Is the hypothiocyanite anion (OSCN)- the major product in the peroxidase catalyzed oxidation of the thiocyanate anion (SCN)-? A joint experimental and theoretical study

The hypothiocyanate anion (OSCN)(-) is reported to be a major product of the lactoperoxidase/H(2)O(2)/(SCN)(-) system, and this anion is proposed to have significant antimicrobial properties. The collision induced (CID) negative ion mass spectrum of "(OSCN)(-)" has been reported: there is a pronounced parent anion at m/z 74, together with fragment anions at m/z 58 (SCN)(-) and 26 (CN)(-). These fragment anions are consistent with structure (OSCN)(-). However there is also a lesser peak at m/z 42 (OCN(-) or CNO(-)) in this spectrum which is either formed by rearrangement of (OSCN)(-) or from an isomer of this anion. The current theoretical investigation of (OSCN)(-) and related isomers, together with the study of possible rearrangements of these anions, indicates that ground-state singlet (OSCN)(-) is a stable species and that isomerization is unlikely. The three anions (OSCN)(-), (SCNO)(-), and (SNCO)(-) have been synthesized (in the ion source of a mass spectrometer) by unequivocal routes, and their structures have been confirmed by a consideration of their collision induced (negative ion) and charge reversal (positive ion) mass spectra. The CID mass spectrum of (SCNO)(-) shows formation of m/z 42 (CNO(-)), but the corresponding spectra of (OSCN)(-) or (SNCO)(-) lack peaks at m/z 42. Combined theoretical and experimental data support earlier evidence that the hypothiocyanite anion is a major oxidation product of the H(2)O(2)/(SCN)(-) system. However, the formation of m/z 42 in the reported CID spectrum of "(OSCN)(-)" does not originate from (OSCN)(-) but from another isomer, possibly (SCNO)(-).     

Can the anomalous aqueous solubility of beta-cyclodextrin be explained by its hydration free energy alone?

The well-documented anomalous solubility of beta-cyclodextrin (beta-CD), relative to alpha- and gamma-CD, has been examined by Naidoo et al. (J. Phys. Chem. B, 2004, 108, 4236-4238.) from the perspective of water organization and internal motion of the macrocyclic rings. Whether modulation in the hydration patterns and in the rigidity of the molecular scaffold can be reconciled with the hydration free energy of beta-CD to rationalize its notorious low solubility remains open to further investigation. In this contribution, multi-nanosecond molecular dynamics (MD) simulations have been carried out to investigate the hydration process of alpha-, beta- and gamma-CD. The distribution of water molecules involved in this process and the linearity of intramolecular hydrogen bonds have been analyzed. The results reported here demonstrate that the anomalous solubility for beta-CD can be essentially rationalized by its greater rigidity conferred by the participating intramolecular hydrogen bonds and the higher density of water molecules of lesser mobility. The hydration free energy of alpha-, beta- and gamma-CD was computed using the free energy perturbation method. This quantity is shown to increase with the number of glucose units, thereby suggesting that the anomalous solubility of beta-CD cannot be explained by its free energy of hydration alone.     

On the value of c: can low affinity systems be studied by isothermal titration calorimetry?

Isothermal titration calorimetry (ITC) allows the determination of DeltaG degrees, DeltaH degrees, and DeltaS degrees from a single experiment and is thus widely used for studying binding thermodynamics in both biological and synthetic supramolecular systems. However, it is widely believed that it is not possible to derive accurate thermodynamic information from ITC experiments in which the Wiseman "c" parameter (which is the product of the receptor concentration and the binding constant, K(a)) is less than ca. 10, constraining its use to high affinity systems. Herein, experimental titrations and simulated data are used to demonstrate that this dogma is false, especially for low affinity systems, assuming that (1) a sufficient portion of the binding isotherm is used for analysis, (2) the binding stoichiometry is known, (3) the concentrations of both ligand and receptor are known with accuracy, and (4) there is an adequate level of signal-to-noise in the data. This study supports the validity of ITC for determining the value of K(a) and, hence, DeltaG degrees from experiments conducted under low c conditions but advocates greater caution in the interpretation of values for DeltaH degrees. Therefore, isothermal titration calorimetry is a valid and useful technique for studying biologically and synthetically important low affinity systems.     

