A bridge between the RNA and protein worlds? Accelerating delivery of chemical reactivity to RNA and DNA by a specific short peptide (AAKK)(4)

BACKGROUND: RNA can catalyze diverse chemical reactions, leading to the hypothesis that an RNA world existed early in evolution. Today, however, catalysis by naturally occurring RNAs is rare and most chemical transformations within cells require proteins. This has led to interest in the design of small peptides capable of catalyzing chemical transformations. RESULTS: We demonstrate that a short lysine-rich peptide (AAKK)(4) can deliver a nucleophile to DNA or RNA and amplify the rate of chemical modification by up to 3400-fold. We also tested similar peptides that contain ornithine or arginine in place of lysine, peptides with altered stereochemistry or orientation, and peptides containing eight lysines but with different spacing. Surprisingly, these similar peptides function much less well, suggesting that specific combinations of amino acids, charge distribution, and stereochemistry are necessary for the rate enhancement by (AAKK)(4). CONCLUSIONS: By appending other reactive groups to (AAKK)(4) it should be possible to greatly expand the potential for small peptides to directly catalyze modification of DNA or RNA or to act as cofactors to promote ribozyme catalysis.     

Large-N c quantum chromodynamics and harmonic sums

In the large-N _c limit of QCD, two-point functions of local operators become harmonic sums. I review some properties which follow from this fact and which are relevant for phenomenological applications. This has led us to consider a class of analytic number theory functions as toy models of large-N _c QCD which also is discussed.     

Homogeneous tandem catalysis of the bis‐(diphenylphosphino)‐amine/chromium tetramerization catalyst with metallocene catalysts

Homogeneous tandem catalysis of the bis(diphenylphoshino)amine‐chromium oligomerization catalyst with the metallocenes Ph₂C(Cp)(9‐Flu)ZrCl₂ and rac‐EtIn₂ZrCl₂, is discussed. GC, CRYSTAF, and ¹³C NMR analysis of the products obtained from reactions at constant temperatures show that during tandem catalysis, α‐olefins, mainly 1‐hexene and 1‐octene, are produced from ethylene by the oligomerization catalyst and subsequently built into the polyethylene chain. At 40 °C the Cr/PNP catalyst acts as a tetramerization catalyst while the polymerization catalyst activity is low. Copolymerization of ethylene and the in situ produced α‐olefins have also been carried out by increasing the temperature from 40 °C, where primarily oligomerization takes place, to above 100 °C, where polymerization becomes dominant. The melting temperature of the polymer is dependent on the catalyst and cocatalyst ratios as well as on the temperature gradient followed during the reaction, while the presence of the oligomerization catalyst reduces the activity of the polymerization catalyst. © 2006 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 44: 6847–6856, 2006     

A general optimal formulation for the dynamic Smagorinsky subgrid‐scale stress model

In this paper, a general optimal formulation for the dynamic Smagorinsky subgrid‐scale (SGS) stress model is reported. The Smagorinsky constitutive relation has been revisited from the perspective of functional variation and optimization. The local error density of the dynamic Smagorinsky SGS model has been minimized directly to determine the model coefficient C_S. A sufficient and necessary condition for optimizing the SGS model is obtained and an orthogonal condition (OC), which governs the instantaneous spatial distribution of the optimal dynamic model coefficient, is formulated. The OC is a useful general optimization condition, which unifies several classical dynamic SGS modelling formulations reported in the literature. In addition, the OC also results in a new dynamic model in the form of a Picard's integral equation. The approximation tensorial space for the projected Leonard stress is identified and the physical meaning for several basic grid and test‐grid level tensors is systematically discussed. Numerical simulations of turbulent Couette flow are used to validate the new model formulation as represented by the Picard's integral equation for Reynolds numbers ranging from 1500 to 7050 (based on one half of the velocity difference of the two plates and the channel height). The relative magnitudes of the Smagorinsky constitutive parameters have been investigated, including the model coefficient, SGS viscosity and filtered strain rate tensor. In general, this paper focuses on investigation of fundamental mathematical and physical properties of the popular Smagorinsky constitutive relation and its related dynamic modelling optimization procedure. Copyright © 2005 John Wiley & Sons Ltd.     

