High-resolution separation of peptides by sodium dodecyl sulfate-polyacrylamide gel "focusing"

As a follow-up of our previous report (Anal. Chem. 2007, 79, 821-827) on analytical SDS-PAGE focusing, a refinement of the method for separation of peptides in the small to medium M(r) range (0.5-10 kDa) is here reported, based on a shallow gradient of immobilized positive charges (0-10 mM) onto a minimally sieving polyacrylamide gel matrix (4%T, 2.5%C). Unlike conventional SDS-PAGE, which rarely can achieve the separations of polypeptide chains below a critical value of 10 kDa, the present method can be fine-tuned to perform such separations even down to a size of only 500 Da. In the case of larger fragments, the major peptide zones are shown, under microscope observation, to be composed by envelopes of bands as narrow as 20-100 microm, spaced at regular intervals of 100-150 microm. It is hypothesized that such larger peptides could form complexes with rather small SDS micelles and that such peptide-SDS complexes could differ in charge by just a single negative charge.     

Photophysics of (1-butyl-4-(1H-inden-1-ylidene)-1,4-dihydropyridine (BIDP): an experimental test for conical intersections

Fluorescence experiments on (1-butyl-4-(1H-inden-1-ylidene)-1,4-dihydropyridine (BIDP) are reported in liquid and glassy solutions. The data indicate a fast decay in the fluid nonpolar, nonprotic solutions (decay times approximately 10(-12) s) and rapid but considerably slower decay in polar ones. In frozen solutions (polar and nonpolar), the fluorescence quantum yield is much higher (near 0.5 and around 0.1 in polar and nonpolar glasses, respectively). The rapid nonradiative transitions in fluid solutions are assigned to internal conversion in both solvent classes, as intersystem crossing is much slower and no net reaction is observed. These results are in agreement with predictions made for the closely related (in terms of electronic structure) but simpler molecule cyclopentadienyl-1,4-dihydropyridine (CPDHP) for which an S1/S0 conical intersection was recently proposed [Int. J. Quant. Chem. 2005, 102, 961]. The crossing of the two lowest singlet states is calculated to vanish in polar solvents such as methyl cyanide, leading to longer lifetime of S1 of CPDHP. As BIDP has a very similar electronic structure, the model predicts a corresponding change in this larger molecule. The strong fluorescence observed in the glassy environments is rationalized by the hindering of the internal torsion required to reach the geometry of the conical intersection.     

Crystallization of carbamazepine pseudopolymorphs from nonionic microemulsions

Crystallization of carbamazepine (CBZ), an antiepileptic drug, precipitated from confined spaces of nonionic microemulsions was investigated. The study was aimed to correlate the structure of the microemulsion [water-in-oil (W/O), bicontinuous, and oil-in-water (O/W)] with the crystalline structure and morphology of solid CBZ. The precipitated CBZ was studied by DSC, TGA, powder XRD, single-crystal XRD, SEM, and optical microscopy. The results suggest that the microstructure of the microemulsions influences the crystallization process and allows crystallizing polymorphs that exhibit different crystal structure and habits. W/O nanodroplets orient the crystallizing CBZ molecules to form a prismlike anhydrous polymorphic form with monoclinic unit cell and P21/n space group. Bicontinuous structures lead to platelike dihydrate crystals with orthorhombic unit cell and Cmca space group. The O/W nanodroplets cause the formation of needlelike dihydrate crystals with monoclinic unit cell and P21/c space group. The morphological features of solid CBZ remain predetermined by the basic symmetry and parameters of its unit cell. Precipitation of CBZ pseudopolymorphs from supersaturated microemulsion is discussed in terms of oriented attachment that provides perfect packing of numerous separately nucleated ordered nuclei of CBZ into microscale platelets and then into macroscopic crystals. Crystallization from microemulsion media enabling one to obtain the drug (CBZ) with predicted structure and morphology should be of great significance for pharmaceutical applications.     

Graphs of transportation polytopes

This paper discusses properties of the graphs of 2-way and 3-way transportation polytopes, in particular, their possible numbers of vertices and their diameters. Our main results include a quadratic bound on the diameter of axial 3-way transportation polytopes and a catalogue of non-degenerate transportation polytopes of small sizes. The catalogue disproves five conjectures about these polyhedra stated in the monograph by Yemelichev et al. (1984). It also allowed us to discover some new results. For example, we prove that the number of vertices of an m×n transportation polytope is a multiple of the greatest common divisor of m and n.     

