Interaction with glycine increases stability of a mutagenic tautomer of uracil. A density functional theory study

The most stable structures for the gas-phase complexes of minor tautomers of uracil (U) with glycine (G) were characterized at the density functional B3LYP/6-31++G level of theory. These are cyclic structures stabilized by two hydrogen bonds. The relative stability of isolated tautomers of uracil was rationalized by using thermodynamic and structural arguments. The stabilization energies for complexes between the tautomers of U and G result from interplay between the stabilizing two-body interaction energies and destabilizing one-body terms. The latter are related to the energies of (i) tautomerization of the unperturbed moieties and (ii) distortions of the resulting rare tautomers in the complex. The two-body term describes the interaction energy between distorted tautomers. The two-body interaction energy term correlates with perturbations of length of the proton-donor bonds as well as with deprotonation enthalpies and proton affinities of the appropriate monomer sites. It was demonstrated that the relative instability of rare tautomers of uracil is diminished due to their interactions with glycine. In particular, the instability of the third most stable tautomer (U(III)) is decreased from 11.9 kcal/mol for non-interacting uracil to 6.7 kcal/mol for uracil in a complex with the zwitterionic tautomer of glycine. A decrease of instability by 5.2 kcal/mol could result in an increase of concentration of U(III) by almost 5 orders of magnitude. This is the tautomer with proton donor and acceptor sites matching guanine rather than adenine. Moreover, kinetic characteristics obtained for the glycine-assisted conversion of the most stable tautomer of uracil (U(I)) to U(III) indicate that the U(I)<-->U(III) thermodynamic equilibrium could be easily attained at room temperature. The resulting concentration of this tautomer falls in a mutationally significant range.     

Divergent coordination mode of magnesium and zinc alkyls supported by the bifunctional pyrrolylaldiminato ligand

The first magnesium and zinc alkyls derived from N-(iso-propyl)-pyrrolylaldimine have been synthesised and structurally characterised: both tBuM(N,N')-type compounds exist as three-coordinate monomers in benzene solution, but in the solid state the magnesium complex is a centrosymmetric dimer with Mg2(mu-N)2 bridges, whereas the zinc complex is a Zn...pi bonded dimer with a pi-coordinated pyrrole unit.     

Adsorption of water vapour from humid air by selected carbon adsorbents

The water uptake by carbon molecular sieves (CMS) and graphitized carbons, all of which are used to determine volatile organic compounds in air, was investigated using a direct experimental approach. CMS, e.g. Carboxen 1002, Carboxen 1003 and Anasorb CMS adsorb substantial amounts of water, in the range 400 to 450 mg per gram of adsorbent. Graphitized carbons, e.g. Carbrogaph 5TD and Carbopack X show low water trapping, less than 30 mg g(-1) and Carbopack Y as little as 5 mg g(-1) or less. The water sorption capacity for graphitized carbons is strongly dependent on the relative humidity (RH). The change of RH from 95 to 90% decreases the amount of adsorbed water by more than a factor of 2. Two different water adsorption mechanisms are operative: adsorption on polar centers and micropore volume filling. For graphitized carbons and CMS at low RH, adsorption on polar centers is involved. For CMS, once the threshold value of relative humidity (RHth) is surpassed, micropore volume filling becomes predominant. RHth is 44 +/- 3 and 42 +/- 3% for Carboxen 1002 and 1003, respectively, and 32 +/- 3% for Anasorb CMS. The CMS mass in the trap was found not to affect the mass of retained water under condition of incomplete saturation of adsorbent bed with water. Thus, the restrictions commonly imposed on the CMS mass are not necessary. The dry purging technique is suggested to remove adsorbed water. Carbograph 5TD and Carbopack X require only a few hundred ml of dry air to remove adsorbed water entirely. Water can also be purged out from CMS; however, much larger volumes of dry air are needed.     

