Characterization of N-terminal processing of group VIA phospholipase A<Subscript>2</Subscript> and of potential cleavage sites of amyloid precursor protein constructs by automated identification of signature peptides in LC/MS/MS analyses of proteolytic digests

Dysregulation of proteolytic processing of the amyloid precursor protein (APP) contributes to the pathogenesis of Alzheimer's Disease, and the Group VIA phospholipase A(2) (iPLA(2)beta) is the dominant PLA(2) enzyme in the central nervous system and is subject to regulatory proteolytic processing. We have identified novel N-terminal variants of iPLA(2)beta and previously unrecognized proteolysis sites in APP constructs with a C-terminal 6-myc tag by automated identification of signature peptides in LC/MS/MS analyses of proteolytic digests. We have developed a Signature-Discovery (SD) program to characterize protein isoforms by identifying signature peptides that arise from proteolytic processing in vivo. This program analyzes MS/MS data from LC analyses of proteolytic digests of protein mixtures that can include incompletely resolved components in biological samples. This reduces requirements for purification and thereby minimizes artifactual modifications during sample processing. A new algorithm to generate the theoretical signature peptide set and to calculate similarity scores between predicted and observed mass spectra has been tested and optimized with model proteins. The program has been applied to the identification of variants of proteins of biological interest, including APP cleavage products and iPLA(2)beta, and such applications demonstrate the utility of this approach.     

Alpha-sulfinyl carbanions as a new source of olefins

[reaction: see text] Secondary alpha-lithiosulfinyl carbanions react either intermolecularly, after transmetalation into an organocopper derivative in an S(N)2-type process with zinc carbenoid, or intramolecularly via higher-order zincate to give, through a tandem zinc homologation-beta-elimination reaction the corresponding alkenes. alpha,alpha-Disubstituted alkenes are only formed from tertiary alpha-lithiosulfinyl carbanions via the 1,2-metalate rearrangement.     

A molecular-dynamics study of a model S(N)1 dissociation reaction at the water liquid/vapor interface

The thermodynamics and dynamics of a model S(N)1 reaction: t-BuCl --> t-Bu+ + Cl- is studied at the water liquid/vapor interface using molecular-dynamics computer simulations. The empirical valence bond approach is used to couple two diabatic states, covalent and ionic, in the electronically adiabatic limit. Umbrella sampling calculations are used to calculate the potential of mean force along the reaction coordinate (defined as the t-Bu to Cl distance) in bulk water and in several locations at the interface. We find a significant increase of the dissociation barrier height and of the reaction free energy at the interface relative to the bulk. This is shown to be due to the reduced polarity of the interface. Reactive flux correlation function calculations show significant deviation of the rate constant from the transition-state theory: The transmission coefficients range from 0.49 in the bulk to 0.05 above the Gibbs surface. The low transmission coefficient at the interface despite the lower friction is shown to be due to slow vibrational relaxation.     

Heat capacities of concentrated multicomponent aqueous electrolyte solutions at various temperatures

The specific heat capacities of the aqueous multicomponent system NaCl +KCl+MgCl₂+CaCl₂ with ionic strength between 8.3 and 9.6 (resembling Dead Sea waters) were measured between 15°C and 45°C. The obtained data were fitted to an empirical equation as a function of concentration and temperature. The thermodynamic functions of the studied multicomponent system were found to be strongly influenced by changes in MgCl₂ concentrations. The application of Young's rule to such concentrated systems was checked at 25°C. The calculated (by Young's rule) specific heat capacitiesC _p and apparent molar heat capacities C_p, of these multicomponent electrolyte solutions were in reasonable agreement with the measured values (–0.008 J-g^–1-K^–1 and –2.6 J-mol^–1-K^–1, respectively).     