Dess-martin periodinane: The reactivity of a λ5-iodane catalyst explained by topological analysis

Dess-Martin periodinane (DMP) and its derivatives are popular organic catalysts. DMP is extremely reactive in the presence of alcohols, catalyzing their oxidative conversion into ketones. However, despite their widespread use, this reactivity has not yet been explained. In the present work, a quantum chemical topological approach is taken to study the electronic structure of DMP. Topological analysis revealed two of the Iodine interpuncts ligand interactions to be notably weaker than the two others. Combined with study of the domain-averaged Fermi hole (DAFH), it was confirmed that the iodine center is λ⁵-hypervalent, forming two 3-center-4-electron and two 3-center-2-electrons bonds. The weakness of these multicenter bonds is ascribed to the high reactivity displayed by DMP. The ability to tune the ligand-iodine interactions is investigated by altering the electronic structure of the ligands. It is demonstrated that DAFH analysis offers powerful insight into the understanding of molecular reactivity.     

Homochiral crystallization of helical coordination chains bridged by achiral ligands: can it be controlled by the ligand structure?

Homochiral/heterochiral crystallizations of helical chiral polymer chains bridged by achiral poly-pyridyl ligands dependent on the structures of the bridging ligands and independent on the solvent are described, implying a possible strategy to design achiral crystals of helical chains using chiral bridging ligands.     

Sensing or no sensing: can the anomeric effect be probed by a sensing molecule?

The anomeric effect plays a central role in carbohydrate chemistry, but its origin is controversial, and both the hyperconjugation model and the electrostatic model have been proposed to explain this phenomenon. Recently, Cocinero et al. designed a peptide sensor, which can bind to a sugar molecule methyl D-galactose, and claimed that the anomeric effect can be sensed by the spectral changes from the β- to the α-complex, which are ultimately attributed to the lone pair electron density change on the endocyclic oxygen atom [Nature 2011, 469, 76; J. Am. Chem. Soc. 2011, 133, 4548]. Here, we provide strong computational evidence showing that the observed spectral changes simply come from the conformational differences between the α- and β-anomers, as the replacement of the endocyclic oxygen atom with a methylene group, which disables both the endo- and the exo-anomeric effects in methyl D-galactose, leads to similar spectral shifts. In other words, the "sensor" cannot probe the anomeric effect as claimed. We further conducted detailed energetic and structural analyses to support our arguments.     

Reduction of strained polycycles: how much strain can a pyrene anion take?

The reduction of a series of [n](2,7)pyrenophanes (n = 7-10) with lithium or potassium metal shows that the strain in the system, controlled by the length of the tether, determines the nature of the reduction products. The reduction of [7](2,7)pyrenophane (2) and [2]metacyclo[2](2,7)pyrenophane (3) leads to reductive dimerization followed by novel intramolecular sigma-bond formation as a means of escaping strained anti-aromaticity. [8](2,7)Pyrenophane (4) affords only reductive dimerization, and no two-electron reduction is observed. The reduction of [9](2,7) pyrenophane (5) and [10](2,7)pyrenophane (6) leads to reductive dimerization, followed by the formation of a dianionic anti-aromatic species, which eventually cleaves the solvent, THF-d(8). The similarity between the reduction of the latter systems and the reduction of pyrene (1) is discussed.     

Solvation in pure liquids: what can be learned from the use of pairs of indicators?

