Richard E. Dickerson,Present at the Flood: How structural molecular biology came about

Structural Chemistry -     

A new floating electrode structure for generating homogeneous electrical fields in microfluidic channels

In this article a new parallel electrode structure in a microfluidic channel is described that makes use of a floating electrode to get a homogeneous electrical field. Compared to existing parallel electrode structures, the new structure has an easier production process and there is no need for an electrical connection to both sides of the microfluidic chip. With the new chip design, polystyrene beads suspended in background electrolyte have been detected using electrical impedance measurements. The results of electrical impedance changes caused by beads passing the electrodes are compared with results in a similar planar electrode configuration. It is shown that in the new configuration the coefficient of variation of the impedance changes is lower compared to the planar configuration (0.39 versus 0.56) and less dependent on the position of the beads passage in the channel as a result of the homogeneous electrical field. To our knowledge this is the first time that a floating electrode is used for the realization of a parallel electrode structure. The proposed production method for parallel electrodes in microfluidic channels can easily be applied to other applications.     

External field induced tricritical phenomenon in the isotropicnematic phase transition of hard non-spherical particle systems

The effect of static external field is studied on the isotropic–nematic phase transition of a system of hard non-spherical particles (rods or platelets) with negative anisotropic polarizability (susceptabilities). On the basis of Onsager theory, the phase coexistence curve is calculated numerically without any approximation. It is found that a weakly ordered nematic phase (uniaxial planar) is in coexistence with a highly ordered biaxial nematic phase which ends at a tricritical point. In the limit of infinite field strength, the orientations of the particles are confined in a plane perpendicular to the field and continuous isotropic–nematic phase transition takes place.     

On the maximal resolvability of monotonically normal spaces

We continue the work started in [6] and show that all monotonically normal (in short: MN) spaces are maximally resolvable if and only if all uniform ultrafilters are maximally decomposable. As a consequence we get that the existence of an MN space which is not maximally resolvable is equi-consistent with the existence of a measurable cardinal. We also show that it is consistent (modulo the consistency of a measurable cardinal) that there is an MN space X with |X| = Δ(X) = ? _ω which is not ω ₁-resolvable. It follows from the results of [6] that this is best possible.     

Development of highly pure α-helical lipoglycopeptides as self-adjuvanting vaccines

The incorporation of lipid moieties into synthetic peptide vaccines has been demonstrated to self-adjuvant otherwise poorly immunogenic peptides, whereas carbohydrates have emerged to be advantageous carriers for assembling these peptides. With the advent of an efficient native chemical ligation method, which is compatible with both peptides and carbohydrates, we have developed highly pure self-adjuvanting tetravalent group A streptococcal vaccine candidates assembled on carbohydrate templates. The utility of chemoselective ligation has overcome difficulties in the synthesis and purification of branched high molecular weight peptides. Circular dichroism measurements provided the evidence of α-helix formation of the assembled peptide epitopes, which may have impact on their immunogenicity.     

The Effect of the Mach Number on a Turbulent Backward-Facing Step Flow

The flow around a backward-facing step in the sub-, trans- and supersonic regimes was investigated at the Trisonic Wind Tunnel Munich with particle image velocimetry and dynamic pressure measurements. These two techniques were combined to simultaneously measure and correlate the velocity fluctuations in a streamwise vertical plane with the pressure fluctuations on the reattachment surface. The results show that the dynamic loads on the reattachment surface increase from subsonic up to the transonic regime while the mean reattachment location moves downstream. As soon as the flow becomes locally supersonic aft of the backward-facing step, the mean reattachment location suddenly moves upstream while the normalized dynamic loads drastically decrease. By correlating the velocity and the dynamic pressure data, it was shown that a clear separation between outer flow and the flow close to the surface aft of the step is responsible for the drastic load reduction. Due to the large difference in pressure/density, the disturbances from the locally supersonic flow do not have an effect on the flow close to the surface. This is also reflected in the power spectral densities of the pressure fluctuations on the surface, showing that at supersonic free-stream Mach numbers a low-frequency pumping motion of the locally subsonic flow is the dominant mode, while in sub-/transonic flow Kelvin-Helmholtz instabilities and a cross-pumping motion of the shear layer dominate the dynamic loads.     

