Thiol- and disulfide-modified oligonucleotide monolayer structures on polycrystalline and single-crystal Au(111) surfaces

We provide a comprehensive study of single- (ss) and double-strand (ds) oligonucleotides with either 25 or 10 bases or base pairs (bp) immobilized on polycrystalline and single-crystal Au(111) surfaces. The study is based on X-ray photoelectron spectroscopy, cyclic and differential pulse voltammetry, interfacial capacitance data, and electrochemical scanning tunnelling microscopy (in situ STM). The sequences used were the 25-bp sequence from the BRCA1 gene (25-mer), while the 10-bp oligonucleotides contained solely linear adenine and thymine sequences. The oligonucleotides were modified by the dimethoxytrityl group (DMT) via a disulfide group [DMT-S-S-ss25-mer and DMT-S-S-ds(AT)₁₀], a pure disulfide group (A₁₀-S-S-T₁₀), or a thiol group [HS-ss25-mer and HS-ds-(AT)₁₀], all via a hexamethylene linker. The overall pattern suggests strategies for controlled adsorption of DNA-based molecules and recognition of complementary strands or other molecules.     

Proton binding to proteins: pK(a) calculations with explicit and implicit solvent models

Ionizable residues play important roles in protein structure and activity, and proton binding is a valuable reporter of electrostatic interactions in these systems. We use molecular dynamics free energy simulations (MDFE) to compute proton pKa shifts, relative to a model compound in solution, for three aspartate side chains in two proteins. Simulations with explicit solvent and with an implicit, dielectric continuum solvent are reported. The implicit solvent simulations use the generalized Born (GB) model, which provides an approximate, analytical solution to Poisson's equation. With explicit solvent, the direction of the pKa shifts is correct in all three cases with one force field (AMBER) and in two out of three cases with another (CHARMM). For two aspartates, the dielectric response to ionization is found to be linear, even though the separate protein and solvent responses can be nonlinear. For thioredoxin Asp26, nonlinearity arises from the presence of two substates that correspond to the two possible orientations of the protonated carboxylate. For this side chain, which is partly buried and has a large pKa upshift, very long simulations are needed to correctly sample several slow degrees of freedom that reorganize in response to the ionization. Thus, nearby Lys57 rotates to form a salt bridge and becomes buried, while three waters intercalate along the opposite edge of Asp26. Such strong and anisotropic reorganization is very difficult to predict with Poisson-Boltzmann methods that only consider electrostatic interactions and employ a single protein structure. In contrast, MDFE with a GB dielectric continuum solvent, used for the first time for pKa calculations, can describe protein reorganization accurately and gives encouraging agreement with experiment and with the explicit solvent simulations.     

The Reactivity of Bis(para‐methoxyphenyl)telluroxide towards Triflic Acid and Diphenylphosphinic Acid. Theoretical Considerations of the Protonation and Hydration Process of Diorganotelluroxanes

The reaction of (p‐MeOC₆H₄)₂TeO with two equivalents of HO₃SCF₃ and HO₂PPh₂ provided the tetraorganoditelluroxanes (F₃CSO₃)(p‐MeOC₆H₄)₂TeOTe(p‐MeOC₆H₄)₂(O₃SCF₃) ( 1 ) and (Ph₂PO₂)(p‐MeOC₆H₄)₂TeOTe(p‐MeOC₆H₄)₂(O₂PPh₂)·2 Ph₂PO₂H ( 2 ) in good yields. Compounds 1 and 2 were characterized by solution and solid‐state ³¹P and ¹²⁵Te NMR spectroscopy, IR spectroscopy, electrospray mass spectrometry, conductivity measurements and single crystal X‐ray diffraction. In solution, compound 1 undergoes an electrolytic dissociation and reversibly reacts with traces of water to give the mononuclear cation [(p‐MeOC₆H₄)₂TeOH]⁺ and triflate anions. Theoretical aspects of the protonation and hydration of model telluroxanes R₂TeO (R = H, Me, Ph) were investigated by preliminary DFT calculations and compared to the corresponding selenoxanes R₂SeO. The tellurium dihydroxides R₂Te(OH)₂ seem to be more stable than the hydrogen‐bonded complexes R₂TeO·H₂O.     

Specific determination of 20 primary aromatic amines in aqueous food simulants by liquid chromatography-electrospray ionization-tandem mass spectrometry

A multi-analyte method without any pre-treatment steps using reversed-phase liquid chromatography-electrospray ionization-tandem mass spectrometry (LC-ESI-MS/MS) was developed and applied for the determination of 20 primary aromatic amines (PAA) associated with polyurethane (PUR) products or azo-colours. The method was validated in-house for water and 3% acetic acid food simulants using spiked migrates from plastic laminates. Detection limits ranged from 0.27 to 3 microg amine/L food simulants, and RSD values of within-laboratory reproducibility at the 2 microg PAA/L level ranged from 3.9 to 19%. PAA migration from plastic laminates and black nylon cooking utensils were determined with the method, and high levels of 4,4'-methylenedianiline and aniline were found in migrates from about half of the tested cooking utensils. The method fulfils present legislative demands in the EU for screening and verification of PAA migration from food contact materials.     

A boxmodel development to study the relationships between the photo-oxidants and the particles formation in the troposphere

The model BAGS (Boxmodel for Aerosol and Gasphase Simulations) has been developed. It is composed of two major modules: the first one describes the system of the chemical reactions in the gaseous phase, the second one calculates the aerosol chemical composition and the dimensional distribution of the particles. The boxmodel has been developed with the introduction of new chemical and physical processes, not previously included, in particular the formation of Secondary Organic Aerosol. The other implemented processes are a module for the dynamic of the particle population, nucleation, coagulation and dry deposition. The last phase of the work has been a check of the BAGS capabilities by a series of tests, that have permitted to compare it with other models (MAPS and MADM). The tests in particular have concerned the aerosol water content prediction, the photochemistry, the condensation of the inorganic compounds and the formation of Secondary Organic Aerosol.     