The solvation of six solvatochromic probes in a large number of solvents (33-68) was examined at 25 degrees C. The probes employed were the following: 2,6-diphenyl-4-(2,4,6-triphenylpyridinium-1-yl) phenolate (RB); 4-[(E)2-(1-methylpyridinium-4-yl)ethenyl] phenolate, MePM; 1-methylquinolinium-8-olate, QB; 2-bromo-4-[(E)-2-(1-methylpyridinium-4-yl)ethenyl] phenolate, MePMBr, 2,6-dichloro-4-(2,4,6-triphenyl pyridinium-1-yl) phenolate (WB); and 2,6-dibromo-4-[(E)-2-(1-methylpyridinium-4-yl)ethenyl] phenolate, MePMBr(2), respectively. Of these, MePMBr is a novel compound. They can be grouped in three pairs, each with similar pK(a) in water but with different molecular properties, for example, lipophilicity and dipole moment. These pairs are formed by RB and MePM; QB and MePMBr; WB and MePMBr(2), respectively. Theoretical calculations were carried out in order to calculate their physicochemical properties including bond lengths, dihedral angles, dipole moments, and wavelength of absorption of the intramolecular charge-transfer band in four solvents, water, methanol, acetone, and DMSO, respectively. The data calculated were in excellent agreement with available experimental data, for example, bond length and dihedral angles. This gives credence to the use of the calculated properties in explaining the solvatochromic behaviors observed. The dependence of an empirical solvent polarity scale E(T)(probe) in kcal/mol on the physicochemical properties of the solvent (acidity, basicity, and dipolarity/polarizability) and those of the probes (pK(a), and dipole moment) was analyzed by using known multiparameter solvation equations. For each pair of probes, values of E(T)(probe) (for example, E(T)(MePM) versus E(T)(RB)) were found to be linearly correlated with correlation coefficients, r, between 0.9548 and 0.9860. For the mercyanine series, the values of E(T)(probe) also correlated linearly, with (r) of 0.9772 (MePMBr versus MePM) and 0.9919 (MePMBr(2) versus MePM). The response of each pair of probes (of similar pK(a)) to solvent acidity is the same, provided that solute-solvent hydrogen-bonding is not seriously affected by steric crowding (as in case of RB). We show, for the first time, that the response to solvent dipolarity/polarizability is linearly correlated to the dipole moment of the probes. The successive introduction of bromine atoms in MePM (to give MePMBr, then MePMBr(2)) leads to the following linear decrease: pK(a) in water, length of the phenolate oxygen-carbon bond, length of the central ethylenic bond, susceptibility to solvent acidity, and susceptibility to solvent dipolarity/polarizability. Thus studying the solvation of probes whose molecular structures are varied systematically produces a wealth of information on the effect of solute structure on its solvation. The results of solvation of the present probes were employed in order to test the goodness of fit of two independent sets of solvent solvatochromic parameters.     

Towards surface acid–base property of the carboxylic multi-walled carbon nanotubes by zero current potentiometry

The surface acid–base property of carboxylic multi-walled carbon nanotubes (MWNTs) is investigated by zero current potentiometry with a new electrochemical measurement system. The pH dependent interface potential variation at the interface of carboxylic MWNTs/solution is investigated by measuring zero current potential E_zcp. In the pH range of 1–11, the pH response of carboxylic MWNTs exhibits two linear relationships according to the following equations: E_zcp = 0.791–0.0535 pH (pH 1–5.1) and E_zcp = 0.643–0.0241 pH (pH 5.1–11), respectively. The intersection at pH 5.1 of two regions indicates the surface pK_a value of carboxylic group terminated MWNTs.     

Deiodination of thyroid hormones by iodothyronine deiodinase mimics: does an increase in the reactivity alter the regioselectivity?

Organoselenium compounds as functional mimics of iodothyronine deiodinase are described. The naphthyl-based compounds having two selenol groups are remarkably efficient in the inner-ring deiodination of thyroxine. The introduction of a basic amino group in close proximity to one of the selenol moieties enhances the deiodination. This study suggests that an increase in the nucleophilic reactivity of the conserved Cys residue at the active site of deiodinases is very important for effective deiodination.     

Chemical reactivity of the imidazole: a semblance of pyridine and pyrrole?

