Development of new coarse-grained models for chromonic liquid crystals: insights from top-down approaches

ABSTRACT

Two top-down coarse-grained molecular simulation models for a chromonic liquid crystal, 3,6,7,10,11-hexa-(1,4,7-trioxa-octyl)-triphenylene, are tested. We use an extension of the well-known MARTINI model and develop a new coarse-grained model based on statistical associating fluid theory (SAFT)-γ perturbation theory. For both models, we demonstrate self-assembly in the isotropic phase of the chromonic and we test the effectiveness of both models in terms of the structures of the chromonic aggregates that are produced in solution and the thermodynamics of association. The latter is tested by calculations of the potential of mean force for dimers in solution, which measures the strength of molecular association. SAFT-γ provides valuable insights into the thermodynamics of assembly. Exploration of a range of interactions between unlike sites demonstrates that chromonic self-assembly only occurs in a small parameter space where the hydrophilic–lipophilic balance between aromatic core and ethylene oxide chains is optimal. Outside of this balance, chromonic self-assembly is replaced by the formation of conglomerates of molecules or short stacks.     

Separation of boundary singularities for holomorphic generators

We prove a theorem on separation of boundary null points for generators of continuous semigroups of holomorphic self-mappings of the unit disk in the complex plane. Our construction demonstrates rather strikingly the particular role of the binary operation ? given by 1/ f ? g = 1/f + 1/g on generators.     

Effects of Intra-Base Pair Proton Transfer on Dissociation and Singlet Oxygenation of 9-Methyl-8-Oxoguanine−1-Methyl-Cytosine Base-Pair Radical Cations

8-Oxoguanosine is the most common oxidatively generated base damage and pairs with complementary cytidine within duplex DNA. The 8-oxoguanosine−cytidine lesion, if not recognized and removed, not only leads to G-to-T transversion mutations but renders the base pair being more vulnerable to the ionizing radiation and singlet oxygen (¹O₂) damage. Herein, reaction dynamics of a prototype Watson−Crick base pair [9MOG ⋅ 1MC]⋅⁺, consisting of 9-methyl-8-oxoguanine radical cation (9MOG⋅⁺) and 1-methylcystosine (1MC), was examined using mass spectrometry coupled with electrospray ionization. We first detected base-pair dissociation in collisions with the Xe gas, which provided insight into intra-base pair proton transfer of 9MOG⋅⁺ ⋅ 1MC [9MOG − H_N1]⋅ ⋅ [1MC+H_N3′]⁺ and subsequent non-statistical base-pair separation. We then measured the reaction of [9MOG ⋅ 1MC]⋅⁺ with ¹O₂, revealing the two most probable pathways, C5-O₂ addition and H_N7-abstraction at 9MOG. Reactions were entangled with the two forms of 9MOG radicals and base-pair structures as well as multi-configurations between open-shell radicals and ¹O₂ (that has a mixed singlet/triplet character). These were disentangled by utilizing approximately spin-projected density functional theory, coupled-cluster theory and multi-referential electronic structure modeling. The work delineated base-pair structural context effects and determined relative reactivity toward ¹O₂ as [9MOG − H]⋅>9MOG⋅⁺>[9MOG − H_N1]⋅ ⋅ [1MC+H_N3′]⁺≥9MOG⋅⁺ ⋅ 1MC.     

Extension operators via semigroups

The Roper-Suffridge extension operator and its modifications are powerful tools to construct biholomorphic mappings with special geometric properties. The first purpose of this paper is to analyze common properties of different extension operators and to define an extension operator for biholomorphic mappings on the open unit ball of an arbitrary complex Banach space. The second purpose is to study extension operators for starlike, spirallike and convex in one direction mappings. In particular, we show that the extension of each spirallike mapping is A-spirallike for a variety of linear operators A. Our approach is based on a connection of special classes of biholomorphic mappings defined on the open unit ball of a complex Banach space with semigroups acting on this ball.     

In situ measurements of the formation and morphology of intracellular β-amyloid fibrils by super-resolution fluorescence imaging

Misfolding and aggregation of peptides and proteins is a characteristic of many neurodegenerative disorders, including Alzheimer's disease (AD). In AD the β-amyloid peptide (Aβ) aggregates to form characteristic fibrillar structures, which are the deposits found as plaques in the brains of patients. We have used direct stochastic optical reconstruction microscopy, dSTORM, to probe the process of in situ Aβ aggregation and the morphology of the ensuing aggregates with a resolution better than 20 nm. We are able to distinguish different types of structures, including oligomeric assemblies and mature fibrils, and observe a number of morphological differences between the species formed in vitro and in vivo, which may be significant in the context of disease. Our data support the recent view that intracellular Aβ could be associated with Aβ pathogenicity in AD, although the major deposits are extracellular, and suggest that this approach will be widely applicable to studies of the molecular mechanisms of protein deposition diseases.     

Structural investigation of aluminium doped ZnO nanoparticles by solid-state NMR spectroscopy

The electrical conductivity of aluminium doped zinc oxide (AZO, ZnO:Al) materials depends on doping induced defects and grain structure. This study aims at relating macroscopic electrical conductivity of AZO nanoparticles with their atomic structure, which is non-trivial because the derived materials are heavily disordered and heterogeneous in nature. For this purpose we synthesized AZO nanoparticles with different doping levels and narrow size distribution by a microwave assisted polyol method followed by drying and a reductive treatment with forming gas. From these particles electrically conductive, optically transparent films were obtained by spin-coating. Characterization involved energy-dispersive X-ray analysis, wet chemical analysis, X-ray diffraction, electron microscopy and dynamic light scattering, which provided a basis for a detailed structural solid-state NMR study. A multinuclear ((27)Al, (13)C, (1)H) spectroscopic investigation required a number of 1D MAS NMR and 2D MAS NMR techniques (T(1)-measurements, (27)Al-MQMAS, (27)Al-(1)H 2D-PRESTO-III heteronuclear correlation spectroscopy), which were corroborated by quantum chemical calculations with an embedded cluster method (EEIM) at the DFT level. From the combined data we conclude that only a small part of the provided Al is incorporated into the ZnO structure by substitution of Zn. The related (27)Al NMR signal undergoes a Knight shift when the material is subjected to a reductive treatment with forming gas. At higher (formal) doping levels Al forms insulating (Al, H and C containing) side-phases, which cover the surface of the ZnO:Al particles and increase the sheet resistivity of spin-coated material. Moreover, calculated (27)Al quadrupole coupling constants serve as a spectroscopic fingerprint by which previously suggested point-defects can be identified and in their great majority be ruled out.     

Segre classes on smooth projective toric varieties

We provide a generalization of the algorithm of Eklund, Jost and Peterson for computing Segre classes of closed subschemes of projective $k$ -space. The algorithm is here generalized to computing the Segre classes of closed subschemes of smooth projective toric varieties.     

X-ray spectral investigation of the redistribution of electron density during complexation

Irkutsk Institute of Organic Chemistry, Siberian Branch, Russian Academy of Sciences. Translated from Zhurnal Strukturnoi Khimii, Vol. 33, No. 2, pp. 67–78, March–April, 1992.