Synthesis,crystal structure,magnetism, and absorption spectra of A2UX5 Type Halides (A = K,Rb; X = Cl,Br, I)

The ternary uranium(III) halides A₂UX₅ (A = K, Rb; X = Cl, Br, I) have been prepared from the binary components AX and UX₃ in sealed tantalum containers. According to their Guinier X-ray powder patterns, they all crystallize with the K₂PrCl₅/Y₂HfS₅ type of structure. Lattice constants for ambient temperature are reported. Single-crystal structure refinemens were undertaken for K₂UI₅ and Rb₂UCl₅. Magnetic susceptibility data were recorded with a SQUID magnetometer from liquid helium to room temperature. One-dimensional (intrachain) and three-dimensional antiferromagnetic ordering occur at low temperatures dependent upon the U³⁺? U³⁺ distance. Absorption spectra were recorded between 4 000 and 28 000 cm^?1. They show f—f transitions typical for U³⁺ and, depending on the halide, very strong f—d transitions above 14 000 to 15 000 cm^?1, respectively.     

On a characterization of finite dimensional real linear spaces

LetX be a real linear space; if is a linear topology onX, let denote the class of all bounded with respect to subsets ofX. In this paper it is shown that the spaceX is algebraically finite dimensional if and only if the class of all convex, absorbing and radially bounded subsets ofX is included in the intersection of all , where runs the set of all linear topologies onX.     

Modification of the Cp′ ring in the ferrocifen precursor and its influence on the recognition by the estrogen receptor

A synthetic pathway giving access to diphenyl ethylene organometallic derivatives possessing the ferrocifen precursor skeleton modified in the Cp′ ring is described. It relies on reaction of the (η⁵-propionylcyclopentadienyl) (η⁶-benzene)iron(II) salt 7 with substituted cyclopentadienyl anions or their heteroanalogs followed by the McMurry coupling reaction with 4,4′-dihydroxybenzophenone. Using this approach pentamethylcyclopentadienyl and 3,4-dimethylphospholyl analogs of ferrocifen precursor (10 and 11) have been synthesized. Even with the presence of the bulky and containing phosphorus η⁵-ligands these compounds are still recognized by the two subtypes of estrogen receptor(ERα and ERβ).     

Stabilization of very rare tautomers of 1-methylcytosine by an excess electron

We characterized valence anionic states of 1-methylcytosine using various electronic structure methods. We found that the most stable valence anion is related to neither the canonical amino-oxo nor a rare imino-oxo tautomer, in which a proton is transferred from the N4 to N3 atom. Instead, it is related to an imino-oxo tautomer, in which the C5 atom is protonated. This anion is characterized by an electron vertical detachment energy (VDE) of 2.12 eV and it is more stable than the anion based on the canonical tautomer by 1.0 kcal/mol. The latter is characterized by a VDE of 0.31 eV. Another unusual low-lying imino-oxo tautomer with a VDE of 3.60 eV has the C6 atom protonated and is 3.6 kcal/mol less stable than the anion of the canonical tautomer. All these anionic states are adiabatically unbound with respect to the canonical amino-oxo neutral, with the instability of 5.8 kcal/mol for the most stable valence anion. The mechanism of formation of anionic tautomers with carbon atoms protonated may involve intermolecular proton transfer or dissociative electron attachment to the canonical neutral tautomer followed by a barrier-free attachment of a hydrogen atom to the C5 or C6 atom. The six-member ring structure of anionic tautomers with carbon atoms protonated is unstable upon an excess electron detachment. Indeed the neutral systems collapse without a barrier to a linear or a bicyclo structure, which might be viewed as lesions to DNA or RNA. Within the PCM hydration model, the anions become adiabatically bound with respect to the corresponding neutrals, and the two most stable tautomers have a carbon atom protonated.     

