Generic Transport Aft-body Drag Reduction using Active Flow Control

Active flow-separation control is an effective and efficient mean for drag reduction and unsteady load alleviation resulting from locally or massively separated flow. Such a situation occurs in configurations where the aerodynamic performance is of secondary importance to functionality. The performance of heavy transport helicopters and aeroplanes, having a large, and almost flat, aft loading ramp suffer from the poor aerodynamics of the aft body. Hence, a combined experimental and numerical investigation was undertaken on a generic transport aeroplane/helicopter configuration. The experimental study provided surface pressures, direct drag measurements, surface and smoke flow visualization. The baseline flow was numerically analyzed, using finite volume solutions of the RANS equations. The baseline flow around the model was insensitive to the Reynolds number in the range it was tested. The flow separating from the aft body was characterized by two main sources of drag and unsteadiness. The first is a separation bubble residing at the lower ramp corner and the second is a pair of vortex systems developing and separating from the sides of the ramp. As the model incidence is decreased, the pair of vortex systems also penetrates deeper towards the centerline of the ramp, decreasing the pressure and increasing the drag. As expected, the ramp lower corner bubble was highly receptive to periodic excitation introduced from four addressable piezo-fluidic actuators situated at the ramp lower corner. Total drag was reduced by 3–11%, depending on the model incidence. There are indications that the flow in the wake of the model is also significantly steadier when the bubble at the lower ramp corner is eliminated. The vortex system is tighter and steadier when the ramp-corner bubble is eliminated.     

Twin Paradox and the Logical Foundation of Relativity Theory

We study the foundation of space-time theory in the framework of first-order logic (FOL). Since the foundation of mathematics has been successfully carried through (via set theory) in FOL, it is not entirely impossible to do the same for space-time theory (or relativity). First we recall a simple and streamlined FOL-axiomatization Specrel of special relativity from the literature. Specrel is complete with respect to questions about inertial motion. Then we ask ourselves whether we can prove the usual relativistic properties of accelerated motion (e.g., clocks in acceleration) in Specrel. As it turns out, this is practically equivalent to asking whether Specrel is strong enough to “handle” (or treat) accelerated observers. We show that there is a mathematical principle called induction (IND) coming from real analysis which needs to be added to Specrel in order to handle situations involving relativistic acceleration. We present an extended version AccRel of Specrel which is strong enough to handle accelerated motion, in particular, accelerated observers. Among others, we show that~the Twin Paradox becomes provable in AccRel, but it is not provable without IND.     

Thermal characterization of social vespid silk

In this paper we try to establish a link between the microclimate in the wasp nest and the structure and thermal stability of vespid silk. We suggest that there are at least two types of water that is absorbed by the silk of Oriental hornets, namely, surface water and intrinsic structural water. The release of both types of water was found to be reversible. The enthalpy values of the endothermic peaks associated with the release of water from different silk samples do not differ substantially and are in the range of 106 to 130 J g^-1 for the Vespa orientalis male larvae silk (sample #1), Paravespula germanica (yellowjacket) worker larvae silk (#3) and Vespa orientalis nest envelope(#4). For the Vespa orientalis worker larvae silk (sample #2), however, it is twice as large (228 J g^-1). This is in agreement with the increased total amount of absorbed water. The silk studied has a fibrilar structure with interconnecting surfaces overlying entire regions. It is assumed that the initial water loss stems from water evaporation from the coat of the fibers - a daily occurrence in the hornets' nest. Heating to above 70°C may result in structural changes in the silk core. This revised version was published online in July 2006 with corrections to the Cover Date.     

Antiparallel triple helices. Structural characteristics and stabilization by 8-amino derivatives

The structural, dynamical, and recognition properties of antiparallel DNA triplexes formed by the antiparallel d(G#G.C), d(A#A.T), and d(T#A.T) motifs (the pound sign and dot mean reverse-Hoogsteen and Watson-Crick hydrogen bonds, respectively) are studied by means of "state of the art" molecular dynamics simulations. Once the characteristics of the helix are defined, molecular dynamics and thermodynamic integration calculations are used to determine the expected stabilization of the antiparallel triplex caused by the introduction of 8-aminopurines. Finally, oligonucleotides containing 8-aminopurine derivatives are synthesized and tested experimentally using several approaches in a variety of systems. A very large stabilization of the triplex is found experimentally, as predicted by simulations. These results open the possibility for the use of oligonucleotides carrying 8-aminopurines to bind single-stranded nucleic acids by formation of antiparallel triplexes.     

