How Can Rotaxanes Be Modified by Varying Functional Groups at the Axle?—A Combined Theoretical and Experimental Analysis of Thermochemistry and Electronic Effects

We present theoretically as well as experimentally determined thermochemical data of the non-covalent interactions in different axle-substituted pseudorotaxanes. The overall interaction energy lies in the region of 35 kJ mol(-1), independent of the substitution pattern at the axle. Because rearrangement energies of 7 and 3 kJ mol(-1) are required for wheel and axle, respectively, the sum of the net interactions of individual non-covalent bonds must exceed 10 kJ mol(-1) to achieve a successful host-guest interaction. The geometrical analysis shows three hydrogen bonds, and the close inspection of the individual dipole moments as well as the individual hydrogen bonds reveals trends according to the different functional groups at the axle. The individual trends for the different hydrogen bonds almost lead to a cancellation of the substitution effects. From solvent-effect considerations it can be predicted that the pseudorotaxane is stable in CHCl(3) and CH(2)Cl(2), whereas it would dethread in water. Comparing experimentally and theoretically calculated Gibbs free enthalpies, we find reasonable agreement if an exchange reaction of one solvent molecule instead of the direct formation reaction is considered.     

Solvent Dependency of Catalyst-Substrate Aggregation Through π-π Stacking in Photoredox Catalysis

Assemblies of photoredox catalysts and their target substrates prior to photoexcitation is a phenomenon naïvely overlooked by the majority of synthetic chemists, but can have profound influences on reactivity and selectivity in photocatalytic reactions. In this study, we determine the aggregation states of triarylamine radical cationic photocatalysts with various target arene substrates in different solvents by specifically parameterized polarizable molecular dynamics simulations. A π-stacking interaction previously implicated by more expensive, less-representative quantum calculations is confirmed. Critically, this study presents new insights on: i) the ability of solvents (MeCN vs DMF) to make or break a photocatalytic reaction by promoting (MeCN) or demoting (DMF) its catalyst-substrate assemblies, which is a determining factor for reactivity, ii) the average “lifetimes” of assemblies in solution from a dynamic simulation. We find that both in the ground state and the photoexcited state, the cationic radical assemblies remain intact for periods often higher than 60 ps, rendering them ideally suitable to undergo intra-assembly electron transfer reactions upon photoexcitation. Such aspects have not addressed by previous studies on synthetic photocatalytic reactions involving non-covalent assemblies.     

Solid‐State Behaviour of the Dichlorobenzenes: Actual,Semi‐Virtual and Virtual Crystallography

The crystal structures of the low‐melting 1,2‐ and 1,3‐dichlorobenzene isomers have been determined by X‐ray analysis and in situ crystallisation techniques. Attempts to predict these structures in advance by force‐field calculations were not successful, although the known crystal structures of two of the three polymorphs of the 1,4‐isomer were successfully `a posteriori' predicted. Calculated lattice energies were supplemented with estimated lattice‐vibrational entropies obtained in the rigid‐body approximation. Energy calculations for actual and virtual crystal structures indicate that the higher melting point of the 1,4‐isomer can be largely attributed to more efficient crystal packing.     

Increasing robustness and sensitivity of protein microarrays through microagitation and automation

Assay systems that employ protein microarrays for the analysis of complex samples are powerful tools to generate a high amount of data from a limiting amount of sample. Due to miniaturization, these systems are susceptible to fluctuations during signal generation and the use of uniform conditions for sample incubation and during the assay procedure is required to get reproducible results. Diffusion limits may prevent constant conditions on all parts of the array and can lead to the decease of the sensitivity of the array. Therefore, we set-up an automated assay system integrating a novel microagitation device using surface acoustic wave (SAW) technology. Multiplexed assays for the detection of autoantibodies from human serum and sandwich immunoassay for the detection of matrix metalloproteases (MMPs) were used to evaluate the system. Diffusion-rate limited solid phase reactions were enhanced by microagitation using the SAW technology resulting in up to three-fold higher signals.     

Cooperativity in ionic liquids

Cooperativity in ionic liquids is investigated by means of static quantum chemical calculations. Larger clusters of the dimethylimidazolium cation paired with a chloride anion are calculated within density functional theory combined with gradient corrected functionals. Tests of the monomer unit show that density functional theory performs reasonably well. Linear chain and ring aggregates have been considered and geometries are found to be comparable with liquid phase structures. Cooperative effects occur when the total energy of the oligomer differs from a simple sum of monomer energies. Cooperative effects have been found in the structural motifs examined. A systematic study of linear chains of increasing length (up to nine monomer units) has shown that cooperativity plays a more important role than expected and is stronger than in water. The Cl...H distance of the chloride to the most acidic proton increases with an increasing number of monomer units. The average bond distance approaches 218.9 pm asymptotically. The dipole moment grows almost linearly and the dipole moment per monomer unit reaches the asymptotic value of 16.3 D. The charge on the chloride atoms decreases with an increasing chain length. In order to detect local hydrogen bonding in the clusters a new parametrization of the shared-electron number method is introduced. We find decreasing hydrogen bond energies with an increasing cluster size for both the first hydrogen bond to the most acidic proton and the average hydrogen bond.     

