two Mn metal centers. The EPR of 4 in CH₂Cl₂ indicates delocalization of unpaired spin density over both Mn metal centers. The unsymmetrical isomer, 1, is a strong one-electron photoreductant. The excited state redox potential of 1, E° (3/1*), has been approximated to be −1.35 ⩽E° (3/1*)⩽−1.87 V vs. SCE. Under the same experimental conditions the symmetrical isomer 2 exhibits no photochemical redox behavior.     

Basic carboxyl groups of hemoglobin S: Influence of oxy-deoxy conformation on the chemical reactivity of Glu-43(β)

The -carboxyl groups of Glu-43() and Glu-22() of hemoglobin-S (HbS), two intermolecular contact residues of deoxy protein, are activated by carbodiimide atp H 6.0. The selectivity of the modification by the two nucleophiles, glycine ethyl ester (GEE) and glucosamine, is distinct. Influence ofN-hydroxysulfosuccinimide, a reagent that rescues carbodiimide-activated carboxyl (O-acyl isourea) as sulfo-NHS ester, on the overall selectivity and efficiency of the coupling of Glu-22() and Glu-43() with nucleophiles has been investigated. Sulfo-NHS increases the extent of coupling of nucleophiles to HbS. The rescuing efficiency of sulfo-NHS(increase in modification) with GEE and galactosamine as nucleophiles is 2.0 and 2.8, respectively. In the presence of sulfo-NHS, the extent of modification of a carboxyl group is a direct reflection of the extent to which it is activated (i.e., the protonation state of the carboxyl group). The modification reaction exhibits very high selectivity for Glu-43() with GEE and galactosamine (GA) in the presence of sulfo-NHS. From the studies of the kinetics of amidation of oxy-HbS at its Glu-43() (i.e., chemical reactivity) as a function of thepH in the region of 5.5–7.5, the apparentpKa of its -carboxyl group has been calculated to be 6.35. Deoxygenation of HbS, nearly doubles the chemical reactivity of Glu-43() of HbS atpH 7.0. It is suggested that the increased hydrophobicity of the microenvironment of Glu-43(), which occurs on deoxygenation of the protein, is reflected as the increased chemical reactivity of the -carboxyl group and could be one of the crucial preludes to the polymerization process.     

Photochemical reactivity of the homologous proteinsα-lactalbumin and lysozyme

Summary The fluorescent behaviour and the photodynamic effect was studied in native and structurally modified lysozyme and-lactalbumin.The Tyr residues in lysozyme and-lactalbumin show different sensitivities to the photodynamic effect. The effect is zero in the case of Tyr from native lysozyme. In contrast, the Tyr residues in-lactalbumin are susceptible to photooxidation, which indicates a greater degree of exposure to the solvent. The three His residues of-lactalbumin have different degrees of exposure and show two different kinetics of photooxidation whereas the His residue of lysozyme is photooxidized with a single kinetic.Two photooxidation kinetics were obtained for the Trp residues of both native proteins, an indication that in both cases there are Trp residues that are differently exposed to the solvent. The wavelengths of maximum fluorescent emission of the Trp residues were different for the two proteins, an effect which can also be explained in terms of a difference in the environment of these residues. The modified form of these proteins emit at wavelengths longer than those of the native forms. When modified the proteins photooxidize with noticeably greater quantum yields.     

The reactivity of thiol groups in bovine heart cytochrome c oxidase towards 5,5′-dithiobis(2-nitrobenzoic acid)

Bovine heart cytochrome c oxidase consists of 12 stoicheiometric polypeptide chains of at least 11 different types. The enzyme contains 14–16 cysteine residues; the distribution of nearly all cysteine residues over the subunits has been established. In native cytochrome c oxidase two thiol groups reacted rapidly and stoicheiometrically with 5,5′-dithiobis(2-nitrobenzoic acid) (DTNB). These thiol groups are located in subunits I and III, respectively. This implies that subunit I is not fully buried in the hydrophobic core of the enzyme. After dissociation of the enzyme by sodium dodecyl sulphate more thiol groups became available to DTNB, in addition to those in subunits I and III, at least one in subunit II, two in fraction V/VI and one to two in the smallest subunit fraction. It is shown that separation of the subunits of cytochrome c oxidase by gel permeation chromatography in the presence of sodium dodecyl sulphate depends on the pH of the elution medium. The elution volume of subunits I, III and VII is dependent on pH, that of the others independent.     

Synthesis and reactivity of novel γ-phosphate modified ATP analogues

We hereby present a simple yet novel chemical synthesis of a family of γ-modified ATPs bearing functional groups on the γ-phosphate that are amenable to further derivatization by highly selective chemical manipulations (e.g., click chemistry, Staudinger ligations). A preliminary screen of these compounds as phosphate donors with a typical wild type protein kinase (cdk2) and one of its known substrates p27^kip1 is also presented.     

Preparation and reactivity of a tetranuclear Fe(II) core in the metallothionein α-domain

Metallothioneins (MTs) are small cysteine-rich proteins which exhibit high affinities for various metal ions and play roles in storage of essential metals and detoxification of toxic metals. Studies on the redox properties of MTs have been quite limited. Recently, we focused on the α-domain of MT (MTα) as a protein matrix and incorporated a tetranuclear metal cluster as a reductant. UV-visible, CD and MS data indicate the formation of the stable tetranuclear metal-cysteine cluster in the MTα matrix with Fe^II₄-MTα and Co^II₄-MTα species existing in water. Furthermore, the Fe^II₄-MTα species was found to promote the reduction of met-myoglobin and azobenzene derivatives under mild conditions. Particularly, the stoichiometric reduction of methyl red with Fe^II₄-MTα (1:1) was found to proceed with a conversion of 98% over a period of 6 h at 25 °C. This indicates that all of the four Fe(II) cores contribute to the reduction. In this paper, we describe the preparation and reactivity of the tetranuclear iron cluster in the protein matrix.     