It has been suggested that pyridine and pyrrole could be patterns for imidazole reactivity studies due to the amine (-NH-) and aza (-N═) nitrogen atoms. The analyses of the local and global electronic indexes prove and quantify that imidazole has an intermediate analogy between pyrrole and pyridine.     

Can the absence of solvation of neutral reagents by ionic liquids be responsible for the high reactivity in base-assisted intramolecular nucleophilic substitutions in these solvents?

[reaction: see text] The kinetics of the rearrangement of the Z-phenylhydrazone of 3-benzoyl-5-phenyl-1,2,4-oxadiazole (1a) into the relevant 4-benzoylamino-2,5-diphenyl-1,2,3-triazole (2a) induced by amines have been studied in two room-temperature ionic liquids (IL-1, [BMIM][BF4] and IL-2, [BMIM][PF6]). The data collected show that the reaction occurs faster in ionic liquids than in other conventional solvents previously studied (both polar or apolar, protic or aprotic). Presumably, this could depend on their peculiar ability to minimize the strong substrate-solvent, amine-solvent and amine-amine interactions occurring in conventional solvents.     

Structural insight into the anion–water cluster: stabilised by alcohol and carboxylic acid containing tripodal ligand

A new flexible N-bridged, unsymmetrical, water-soluble tripodal ligand (L) bearing alcohol and carboxylic acid groups has been synthesised and its solid-state interaction with anions has been investigated. The fully deprotonated ligand encapsulates a sodium cation in a half cryptand bowl-shaped cavity (1). The chloride complex 2, contains a cyclohexane-like water cluster incorporating ligand OH groups. However, complexes with bromide and nitrate (3 and 4) are dimeric. Tetrahedral clusters containing two water molecules and two anions were found in complexes 3 and 4. Perchlorate complex 5 forms perchlorate–methanol adducts. Complex 1 forms a hydrophilic cation–water channel and complexes 2–4 form anion–water channels between the hydrophobic layers of the naphthalene moieties. Complexes 2, 5 and 3, 4 are isostructural in nature having similar packing structures.     

Study of the GC-MS determination of the palmitic-stearic acid ratio for the characterisation of drying oil in painting: La Encarnación by Alonso Cano as a case study

The correct identification of drying oils plays an essential role in providing an understanding of the conservation and deterioration of artistic materials in works of art. To this end, this work proposes the use of peak area ratios from fatty acids after ensuring that the linear responses of the detector are tested. A GC-MS method, previously reported in the literature, was revisited to its developed and validated in order to identify and quantify of eight fatty acids that are widely used as markers for drying oils in paintings, namely myristic acid (C(14:0)), palmitic acid (C(16:0)), stearic acid (C(18:0)), oleic acid (C(18:1)), linoleic acid (C(18:2)), suberic acid (2C(8)), azelaic acid, (2C(9)) and sebacic acid (2C(10)). The quaternary ammonium reagent m-(trifluoromethyl)phenyltrimethylammonium hydroxide (TMTFAH) was used for derivatization prior to GC-MS analysis of the oils. MS spectra were obtained for each methyl ester derivative of the fatty acids and the characteristic fragments were identified. The method was validated in terms of calibration functions, detection and quantification limits and reproducibility using the signal recorded in SIR mode, since two of the methyl derivatives were not totally separated in the chromatographic run. The proposed method was successfully applied to identify and characterise the most widely used drying oils (linseed oil, poppy seed oil and walnut oil) in the painting La Encarnación. This 17th century easel painting is located in the main chapel of the cathedral in Granada (Spain) and was painted by the well-known artist of the Spanish Golden Age, Alonso Cano (1601-1667).     

Operando ATR-FTIR analysis of liquid-phase catalytic reactions: can heterogeneous catalysts be observed?