Barrier-free intermolecular proton transfer induced by excess electron attachment to the complex of alanine with uracil

The photoelectron spectrum of the uracil-alanine anionic complex (UA)(-) has been recorded with 2.540 eV photons. This spectrum reveals a broad feature with a maximum between 1.6 and 2.1 eV. The vertical electron detachment energy is too large to be attributed to an (UA)(-) anionic complex in which an intact uracil anion is solvated by alanine, or vice versa. The neutral and anionic complexes of uracil and alanine were studied at the B3LYP and second-order M?ller-Plesset level of theory with 6-31++G(*) (*) basis sets. The neutral complexes form cyclic hydrogen bonds and the three most stable neutral complexes are bound by 0.72, 0.61, and 0.57 eV. The electron hole in complexes of uracil with alanine is localized on uracil, but the formation of a complex with alanine strongly modulates the vertical ionization energy of uracil. The theoretical results indicate that the excess electron in (UA)(-) occupies a pi(*) orbital localized on uracil. The excess electron attachment to the complex can induce a barrier-free proton transfer (BFPT) from the carboxylic group of alanine to the O8 atom of uracil. As a result, the four most stable structures of the uracil-alanine anionic complex can be characterized as a neutral radical of hydrogenated uracil solvated by a deprotonated alanine. Our current results for the anionic complex of uracil with alanine are similar to our previous results for the anion of uracil with glycine, and together they indicate that the BFPT process is not very sensitive to the nature of the amino acid's hydrophobic residual group. The BFPT to the O8 atom of uracil may be relevant to the damage suffered by nucleic acid bases due to exposure to low energy electrons.     

Kinetics and mechanism of base hydrolysis of Reinecke's salt revisited – specific salt effects

The kinetics of base hydrolysis of the trans-[Cr(NH₃)₂(NCS)₄]^– anion follows the rate law: -d[complex]/dt = k ₀ + k ₁[OH^–] (50–70 °C, [OH^–] = 0.1–1.9 M and = 2.0 M). The specific salt effect has been investigated for eight aqueous media: NaCl, NaBr, NaI, NaClO₄, KCl, KBr, CsCl and CsBr. The alkali-independent path (k ₀) does not show any specific effect of inert electrolyte ions, the activation parameters: H = 113.5 ± 0.4 kJ mol^–1 and S = 24.1 ± 1.3 J mol^–1 K^–1 are interpreted in the frame of a dissociative interchange mechanism (I _d). For the alkali-dependent path (k ₁) the specific salt effect is observed for cations of the inert electrolyte, showing an important role for ion-pair formation between the cations and reagent complex anion in the activation process. A linear correlation between lnk ₁ and lnK ₀ (K ₀ – ion-pair formation constant) has been found for the cations studied. The dissociative, via conjugate base, mechanism (D _CB) has been proposed for the alkali-dependent path.     

CHEMILUMINESCENCE IN THE PEROXIDATION OF TANNIC ACID

Abstract— Peroxidation of tannins with alkaline H₂O₂ is accompanied by weak chemiluminescence in the spectral region 480–800 nm. o-Di and tri-hydroxy groups of polyphenols undergo oxidation by a free-radical mechanism and a green intermediate anion-radical with absorption Δ_max= 600 nm is formed. The radical mechanism is supported by the low activation energy 14–20 kJ/mol and the quenching effect of radical scavengers. The reaction of the green intermediate with peroxy anions is the chemiluminescence rate limiting step. In the presence of a-hydroxy-methylperoxide formed from H₂O₂ and formaldehyde, the alkaline peroxidation of tannins is accompanied by strong red luminescence (420–800 nm). The base catalyzed decomposition of peroxides gives only a weak red emission (460–800 nm). Light intensity is enhanced in D₂O by a factor 6.5. Quenchers of O₂(¹Δ_g) and 1,3-di-phenylisobenzofurane diminish light intensity in non-aqueous solutions. The data suggest ¹O₂ participation in the observed chemiluminescence. Thermo-chemical calculations give —ΔH values from 250–1000 kJ/mol for one elementary reaction step which limits the mechanism of chemi-enereization. Chemiexcitation of tannins is relevant to biochemical mechanisms of aerobic degradation of aromatic compounds, energy utilization as well as to defense and resistance processes in plants.