Synthesis and reactivity of perchlorate bis(tetrahydrothiophen)gold(I). 197Au Mössbauer spectra of three-coordinate gold(I) complexes

The displacement of tetrahydrothiophen (tht) in [Au(tht)₂]ClO₄ by neutral ligands gives bi-, tri- or tetra-coordinated complexes of the type [Au- (py)₂]ClO₄, [(tht)AuPPh₂NHPPh₂Au(tht)] (ClO₄)₂, [LAu(LL)]ClO₄ (L=tht, PPh₃; LL=bipy, phen) or [AuL₄]ClO₄ (L=PPh₃, AsPh₃ or SbPh₃). The reaction between [Au(tht)₂]ClO₄ and (Bu₄N)[AuR₂] (R=C₆F₅, C₆Cl₅, C₆F₃H₂) yields RAu(tht). The ¹⁹⁷Au Mössbauer spectrum of [LAu(LL)]ClO₄ establishes it as a tri-coordinated species, albeit with an asymmetrically linked bidentate ligand.     

Synthesis, characterization, and reactivity of (π-allyl)palladium(II) wrap-around complexes with 1,3-dienes

Synthesis of a series of cationic “wrap-around” complexes, η³-, η²- (CH₂-CH-CHR-CH₂-CH₂-CHCHX) Pd(II)L⁺ (R = H, CH₃; X = H, Cl, CO₂Me; L = PPh₃, P(C₄H₄N)₃), is described. These chelate complexes were prepared by exposure of π-allyl chloride dimers, (η³-(CH₂-CX-CH₂)PdCl)₂, to either 1,3-butadiene or isoprene to yield π-allyl chloride dimers of the type (η³-CH₂CHCRCH₂CH₂CH = CH(X)PdCl)₂ which result from insertion of the diene into each π-allyl unit. Abstraction of chloride with either AgSbF₆ or NaB(Ar_F)₄ in the presence of L gives the cationic wrap-around complexes in high yields. Single crystal X-ray diffraction studies of 8a (R = -CH₃, X = -Cl, L = PPh₃) and 9a (R = -H, X = -Cl, L = PPh₃) show that Pd(II) adopts essentially a square planar geometry and the chelate arm occupies a syn orientation with respect to the allyl unit. Exposure of these wrap-around complexes to nitriles of differing basicities displaces the chelated alkene to varying extents and allows assessment of the relative strengths of chelation as a function of substituents, X and R. Initial rapid displacement of the chelated alkene yields a syn-π-allyl isomer which equilibrates with the anti-π-allyl isomer which cannot close to form a chelate. Treatment of 8b with 1,3-butadiene gives not polybutadiene but 2-chloro-4-methyl-1,E-4,6-heptatriene and 2-chloro-4-methyl-1,Z-4,6-heptatriene. Formation of these trienes is first-order in butadiene. This reaction serves as a model for chain-transfer in the polymerization of butadiene.     

Solubility and reactivity of caseins and β-lactoglobulin in protic solvents

The study of the solubility of unstructured proteins (α_S1-, β-, and κ-casein) and well-structured globulin (β-lactoglobulin) in low water binary solvent systems demonstrated the crucial importance of solvent polarity and neutralization of protein polar functions on the final outcome of solubility experiments. The solubilities up to 38, 56, and 96% in CHCl₃/CH₃OH (1/1, v/v) acidified with HCl and up to 5, 10, and 25% in CHCl₃/CH₃OH (1/1, v/v) in the presence of triethylamine (TEA) were obtained for κ-, α_S1-, and β-casein, respectively. The importance of protein charge neutralization was apparent when the solubilization was performed in basified CHCl₃/CH₃OH media, giving the optimal results when the studied proteins were brought before to their isoionic point. The maximum solubility of β-casein at its pI in 30–70% methanol in CHCl₃ was reaching 50–60% with triethylamine (TEA) added. β-lactoglobulin could be solubilized up to 70% in CHCl₃/CH₃OH (7/3, v/v) acidified with HCl and up to 40% in CHCl₃/CH₃OH (3/7, v/v) in the presence of TEA. The observed yield of reductive alkylation of β-lactoglobulin was much higher (98%) when performed in studied solvent system than in aqueous conditions (75%). Apparently, steric hindrance of the well-folded β-barrel (in aqueous conditions) structure masks the portion of ε-NH₂ groups. In the case of unstructured aqueous media β-casein, 90% alkylation yields were obained in organic and aqueous conditions.     

The formation and reactivity of sulfito complexes of tetraethylenepentamine-cobalt(III): X-ray structure of αα-[co(tetren)SO3]ClO4

The synthesis of complexes of the type Co(tetren)-OH₂³⁺ (tetren = tetraethylenepentamine) and their reactions with sulfite to produce O- and S-bonded isomers were studied in detail. The linkage isomerization reaction of αβS-Co(tetren)OSO₂⁺ to αβS-Co(tetren)SO₃⁺ is accompanied by a geometrical isomerization to αα-Co(tetren)SO₃⁺. The latter species was isolated as pure crystals and an X-ray structure was determined. The structure data clearly show the strong trans effect of the sulfito ligand, which may account for the geometrical isomerization process.     

Modification of chemical reactivity via a novel interaction of light and matter — A review

A new interaction of light, in the VIS region, and matter is presented. Theoretical preliminaries are introduced to support the experiments, in which different physical systems are irradiated with 546 nm; the experimental results show the time of irradiation to be an essential parameter. A tentative theory is presented and the prospect of using the effect in the field of molecular computers is briefly outlined.