Multicanonical schemes for mapping out free-energy landscapes of single-component and multicomponent systems

Multicanonical (MUCA) sampling is a powerful approach for simulating large domains of thermodynamic macrostate space that relies on mapping out either the density of states or a free energy of the system as a function of a suitable "order parameter." The purpose of this study is to extend and apply to more complex systems the method introduced in a previous paper [M. K. Fenwick and F. A. Escobedo, J. Chem. Phys. 120, 3066 (2004)] that uses Bennett's acceptance ratio method for estimating MUCA free energies. Four types of MUCA schemes are considered according to what order parameter is adopted and how the macrostate space is traversed: a la grand canonical ensemble, a la semigrand canonical ensemble, a la semigrand isothermal-isobaric ensemble, and a la isothermal-isobaric ensemble. Two types of systems are studied, the first is a two-component Lennard-Jones mixture that exhibits a vapor-liquid transition, and the second is a hard-cuboid containing system that exhibits an isotropic-liquid crystalline transition. These systems are simulated with different MUCA schemes and the resulting free-energy profiles are used to determine phase-coexistence conditions. For the Lennard-Jones systems, it is also demonstrated that different types of MUCA simulations can be conveniently performed over different macrostate regions and the results can be subsequently pieced together into a continuous weighting function.     

Concentrations of some elements in the coastal sea sediments: Bays with marinas

Summary Surface sediments and sediment cores from two bays in the Adriatic sea (Punat Bay and Soline Bay, Croatia) have been analyzed for a number of elements, in particular: Ti, V, Mn, Fe, Cu, Zn, As and Pb, by using XRF. Maps of elemental distribution in surface sediments show increased concentrations for some elements present in antifouling paints (Cu, Zn, Pb) near the service areas in the villages or marinas. Core profiles for these elements were used to evaluate the environmental impact of newly constructed marinas. Source partition indicates the influence of other sources located in near by villages. The critical factor in these considerations was shown to be water exchange with the open sea.     

New class of potent catalysts of O2.-dismutation. Mn(III) ortho-methoxyethylpyridyl- and di-ortho-methoxyethylimidazolylporphyrins

Three new Mn(III) porphyrin catalysts of O2.-dismutation (superoxide dismutase mimics), bearing ether oxygen atoms within their side chains, were synthesized and characterized: Mn(III) 5,10,15,20-tetrakis[N-(2-methoxyethyl)pyridinium-2-yl]porphyrin (MnTMOE-2-PyP(5+)), Mn(III)5,10,15,20-tetrakis[N-methyl-N'-(2-methoxyethyl)imidazolium-2-yl]porphyrin (MnTM,MOE-2-ImP(5+)) and Mn(III) 5,10,15,20-tetrakis[N,N'-di(2-methoxyethyl)imidazolium-2-yl]porphyrin (MnTDMOE-2-ImP(5+)). Their catalytic rate constants for O2.-dismutation (disproportionation) and the related metal-centered redox potentials vs. NHE are: log k(cat)= 8.04 (E(1/2)=+251 mV) for MnTMOE-2-PyP(5+), log k(cat)= 7.98 (E(1/2)=+356 mV) for MnTM,MOE-2-ImP(5+) and log k(cat)= 7.59 (E(1/2)=+365 mV) for MnTDMOE-2-ImP(5+). The new porphyrins were compared to the previously described SOD mimics Mn(III) 5,10,15,20-tetrakis(N-ethylpyridinium-2-yl)porphyrin (MnTE-2-PyP(5+)), Mn(III) 5,10,15,20-tetrakis(N-n-butylpyridinium-2-yl)porphyrin (MnTnBu-2-PyP(5+)) and Mn(III) 5,10,15,20-tetrakis(N,N'-diethylimidazolium-2-yl)porphyrin (MnTDE-2-ImP(5+)). MnTMOE-2-PyP(5+) has side chains of the same length and the same E(1/2), as MnTnBu-2-PyP(5+)(k(cat)= 7.25, E(1/2)=+ 254 mV), yet it is 6-fold more potent a catalyst of O2.-dismutation , presumably due to the presence of the ether oxygen. The log k(cat)vs. E(1/2) relationship for all Mn porphyrin-based SOD mimics thus far studied is discussed. None of the new compounds were toxic to Escherichia coli in the concentration range studied (up to 30 microM), and protected SOD-deficient E. coli in a concentration-dependent manner. At 3 microM levels, the MnTDMOE-2-ImP(5+), bearing an oxygen atom within each of the eight side chains, was the most effective and offered much higher protection than MnTE-2-PyP(5+), while MnTDE-2-ImP(5+) was of very low efficacy.     

Comparison of standard capillary and chip separations of sodium dodecylsulfate-protein complexes

Conditions for converting a set of five standard proteins to electrochemically active sodium dodecylsulfate (SDS) complexes were worked out with the aim of using such complexes for conductivity detection with a a chip electrophoresis system. The results obtained were compared with standard capillary electrophoresis (37 cm (effective length 30 cm)×75 μm I.D. capillary, 10 kV, negative polarity at the inlet). The chip separations were run at 500 V per chip (100 V/cm) as compared to the standard capillary arrangement, which was run at 266.6 V/cm. For the capillary set-up the protein complexes were prepared in aqueous solution (Milli-Q water) made 10 mM with respect to SDS. If the SDS concentration was increased to 50 mM, the separation in the capillary was incomplete. On the other hand with the chip system both approaches yielded acceptable results. The chip separations were slightly (but not distinctly) shorter and offered better separations than the standard set-up. The concentration of the surfactant used for the preparation the complexes results in alternations of the elution sequence, which is preserved if the chip separation is used instead of the capillary set-up. Apparently the full capacity of protein–SDS binding is not exploited for the preparation of the adducts.     