Extraktion von 3d-Metallionen mit zweizähligen Sulfonamiden. I. Liganden mit Schwefel bzw. heterocyclisch gebundenem Stickstoff als zweitem Haftatom

Extraction of 3d-Metal Ions by Bidendate Sulfonamides. I. Ligands with Sulfur or Heterocyclic Nitrogen as a Second Donor Atom The properties of 2-acetylpyridine-p-toluensulfonylhydrazone (APSH - H), arensulfonylthioureas (I), and the esters of arensulfonylmonothiocarbamic acid (II) or arensulfonyldithiocarbamic acid (III) as extractants for the late 3d-metal ions are proved. APSH-H is comparable to the proprietary extractant LIX 34. But, because of the special structure of the corresponding 1,2-chelates, the pH_1/2-values of nickel(II) and cobalt(II) are ≈2 units lower. The pK_s-values, measured in dioxane-water mixtures (75 per cent v/v), increase in the order III < II < I. In aqueous solutions compounds of type III are acids of medium strength. In the case of compounds of type I the substituents of the non-sulfonated nitrogen have a strong influence on the pK_s-values (ΔpK_s = 4.6). Among the late 3d-elements, the ligands II and III extract only copper(II) (pH_1/2 ～2.7 or ～1.6), the ligands I extract zinc(II), cobalt(II), and nickel(II) as well, but not iron(II) and iron(III). The reasons of this unique behaviour are discussed.     

Coexistence of multiple conformations in cysteamine monolayers on Au(111)

The structural organization, catalytic function, and electronic properties of cysteamine monolayers on Au(111) have been addressed comprehensively by voltammetry, in situ scanning tunneling microscopy (STM) in anaerobic environment, and a priori molecular dynamics (MD) simulation and STM image simulation. Two sets of voltammetric signals are observed. One peak at -(0.65-0.70) V (SCE) is caused by reductive desorption of cysteamine. The other signal, at -(0.25-0.40) V consists of a peak doublet. The pH dependence of the latter suggests that the origin is catalytic dihydrogen evolution. The doublet feature is indicative of two distinct cysteamine configurations. Cysteamine monolayer formation from initial nucleation to a highly ordered phase has been successfully observed in real time using oxygen-free in situ STM. Random cellular patterns, disordered adlayer formation accompanied by high step edge mobility, and ultimately a highly ordered (square root 3 x 4) R30 degrees lattice are observed sequentially. Pits are formed due to enclosure of the mobile edges during the adsorption process. In the highly ordered cysteamine layer, each unit has two spots with apparent 0.6 A height difference in STM images. The coverage 5.7 +/- 0.1 x 10(-10) mol cm(-2) determined by voltammetry supports that the spots represent two individual cysteamine molecules. A priori MD and density functional simulations hold other clues to the image interpretation and indicate that the NH(3)(+) groups dominate the tunneling contrast. A wide range of interface structures, showing variations in the sulfur binding site and orientation, gauche and trans conformers, and especially hydrogen-bonding interactions, are examined, from which it is concluded that the adsorbate structure is controlled by interactions with the solvent rather than with the substrate.     

Synthese,Struktur und einige Reaktionen [N-(N′,N′,N″,N″-tetramethyl)-guanidinyl]-substituierter Phosphorylverbindungen

Synthesis, Structure, and some Reactions of N-(N′,N′,N″,N″-tetramethyl)guanidinyl-substituted Phosphoryl Compounds The tetramethylguanidinyl-substituted phosphoryl compounds 1 – 10 were prepared in the reaction of the appropriate chlorophosphoryl compounds with either N′,N′,N″,N″-tetramethylguanidine (HTMG) or N-trimethylsilyl-(N′,N′,N″,N″-tetramethyl)guanidine (TMSTMG). With methyl iodide 1 reacted with N-alkylation to give the ammonium salt 11. 1 reacted with BF₃ · Et₂O at both imino nitrogen atoms with formation of the bis-BF₃-adduct 12 . The X-ray structure determination of phenylphosphonic acid-bis(N′,N′,N″,N″-tetramethylguanidinide) 3 shows shortened PN-bonds and widened PNC-angles, consistent with the partial double bond character of the PN-bond.     

Watching photoinduced chemistry and molecular energy flow in solution in real time

Energized molecules are the essential actors in chemical transformations in solution. As the rearrangement of bonds requires a movement of nuclei, vibrational energy is often the driving force for a reaction. Vibrational energy can be redistributed within the "hot" molecule, or relaxation can occur when molecules interact. Both processes govern the rates, pathways, and quantum yields of chemical transformations in solution. Unfortunately, energy transfer and the breaking, formation, and rearrangement of bonds take place on ultrafast timescales. This Review highlights experimental approaches for the direct, ultrafast measurement of photoinduced femtochemistry and energy flow in solution. In the first part of this Review, we summarize recent experiments on intra- and intermolecular energy transfer. The second part discusses photoinduced decomposition of large organic peroxides, which are used as initiators in free radical polymerization. The mechanisms and timescales of their decarboxylation determine the initial steps of polymerization and the microstructure of the polymer product.     

XRD-Studies of SiC/Si layers on carbon substrates

Structural investigations of thin films of SiC, SiC with free silicon and various titanium suicides (TiSi₂, TiSi and Ti₅Si₃) are described. The crystal phases have been identified using X-ray diffractometry. The growth of reaction products from surface reactions between silicon and deposited titanium can be observed.Dedicated to Professor Dr. rer.nat. Dr. h.c. Hubertus Nickel on the occasion of his 65th birthday