The applicability of a React-IR™ system, containing a diamond attenuated total reflection (ATR) crystal, in heterogeneous liquid-phase catalytic reactions was evaluated by analysis of the catalytic esterification of 1-octanol and hexanoic acid over a Nafion/silica catalyst in an open reflux configuration at atmospheric pressure. The reaction was performed in either cumene (at 427 K) or n-decane (at 447 K). The concentration profiles of the esterification reaction, as determined by this real-time in situ IR spectroscopic technique, are in qualitative and quantitative agreement with those determined by conventional off-line GC analysis.Interestingly, besides the bands assigned to the ester, alcohol, and acid, an additional strong and broad absorption band was observed at around 1100 cm⁻¹ in the spectra during the esterification reaction in cumene (at 427 K). It was assessed by variation of the reaction mixture that this band is a result of the reaction of silica with octanol, yielding Si–O–R functionalities. The relevance of this reaction for the kinetics of the studied catalytic esterification, is discussed. More importantly, the contribution of solid particles and leached species to the 1100 cm⁻¹ band is evaluated. Strong indications exist that solid catalyst particles are contributing to the spectra, implying that on-line analysis of intermediate species adsorbed on heterogeneous catalysts is in specific cases possible using the React-IR™ technique.     

Asymmetric benzoin condensation catalyzed by chiral rotaxanes tethering a thiazolium salt moiety via the cooperation of the component: can rotaxane be an effective reaction field?

Although some reactions on rotaxanes have been reported, the characteristic features of the rotaxanes providing unique reaction fields have hardly been studied, especially as catalyst. In our continuous studies on interlocked molecules such as rotaxanes and catenanes, we have noticed the importance of such interlocked structures with high freedom in functionalized materials such as molecular catalyst. For catalytic asymmetric benzoin condensations, two optically active rotaxanes possessing thiazolium salt moieties were prepared using the binaphthyl group as the chiral auxiliary. The benzoin condensations of aromatic aldehydes catalyzed by the chiral rotaxanes as catalysts gave optically active benzoins with ca. 30% ee in moderate to high chemical yields depending upon the structure of rotaxane and the reaction conditions employed. From the results, two intrarotaxane chirality transfers are confirmed: (i) through-space chirality transfer from wheel to axle and (ii) through-bond chirality transfer controlled with an achiral wheel. Because these asymmetric reaction fields are specific to the rotaxane structure, the importance and possibility of the "rotaxane field" as a particular reaction field is demonstrated in this work.     

Concerning the question of covalent bonding in hypericin-chromoproteins: Schiff base formation?

Summary Depending on the reaction conditions,peri-hydroxy substituted anthraquinones like 1,8-dihydroxyanthraquinone and 1,4-dihydroxyanthraquinone could be derivatized with ammonia, propylamine, isopropylamine, and a lysine derivative to yield a variety of imino and amino substitution and addition products. However, hypericin resisted such derivatization under a variety of reaction conditions. Therefore, the hypothesis that hypericin is bound to its apoprotein in photopigmentsvia a Schiff base to the -amino group of a lysine residue or a terminal amino group seems to be rather unlikely.

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Zur Frage der kovalenten Bindung in Hypericin-Chromoproteiden: Schiff-Basenbildung?

Zusammenfassung Abhängig von den Reaktionsbedingungen gabenperi-hydroxylsubstituierte Anthrachinone, wie 1,8-Dihydroxyanthrachinon oder 1,4-Dihydroxyanthrachinon, mit Propylamin, Isopropylamin und einem Lysinderivat eine Reihe von Imino- und Amino-Substitutionsprodukten oder Addukten. Allerdings widerstand Hypericin unter Variation der Reaktionsbedingungen einer solchen Derivatisierung. Deshalb ist die Hypothese, daß Hypericin in seinen Photopigmenten über eine Schiffsche Base mit der -Aminogruppe eines Lysinrestes oder mit einer terminalen Aminogruppe verknüpft ist, eher unwahrscheinlich.