Uptake, degradation and chiral discrimination of N-acyl-D/L-homoserine lactones by barley (Hordeum vulgare) and yam bean (Pachyrhizus erosus) plants

Bacterial intraspecies and interspecies communication in the rhizosphere is mediated by diffusible signal molecules. Many Gram-negative bacteria use N-acyl-homoserine lactones (AHLs) as autoinducers in the quorum sensing response. While bacterial signalling is well described, the fate of AHLs in contact with plants is much less known. Thus, adsorption, uptake and translocation of N-hexanoyl- (C6-HSL), N-octanoyl- (C8-HSL) and N-decanoyl-homoserine lactone (C10-HSL) were studied in axenic systems with barley (Hordeum vulgare L.) and the legume yam bean (Pachyrhizus erosus (L.) Urban) as model plants using ultra-performance liquid chromatography (UPLC), Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) and tritium-labelled AHLs. Decreases in AHL concentration due to abiotic adsorption or degradation were tolerable under the experimental conditions. The presence of plants enhanced AHL decline in media depending on the compounds' lipophilicity, whereby the legume caused stronger AHL decrease than barley. All tested AHLs were traceable in root extracts of both plants. While all AHLs except C10-HSL were detectable in barley shoots, only C6-HSL was found in shoots of yam bean. Furthermore, tritium-labelled AHLs were used to determine short-term uptake kinetics. Chiral separation by GC-MS revealed that both plants discriminated D-AHL stereoisomers to different extents. These results indicate substantial differences in uptake and degradation of different AHLs in the plants tested.     

Identification of pentacyclic triterpenes by GC-MS-MS

The development of tandem mass spectrometry (MS-MS) and its combination with gas chromatography (GC-MS-MS) has greatly enhanced our ability to analyze exceedingly complex mixtures from a wide variety of sources, including fossil fuels. This paper describes a comparison of the conventional electron impact (El) mass spectral fragmentation patterns, obtained in the MS-MS precursor – product mode, of three oleanane isomers and one ursene, all of which are used as indicators of higher plant input to the sedimentary environment Results show that El and collision-activated dissociation (CAD) spectra are most similar at collision energies between ?15 and ?20 eV.The presence of methyl substituents in these pentacyclic terpenes plays an important role in the process of ring fragmentation: the daughter spectra of the M – 15 fragments can be used to obtain structural information, such as the positions of the double bonds.     

Matrix-assisted laser desorption/ionization mass spectrometry for the evaluation of the C-terminal lysine distribution of a recombinant monoclonal antibody

Recombinant monoclonal antibodies produced using mammalian cell lines contain multiple chemical modifications. One specific modification resides on the C-terminus of the heavy chain. Enzymes inside the cell can cleave the C-terminal lysine from the heavy-chain molecules, and variants with and without C-terminal lysine can be produced. In order to fully characterize the protein, there is a need for analytical methods that are able to account for the different product variants. Conventional analytical methods used for the measurement of the distribution of the two different variants are based on chemical or enzymatic degradation of the protein followed by chromatographic separation of the degradation products. Chromatographic separations with gradient elution have long run times, and analyses of multiple samples are time-consuming. This paper reports development of a novel method for the determination of the relative amounts of the two C-terminal heavy-chain variants based on matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOFMS) measurements of the cyanogen bromide degraded recombinant monoclonal antibody products. The distribution of the variants is determined from the MALDI-TOF mass spectra by measuring the peak areas of the two C-terminal peptides. The assay was used for the assessment of the C-terminal lysine distribution in different development lots. The method was able to differentiate between the products obtained using the same cell line as well as between products obtained from different cell lines.     

Syntheses and biological evaluation of vinblastine congeners

Sixty-two congeners of vinblastine (VLB), primarily with modifications of the piperidine ring in the carbomethoxycleavamine moiety of the binary alkaloid, were synthesized and evaluated for cytotoxicity against murine L1210 leukemia and RCC-2 rat colon cancer cells, and for their ability to inhibit polymerization of microtubular protein at < 10(-6) M, and for induction of spiralization of microtubular protein, and for microtubular disassembly at 10(-4) M concentrations. An ID50 range of >10(7) M concentrations was found for L1210 inhibition by these compounds, with the most active 1000x as potent as vinblastine.