Novel Cysteine Tags for the Sequencing of Non-Tryptic Disulfide Peptides of Anurans: ESI-MS Study of Fragmentation Efficiency

Mass spectrometry faces considerable difficulties in de novo sequencing of long non-tryptic peptides with S–S bonds. Long disulfide-containing peptides brevinins 1E and 2Ec from frog Rana ridibunda were reduced and alkylated with nine novel and three known derivatizing agents. Eight of the novel reagents are maleimide derivatives. Modified samples were subjected to MS/MS studies on FT-ICR and Orbitrap mass spectrometers using CAD/HCD or ECD/ETD techniques. Procedures, fragmentation patterns, and sequence coverage for two peptides modified with 12 tags are described. ECD/ETD and CAD fragmentation revealed complementary sequence information. Higher-energy collisionally activated dissociation (HCD) sufficiently enhanced y-ions formation for brevinin 1E, but not for brevinin 2Ec. Some novel tags [N-benzylmaleimide, N-(2,6-dimethylphenyl)maleimide] along with known N-phenylmaleimide and iodoacetic acid showed high total sequence coverage taking into account combined ETD and HCD fragmentation. Moreover, modification of long (34 residues) brevinin 2Ec with N-benzylmaleimide or N-(2,6-dimethylphenyl)maleimide yielded high sequence coverage and full C-terminal sequence determination with ECD alone.     

Liquid-crystalline polymer composites with CdS nanorods: structure and optical properties

We report on the structure, uniaxial orientation, and photoluminescent properties of CdS nanorods that form stable nanocomposites with smectic C hydrogen-bonded polymers from the family of poly(4-(n-acryloyloxyalkoxy)benzoic acids. TEM analysis of microtomed films of nanocomposites reveals that CdS nanorods form small domains that are homogeneously distributed in the LC polymer matrix. They undergo long-range orientation with the formation of one-dimensional aggregates of rods when the composite films are uniaxially deformed. The Stokes photoluminescence was observed from CdS NRs/LC polymer composites with emission peak located almost at the same wavelength as that of NRs solution in heptane. An anti-Stokes photoluminescence (ASPL) in polymer nanocomposites was found under the excitation below the nanoparticles ground state. The mechanism of ASPL was interpreted in terms of thermally populated states that are involved in the excitation process. These nanocomposites represent an unusual material in which the optical properties of anisotropic semiconductor nanostructures can be controlled by mechanical deformation of liquid-crystalline matrix.     

Carbonyl Charge Solvation Patterns May Relate to Fragmentation Classes in Collision-Activated Dissociation

Here, we investigate the hypothesis that the origin of Class I fragmentation in tryptic peptide dications corresponding to the cleavage of the first two amino acids from the N-terminus is due to a dominant charge solvation pattern. Molecular dynamics simulations (MDS) of model A(n)R dications confirmed the existence of a persistent solvation of the protonated N-terminus on the second backbone carbonyl. Additionally, MDS predicted a new distinct fragmentation class corresponding to the loss of two amino acids from the C-terminus. This prediction was confirmed experimentally at very low excitation levels. The pattern produced by electron transfer dissociation of the same dications gave markedly decreased cleavage frequencies at the second peptide bond, which, within the non-local fragmentation mechanism, supports the preferential charge solvation on the second carbonyl. Taken together, these results confirm the role of a charge solvation pattern in the origin of fragmentation classes.     

From aromaticity to self-organized criticality in graphene

The unique properties of graphene are rooted in its peculiar electronic structure where effects of electron delocalization are pivotal. We show that the traditional view of delocalization as formation of a local or global aromatic bonding framework has to be expanded in this case. A modification of the π-electron system of a finite-size graphene substrate results in a scale-invariant response in the relaxation of interatomic distances and reveals self-organized criticality as a mode of delocalized bonding. Graphene is shown to belong to a diverse class of finite-size extended systems with simple local interactions where complexity emerges spontaneously under very general conditions that can be a critical factor controlling observable properties such as chemical activity, electron transport, and spin-polarization.     

Tangential interaction of elastic spherical particles in contact

The elastic interaction of spherical particles is studied. The distribution of the stress, normal to the contact plane, is determined by the rod model suggested recently, which is applicable in the more wide range of deformations as compared with the classical Hertz law. In the rod model context an inner part of compressed particles is regarded as an elastic cylindrical rod, which radius is equal to the contact radius. The rod reaction is added to the normal particle interaction corresponding with the Hertz solution. The resulting normal force passes into the Hertz solution for infinitesimal deformations and gives stronger particle repulsion for finite deformations. Here we solve the Mindlin problem for the rod model, i.e., derive the tangential interaction of initially compressed particles when a relative displacement takes place. The analytical expressions, which determine the total displacement of the sphere’s centers and the corresponding tangential force, are derived. So, the generalization of the classical Mindlin law is obtained for the rod model.     

On the theory of the magnetoviscous effect in ferrofluids

The microscopic origin of viscoelastic effects in ferrofluids is studied theoretically. The growth kinetics of chain aggregates formed by magnetic ferroparticles under the action of the dipole-dipole interaction between them is analyzed. It is shown that the evolution rate for an ensemble of chains determines the rate of variation in the macroscopic stress of the medium upon a change in the applied external field and/or in the shear flow velocity. Consequently, the viscoelastic properties of magnetic fluids can be explained by the chain formation-destruction processes. The proposed microscopic model of a ferrofluid makes it possible (apparently, for the first time) to estimate the characteristic time of viscoelasticity corresponding to experimental results.     

Separability of a two-particle t-matrix in the case of the three-body problem

A factorization is proposed in this article of a two-particle t-matrix for the problem of three bodies, the scattering phase and the half-mass amplitude being described exactly for any approximation order. The uniform convergence of the approximation process is also proved.     

Starfruit-shaped gold nanorods and nanowires: synthesis and SERS characterization

Recently, branched and star-shaped gold nanoparticles have received significant attention for their unique optical and electronic properties, but most examples of such nanoparticles have a zero-dimensional shape with varying numbers of branches coming from a quasi-spherical core. This report details the first examples of higher-order penta-branched gold particles including rod-, wire-, and platelike particles which contain a uniquely periodic starfruitlike morphology. These nanoparticles are synthesized in the presence of silver ions by a seed-mediated approach based on utilizing highly purified pentahedrally twinned gold nanorods and nanowires as seed particles. The extent of the growth can be varied, leading to shifts in the plasmon resonances of the particles. In addition, the application of the starfruit rods for surface-enhanced Raman spectroscopy (SERS) is demonstrated.