Remote Fluorination and Fluoroalkyl(thiol)ation Reactions

Remote functionalization reactions have the power to transform a C−H (or C−C) bond at a distant position from a functional group. This Review summarizes recent advances and key breakthroughs in remote fluorination, trifluoromethylation, difluoromethylation, trifluoromethylthiolation, and fluoroalkenylation reactions. Several powerful strategies have emerged to control the reactivity and distal selectivity such as the undirected radical approach, the 1,5-hydrogen atom transfer, the metal migration, the use of distant directing groups, and the ring-opening reactions. These unconventional and predictable C−H (and C−C) functionalization transformations should allow for the preparation of a wide range of otherwise-difficult-to-access alkyl, aromatic, heteroaromatic, and structurally complex fluorides.     

Limited path percolation in complex networks

We study the stability of network communication after removal of a fraction q=1-p of links under the assumption that communication is effective only if the shortest path between nodes i and j after removal is shorter than al(ij)(a> or =1) where l(ij) is the shortest path before removal. For a large class of networks, we find analytically and numerically a new percolation transition at p(c)=(kappa(0)-1)((1-a)/a), where kappa(0) [triple bond] / and k is the node degree. Above p(c), order N nodes can communicate within the limited path length al(ij), while below p(c), N(delta) (delta<1) nodes can communicate. We expect our results to influence network design, routing algorithms, and immunization strategies, where short paths are most relevant.     

On the entropic nucleation barrier in a martensitic transformation

The nucleation of martensite in alloys is hindered by a free energy nucleation barrier, hence comprising contributions of the potential energy and the entropy. The leading effect is commonly attributed to the potential energy barrier due to strain fields. In this contribution, we investigate the nature of the entropic barrier by means of molecular dynamics (MD) simulations. We study a transformation process of an undercooled single crystal and examine two nucleation events observed under adiabatic conditions using vibrational mode analysis of the atomic trajectories. Our analysis shows that martensitic nucleations are indicated by transit from a state of uncorrelated into a state of correlated atomic motions. This correlation process is built up locally by a small group of atoms even before the product lattice can be recognized morphologically and it produces vibrational ‘soft’ modes along transformation paths. Phase space analyses unveil that the correlation process is characterized by narrow domains – ‘nucleation channels’ – the atomic trajectories have to pass, connecting the phase space domains of the parent and the product lattice. For a successful nucleation event, the nucleus atoms have to pass this channel collectively, which stochastically represents a rare event. Thermal fluctuations prevent finding the channel at elevated temperature and give rise for entropic stabilization of the parent phase. This ‘entropic nucleation barrier’ is reduced in the undercooled state but still effective, thus preventing the parent phase from collapsing into the product. The entropic barrier may be interpreted as the probability of a group of atoms to simultaneously pass the nucleation channel. Such group then represents a nucleus.     

Modulable and Highly Diastereoselective Carbometalations of Cyclopropenes

The copper‐catalyzed carbomagnesiation reaction of cyclopropenyl esters 1 leads to various substituted cyclopropanes species 3 in good yields with very high diastereoselectivities. The reaction proceeds through a syn‐chelated carbomagnesiation reaction and could be extended to various cyclopropenylmethyl ester derivatives 5 . The potential of this approach was illustrated by the preparation of two consecutive all‐carbon quaternary stereocenters. However, the carbometalation reaction needs to be performed at temperature ranging from ?35 to ?20 °C to avoid subsequent fragmentation reaction into stereodefined β,γ‐nonconjugated unsaturated esters 4 . Alternatively, the carbocupration reaction with organocopper species could also be performed to leads to configurationally stable cyclopropyl copper species 2[Cu] . Additionally, when the Lewis acid character of the copper center is decreased (i.e., RCuCNLi), the reaction proceed with an anti‐selectivity. The diastereodivergent behavior of these organometallic species is of synthetic interest, since both diastereomers syn‐ 3 and anti‐ 3 can be obtained, at will, from the same precursor cyclopropenyl esters 1 .     

Control of multiple filamentation in air

In this Letter we provide what is believed to be the first experimental evidence of suppression of the number of filaments for high-intensity laser pulses propagating in air by beam astigmatism. We also show that the number, pattern, and spatial stability of the filaments can be controlled by varying the angle that a focusing lens makes with the axial direction of propagation. This new methodology can be useful for applications involving atmospheric propagation, such as remote sensing.