Formation of pyridine from acetylenes and nitriles catalyzed by RuCpCl, CoCp, and RhCp derivatives - A computational mechanistic study

The mechanism of the catalytic formation of pyridines from the coupling of two alkynes and the nitriles NCR (R = H, Me, Cl, COOMe) with the fragments CpRuCl, CpCo, and CpRh has been investigated by means of DFT/B3LYP calculations. According to the proposed mechanism, the key reaction step is the oxidative coupling of two alkyne ligands to give metallacyclopentatriene (Ru, Rh) and metallacyclopentadiene (Co) intermediates. In the case of ruthenium, this process is thermodynamically clearly favored over the oxidative coupling between one alkyne and one nitrile ligand to afford an azametallacycle. This alternative pathway however cannot be dismissed in the case of Co and Rh. The rate determining step of the overall catalytic cycle is the addition of a nitrile molecule to the metallacyclopentatriene and metallacyclopentadiene intermediates, respectively, which has to take place in a side-on fashion. Competitive alkyne addition leads to benzene formation. Thus, also the chemoselectivity of this reaction is determined at this stage of the catalytic cycle. In the case of the RuCpCl fragment, the addition of nitriles R-CN and acetylenes RCCH has been studied in more detail. For R = H, Cl, and COOMe the side-on addition of nitriles is kinetically more favored than alkyne addition and, in accordance with experimental results, pyridine formation takes place. In the case of R = Me nitrile addition could not be achieved and the addition of alkynes to give benzene derivatives seems to be kinetically more favored. Once the nitrile is coordinated facile C-C bond coupling takes place to afford an unusual five- and four-membered bicyclic ring system. This intermediate eventually rearranges to a very unsymmetrical azametallaheptatriene complex which in turn provides CpRuCl(κ¹-pyridine) via a reductive elimination step. Completion of the catalytic cycle is achieved by an exergonic displacement of the respective pyridine product by two acetylene molecules regenerating the bisacetylene complex.     

Species-specific identification of ruminant components contaminating industrial crude porcine heparin using real-time fluorescent qualitative and quantitative PCR

Ever since the emergence of bovine spongiform encephalopathy, the source of pharmaceutical heparin has been restricted to porcine intestinal mucosa. In this project, two real-time fluorescent PCR methods were developed to assist with quality control analysis. The first is a qualitative method which relies on SYBR Green I chemistry to confirm the porcine origin of industrial crude porcine heparin (ICPH), identify any ruminant contaminants, and generally control purity. The second is based on TaqMan chemistry and is able to quantitatively identify porcine, bovine, caprine, and ovine components and contaminants in ICPH. By targeting mitochondrial DNA, both PCR systems showed a detection limit of 1 pg DNA and amplification efficiencies ranging between 96% and 102%. Moreover, quantitative PCR showed a detection limit of 0.02 ppm in samples comprising porcine, bovine, caprine, and ovine DNA. The results of qualitative PCR over 27 ICPH samples showed that all samples were porcine in origin and that 17 had ruminant contaminants. The results of quantitative PCR further showed that out of all 17 samples with ruminant contaminants, seven samples had bovine, ovine, and caprine contaminants, two samples had bovine and ovine contaminants, and eight samples had only ovine contaminants. In conclusion, the qualitative PCR system was found to be a relatively inexpensive, rapid, and flexible method of identifying the porcine origin of and ruminant contaminants in ICPH, while the quantitative PCR was found suitable to accurately analyze the components and contaminants in detail. Both methods are suitable for routine control assays for the evaluation of ICPH purity and origins of contaminants.     

Structural investigations on YbRh2Si2: from the atomic to the macroscopic length scale

YbRh2Si2 has advanced to a prototype material for investigating physics related to the Kondo effect. An optimization of the synthesis resulted in single crystals of extraordinary crystalline quality. At the atomic scale, we utilize scanning tunneling microscopy to study the topography of cleaved single crystals. A structural and chemical analysis was conducted by highly accurate x-ray diffraction and wavelength dispersive x-ray spectroscopy measurements. The latter indicate a homogeneity range of the YbRh2Si2 phase between approximately 40.0–40.2 at.% Rh. For our high-quality samples the number of defects found on the atomic scale (of the order of 0.3% of the visible lattice sites) is in quantitative agreement with a very small off-stoichiometry within this homogeneity range. Comparing our results for these samples allows an assignment of the structural defects observed at the cleaved surfaces to Rh occupying Si sites and, even less numerous Si in Rh sites. Such an analysis is hampered for samples of lesser quality, but there seem to be numerous empty Si-sites. Based on these observations the results of scanning tunneling spectroscopy can be analyzed in further detail and provide insight into the Kondo physics.     

Spin-resolved NEXAFS from resonant X-ray scattering (RXS): Application to MnO

Resonantly excited metal K core line spectra of NiO, MnO, CuO and other compounds have been investigated at the beamlines X21 (NSLS/BNL), BW1 and W1.1 (HASYLAB/DESY). A novel technique for quantitative resolution of NEXAFS spectra into spin-up and spin-down components has been developed. Since the method employs spin conservation and local spin references, it needs no circularly polarized radiation and no sample magnetization for taking both the RXS and NEXAFS spectra. Hence antiferromagnetic and paramagnetic materials can be investigated as well.By utilizing linear dichroism with angular-dependent measurements on single-crystal samples, additional resolution of NEXAFS spectra is possible with respect to the orbital symmetry. Application of the method to paramagnetic MnO, for the first time, provides new and unambiguous experimental results confirming modern (LSDA+U) calculations. Received: 29 May 2001 / Accepted: 4 July 2001 / Published online: 5 October 2001     

Polypeptide‐Shelled Poly(propylene imine) Dendrimers and Their Complexing Properties towards Copper(II) Ions

Summary: Polypeptide‐shelled poly(propylene imine) dendrimers were realized by ring‐opening polymerization of α‐amino acid N‐carboxyanhydrides, initiated by dendrimers as core molecules. Polypeptides with 2nd generation core were used as model compounds to investigate interior complexes between metal ion and surface‐modified dendrimers. Micro‐calorimetric measurements outlined the formation of approximate 1:1 complexes between Cu^II and polypeptide‐shelled dendrimers and the influence of polypeptide chain compositions on differential molar heats of complexation.

Composition of one of the polypeptides synthesized.