METABOLICALLY CONVERTIBLE LIPOPHILIC DERIVATIVES OF pH-SENSITIVE AMPHIPATHIC PHOTOSENSITIZERS

Abstract We propose the use of acetoxymethyl esters of pH-sensitive amphipathic photosensitizers (PS) for photodynamic therapy (PDT). These compounds may be applicable for PDT involving endocytosis of lipophilic carriers leading to lysosomal uptakc of the esterified PS by target cells. Partial and/or total enzymatic de-esterification may result in the extralysosomal distribution of the photoactive agents, possibly culminating in a multisite photochemical response. We report here the synthesis and properties of chlorin e₆ triacetoxymethyl ester (CAME) and pheophorbide a acetoxymethyl ester (PAME). Chlorin e₆ and pheophorbide a are photocytotoxic chlorins that possess free carboxylate groups and exhibit optimum wavelengths of excitation substantially red shifted relative to hematoporphyrin derivative. Acetoxymethyl esterification of chlorin e₆ and pheophorbide a was accomplished with bromomethyl acetate. High-performance liquid chromatography allowed for the purification of PAME, in 87% purity, and CAME, in 63% yield and 94% purity, as well as the detection of the presumed mono- and diesters of chlorin e₆ as transient intermediates in the synthesis of CAME. The ultraviolet-visible absorption, fluorescence excitation and emission, NMR and mass spectra of the chlorin e₆ tnester are consistent with those expected for CAME. The pH-sensitive amphipathicity of pheophorbide a and chlorin e₆ but not CAME was demonstrated using a water/1-octanol partition assay. The production of pheophorbide a from PAME and the sequential formation of the di- and monoesters and free chlorin e₆ from CAME, by the action of lysosomal esterases obtained from cancer cells, demonstrate the potential of cellular enzymes to convert the lipophilic esters to pH-sensitive amphipathic PS. It is expected that the product of the esterases' action in the acidic lysosome will be hydrophobic and tend to diffuse into the organelle membrane. Contact with the neutral pH of the adjacent cytosol will result in conversion of the PS to a more hydrophilic anionic species, presumably allowing for it lo diffuse into that compartment and partition throughout the lipophilic and aqueous compartments of the cell.     

Influence of the air gap between protective clothing and skin on clothing performance during flash fire exposure

A finite volume model was developed to simulate transient heat transfer in protective clothing during flash fire exposure. The model accounts for the combined conduction-radiation heat transfer in the air gap between the fabric and skin. The variation in the fabric and air gap properties with temperature and the thermochemical reactions in the fabric are also considered. This study investigates the influence of the air gap in protective clothing on the energy transfer through the clothing and hence on its performance. Different parameters that affect the conduction-radiation heat transfer through the air gap such as the air gap absorption coefficient and the air gap width were studied. Finally, the paper demonstrates that an innovative and potentially significant way to improve protective clothing performance is to reduce the emissivity on the backside of the fabric.     

稳态实验考察经模拟道路老化的全配方稀燃Nox捕集催化剂上的Nox还原

Fully formulated lean NOx trap(LNT)catalysts of the type Pt/Rh/BaO/Al2O3 were prepared with and without incorporation of CeO2-ZrO2 in the washcoat,and their NOx reduction behavior was evaluated in steady-state,continuous flow experiments.In the fresh state, the CeO2-ZrO2 addition was found to exert little effect on NOx reduction activity using H2,CO,and NH3 as the reductants.However,after simulated road aging,NOx reduction activity was significantly impaired for the CeO2-ZrO2-free catalyst,whereas the perfo...