     

Spectroscopic and computational studies of α-keto acid binding to Dke1: understanding the role of the facial triad and the reactivity of β-diketones

The O(2) activating mononuclear nonheme iron enzymes generally have a common facial triad (two histidine and one carboxylate (Asp or Glu) residue) ligating Fe(II) at the active site. Exceptions to this motif have recently been identified in nonheme enzymes, including a 3His triad in the diketone cleaving dioxygenase Dke1. This enzyme is used to explore the role of the facial triad in directing reactivity. A combination of spectroscopic studies (UV-vis absorption, MCD, and resonance Raman) and DFT calculations is used to define the nature of the binding of the α-keto acid, 4-hydroxyphenlpyruvate (HPP), to the active site in Dke1 and the origin of the atypical cleavage (C2-C3 instead of C1-C2) pattern exhibited by this enzyme in the reaction of α-keto acids with dioxygen. The reduced charge of the 3His triad induces α-keto acid binding as the enolate dianion, rather than the keto monoanion, found for α-keto acid binding to the 2His/1 carboxylate facial triad enzymes. The mechanistic insight from the reactivity of Dke1 with the α-keto acid substrate is then extended to understand the reaction mechanism of this enzyme with its native substrate, acac. This study defines a key role for the 2His/1 carboxylate facial triad in α-keto acid-dependent mononuclear nonheme iron enzymes in stabilizing the bound α-keto acid as a monoanion for its decarboxylation to provide the two additional electrons required for O(2) activation.     

Effect of the axial ligand on the reactivity of the oxoiron(IV) porphyrin π-cation radical complex: higher stabilization of the product state relative to the reactant state

The proximal heme axial ligand plays an important role in tuning the reactivity of oxoiron(IV) porphyrin π-cation radical species (compound I) in enzymatic and catalytic oxygenation reactions. To reveal the essence of the axial ligand effect on the reactivity, we investigated it from a thermodynamic viewpoint. Compound I model complexes, (TMP(+?))Fe(IV)O(L) (where TMP is 5,10,15,20-tetramesitylporphyrin and TMP(+?) is its π-cation radical), can be provided with altered reactivity by changing the identity of the axial ligand, but the reactivity is not correlated with spectroscopic data (ν(Fe═O), redox potential, and so on) of (TMP(+?))Fe(IV)O(L). Surprisingly, a clear correlation was found between the reactivity of (TMP(+?))Fe(IV)O(L) and the Fe(II)/Fe(III) redox potential of (TMP)Fe(III)L, the final reaction product. This suggests that the thermodynamic stability of (TMP)Fe(III)L is involved in the mechanism of the axial ligand effect. Axial ligand-exchange experiments and theoretical calculations demonstrate a linear free-energy relationship, in which the axial ligand modulates the reaction free energy by changing the thermodynamic stability of (TMP)Fe(III)(L) to a greater extent than (TMP(+?))Fe(IV)O(L). The linear free energy relationship could be found for a wide range of anionic axial ligands and for various types of reactions, such as epoxidation, demethylation, and hydrogen abstraction reactions. The essence of the axial ligand effect is neither the electron donor ability of the axial ligand nor the electron affinity of compound I, but the binding ability of the axial ligand (the stabilization by the axial ligand). An axial ligand that binds more strongly makes (TMP)Fe(III)(L) more stable and (TMP(+?))Fe(IV)O(L) more reactive. All results indicate that the axial ligand controls the reactivity of compound I (the stability of the transition state) by the stability of the ground state of the final reaction product and not by compound I itself.     

How can the nanocrystallinity of 7 nm spherical Co nanoparticles dispersed in solution be improved?

We report a solution-phase annealing of spherical Co nanocrystals synthesized in reverse micelles and coated with dodecanoic acid. The deposition of a drop of solution on a transmission electron microscope grid shows that a progressive increase in the temperature to 316 °C results in the progressive crystallographic transition from a polycrystalline and probably face-centered cubic Co phase to the single-crystalline hexagonal close-packed (hcp) Co phase. These nanocrystals are highly stable against oxidation and coalescence. We stress that, to our knowledge, this constitutes the first example in the literature of pure hcp-Co spherical single crystals dispersed in solution. These nanocrystals can be freely manipulated and, due to their low size dispersion, can self-organize on various substrates.