Development of resin-to-resin transfer reactions (RRTR) using Sonogashira chemistry

Sonogashira chemistry can be used according to the ‘resin-to-resin transfer reaction’ (RRTR) concept. Two fragments, one containing the halide moiety and the second one incorporating the alkyne functionality, are anchored on different solid supports using allyl and/or Wang-type linkages. Treatment with Pd(0) cleaves the allyl-linked fragment(s) which subsequently undergo Sonogashira coupling under the same conditions.     

Non-Watson-Crick base pairing in RNA. quantum chemical analysis of the cis Watson-Crick/sugar edge base pair family

Large RNA molecules exhibit an astonishing variability of base-pairing patterns, while many of the RNA base-pairing families have no counterparts in DNA. The cis Watson-Crick/sugar edge (cis WC/SE) RNA base pairing is investigated by ab initio quantum chemical calculations. A detailed structural and energetic characterization of all 13 crystallographically detected members of this family is provided by means of B3LYP/6-31G and RIMP2/aug-cc-pVDZ calculations. Further, a prediction is made for the remaining 3 cis WC/SE base pairs which are yet to be seen in the experiments. The interaction energy calculations point at the key role of the 2'-OH group in stabilizing the sugar-base contact and predict all 16 cis WC/SE base-pairing patterns to be nearly isoenergetic. The perfect correlation of the main geometrical parameters in the gas-phase optimized and X-ray structures shows that the principle of isosteric substitutions in RNA is rooted from the intrinsic structural similarity of the isolated base pairs. The present quantum chemical calculations for the first time analyze base pairs involving the ribose 2'-OH group and unambiguously correlate the structural information known from experiments with the energetics of interactions. The calculations further show that the relative importance and absolute value of the dispersion energy in the cis WC/SE base pairs are enhanced compared to the standard base pairs. This may by an important factor contributing to the strength of such interactions when RNA folds in its polar environment. The calculations further demonstrate that the Cornell et al. force field commonly used in molecular modeling and simulations provides satisfactory performance for this type of RNA interactions.     

On-resin native chemical ligation for cyclic peptide synthesis

A novel cysteine derivative, N(alpha)-trityl-S-(9H-xanthen-9-yl)-l-cysteine [Trt-Cys(Xan)-OH] has been introduced for peptide synthesis, specifically for application to a new strategy for the preparation of cyclic peptides. The following steps were carried out to synthesize the cyclic model peptide cyclo(Cys-Thr-Abu-Gly-Gly-Ala-Arg-Pro-Asp-Phe): (i). side-chain anchoring of Fmoc-Asp-OAl via its free beta-carboxyl as a p-alkoxybenzyl ester to a solid support; (ii). stepwise chain elongation of the peptide by standard Fmoc/tBu solid-phase chemistry; (iii). removal of the N-terminal Fmoc group; (iv). coupling of Trt-Cys(Xan)-OH; (v). selective Pd(0)-promoted cleavage of the C-terminal allyl ester; (vi). coupling of the C-terminal residue, i.e., H-Phe-SBzl, preactivated as a thioester; (vii). selective removal of the N(alpha)-Trt and S-Xan protecting groups under very mild acid conditions; (viii). on-resin cyclization by native chemical ligation in an aqueous milieu; and (ix). final acidolytic cleavage of the cyclic peptide from the resin. The strategy was evaluated for three supports: poly[N,N-dimethacrylamide-co-poly(ethylene glycol)] (PEGA), cross-linked ethoxylate acrylate resin (CLEAR), and poly(ethylene glycol)-polystyrene (PEG-PS) graft resin supports. For PEGA and CLEAR, the desired cyclic product was obtained in 76-86% overall yield with initial purities of approximately 70%, whereas for PEG-PS (which does not swell nearly as well in water), results were inferior. Solid-phase native chemical ligation/cyclization methodology appears to have advantages of convenience and specificity, which make it promising for further generalization.