Role of the solvent in thin-layer chromatography of steroids on alumina

The effects of different binary solvents on the retention behaviour of some steroids in thin-layer chromatography on alumina were studied. The slope of the linear relationship between the retention constant of the steroid and the logarithm of the volume fraction fo the polar component in the binary solvent mixture depends predominantly on the diluent. Linear relationships between the axis intercepts and slopes of particular steroids exists for all chromatographic systems examined. The slope of this relationships is a function of the retention constant of the steroid hydroxyl group.     

Aromatic substitution

It is demonstrated that a previously developed topological expression for the total π-electron energy of aromatic molecules provides a good qualitative account of localization energies. The logarithm of the ratio of the algebraic structure counts for the ground state and the localized reaction intermediate is the principle energy determining factor. This expression fails for hydrocarbons with unusually small HOMO-LUMO separations. An alternative topological expression that includes a correction for this situation provides an excellent non-empirical explanation for the successful empirical use of Dewar reactivity numbers in correlating exact localization energies. The present analysis provides an explanation for the success of the traditional resonance structure counting technique in predicting relative rates of aromatic substitution. The analysis develop applied only to alternant hydrocarbons.     

Application of the ring oven method to the determination of dyestuffs

Summary The Weisz ring oven method has been applied to the semiquantitative determination of indigo carmine, erythrosin A, amaranth O, new coccine, Victoria blau B, tartrazine, azorubin S, alizarin S, eosin, light green SF, Guinea green B, fuchsin, eriochrome black T, saphranine, ponceau 3 R, cyanine, gelborange S, and methyl violet 6 B. The amount of dye needed ranges from 0.5 to 20g, and the error is generally less than 5%. The method has been used for the determination of azorubin S, methyl violet 6 B, tartrazine, and amaranth O in various materials.

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Zusammenfassung Die Ringofenmethode vonWeisz wurde für die semiquantitative Bestimmung folgender Farbstoffe angewendet: Indigocarmin, Erythrosin A, Amaranth O, Neucoccin, Viktoria blau B, Tartrazin, Azorubin S, Alizarin S, Eosin, Lichtgrün SF, Guineagrün B, Fuchsin, Eriochromschwarz T, Saphranin, Ponceau 3 R, Cyanin, Gelborange S und Methylviolett 6 B. Die dazu nötige Farbstoffmenge beträgt 0,5 bis 20g, der Fehler ist im allgemeinen geringer als 5%. Die Methode wurde für die Bestimmung von Azorubin S, Methylviolett 6 B, Tartrazin und Amaranth O in verschiedenen Materialien angewendet.

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Résumé On a appliqué la méthode du four annulaire deWeisz au dosage semi-quantitatif du carmin d'indigo, de l'érythrosine A, de l'amaranthe O, de la coccine nouvelle, du bleu Victoria B, de la tartrazine, de l'azorubine S, de l'alizarine S, de l'éosine, du vert lumière SF, du vert Guinée B, de la fuchsine, du noir ériochrome T, de la safranine, du ponceau 3 R, de l'orangé jaune, de la cyanine S et du violet de méthyle 6 B. La quantité de colorant nécessaire va de 0,5 à 20g et l'erreur est généralement inférieure à 5%. On a appliqué la méthode au dosage de l'azorubine S, du violet de méthyle 6 B, de la tartrazine et de l'amaranthe O dans diverses substances.

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We wish to thank Mrs.Lidija Pfendt of the Faculty of Sciences in the University of Belgrade for doing the spectrophotometric analyses.     

The evolution of comprehensive two-dimensional gas chromatography (GC x GC)

For a technology little over a decade old, comprehensive two-dimensional gas chromatography (GC x GC) has quickly reached the status of one of the most powerful analytical tools for volatile organic compounds. At the heart of any GC x GC system is an interface, which physically connects the primary and the secondary columns and acts to preserve the separation obtained in the first dimension (first column) while allowing additional separation in the second dimension. The paper presents a review of the technology, including fundamental principles of the technique, data processing and interpretation and a timeline of inventive contributions to interface design. In addition, applications of the technique are presented, with a more detailed discussion of selected examples.     

Low-dimensional Compounds Containing Cyano Groups. XIII. Structural–spectral Correlation of Copper Dicyanoargentates

The new mixed-valence mixed-metal complex Cu(py)₆Cu₂Ag₂(CN)₆ (py = pyridine) possesses a three dimensional polymeric crystal structure. The Cu(I) atom is tetrahedrally coordinated by two nitrogen atoms of pyridine molecules, by one nitrogen atom of the dicyanoargentate anion and by one carbon atom of the cyano group. Both the dicyanoargentate anion and the cyano group bridge the Cu(I) atom with neighboring Cu(II) atoms. These are hexacoordinated in the form of an elongated tetragonal bipyramid. The equatorial plane is formed by two nitrogen atoms from two pyridine molecules and two nitrogen atoms from bridging cyano groups. Axial positions are occupied by nitrogen atoms of the bridging [Ag(CN₂]⁻ anions. Correlation between structures of the title compound and seven other dicyanoargentates with their i.r. spectra has been studied. The coordination mode of [Ag(CN₂]⁻ anions in compounds Cu_8-xAg_x(tn)₃(CN)₁₀ x = 0.25, Cu(3-Mepy)₂Ag₂(CN)₄, Cu(py)₂Ag₂(CN)₄ and Cu(py)₄Ag₂(CN)₄ (tn is 1,3-diaminopropane, 3-Mepy is 3-methylpyridine) is predicted based on this correlation.