Roof-shaped halide-bridged bimetallic complexes via ring expansion reaction

Binucleating behavior of rigid triptycene-based ligands has been studied. It has been demonstrated that trans-spanned transition-metal mononuclear complexes bearing 1,8-bis(diisopropylphosphino)triptycene (L1) and 1-diisopropylphosphino-8-diphenylphosphinotriptycene (L2) react with an appropriate transition-metal precursor via a ring-expansion pathway to form unusual bimetallic quasi-closed structures. New palladium and rhodium complexes featuring strongly bent (ca. 115 degrees ) M2(mu-Cl2) cores with very closely spanned metal centers (less than 3 A) have been prepared using the described ring-expansion reaction and have been fully characterized. Despite a constrained arrangement of the binuclear system, halogen bridges in all new compounds were stable in both the solid state and solution showing no tendency for dissociation even in the presence of added Lewis bases. Spontaneous resolution of the dissymmetric Pd2(mu-Cl)2Cl2(1-diisopropylphosphino-8-diphenylphosphinotriptycene) (2) into enantiopure antipodes is discussed as well.     

Thermal analysis of tetraethylammonium and benzyltrimethylammonium montmorillonites

Na-montmorillonite was loaded with tetraethylammonium cations (TEA) or with benzyltrimethylammonium cations (BTMA) by replacing 77 and 81% of the exchangeable Na with TEA or BTMA, labeled TEA-MONT and BTMA-MONT, respectively. TEA- and BTMA-MONT were heated in air up to 900?°C. Thermally treated organoclays are used in our laboratory as sorbents of organic compounds from water. The two organoclays were studied by TG and DTG in air and under nitrogen. Carbon content in each of the heated sample was determined. They were diffracted by X-ray, and fitting calculations of d(001) peaks were performed on each diffractogram. TG and thermo-C analysis showed that at 150 and 250?°C both organoclays lost water but not intercalated ammonium cations. DTG peak of the first oxidation step of the organic cation with the formation of low-temperature stable charcoal (LTSC) appeared at 364 and 313?°C for TEA- and BTMA-MONT, respectively. The charcoal was gradually oxidized by air with further rise in temperature. DTG peak of the second oxidation step with the formation of high-temperature stable charcoal (HTSC) appeared at 397 and 380?°C for TEA- and BTMA-MONT, respectively. DTG peak of the final oxidation step of the organic matter appeared at 694 and 705?°C for TEA- and BTMA-MONT, respectively, after the dehydroxylation of the clay. Thermo-XRD analysis detected TEA-MONT tactoids with spacing 1.40 and 1.46?nm up to 300?°C. At 300 and 360?°C, LTSC-MONT tactoids were detected with spacing of 1.29?nm. At higher temperatures, HTSC-MONT-?? and -?? tactoids were detected with spacings of 1.28 and 1.13?nm, respectively. BTMA-MONT tactoids with spacings 1.46 and 1.53?nm were detected up to 250?°C. At 300 and 360?°C, LTSC-MONT tactoids were detected with a spacing of 1.38?nm. At higher temperatures, HTSC-MONT-?? and -?? tactoids were detected with spacings of 1.28 and 1.17?nm, respectively. At 650?°C, both clays were collapsed. HTSC-??-MONT differs from HTSC-??-MONT by having carbon atoms keying into the ditrigonal holes of the clay-O-planes. At 900?°C, the clay fraction is amorphous. Trace amounts of spinel and cristobalite are obtained from thermal recrystallization of amorphous meta-MONT.     

New aeruginazoles,a group of thiazole-containing cyclic peptides from Microcystis aeruginosa blooms

Three related cyclic peptides, aeruginazole DA1497 (1), aeruginazole DA1304 (2), and aeruginazole DA1274 (3), were isolated from the freshwater cyanobacteria, Microcystis aeruginosa, bloom material collected on October 2007 from the Dalton water-reservoir in Northern Israel. Aeruginazoles DA1304 (2), DA1338 (4), and DA1372 (5) were isolated as an inseparable mixture from a bloom material of M. aeruginosa collected from the same water-reservoir on August 2000. Their structures were elucidated using a combination of various spectroscopic techniques, mainly NMR and MS, while the absolute stereochemistry of the chiral centers were determined by Marfey’s method. Aeruginazoles 1–3 were tested in various bioassays (antibacterial, cytotoxicity, and protease inhibition). Aeruginazole DA1497 (1) showed a mild antimicrobial activity against Staphylococcus aureus, but was inactive like the rest of the compounds in all other bioassays.     

Random graphs in the monadic theory of order

We continue the works of Gurevich-Shelah and Lifsches-Shelah by showing that it is consistent with ZFC that the first-order theory of random graphs is not interpretable in the monadic theory of all chains. It is provable from ZFC that the theory of random graphs is not interpretable in the monadic second order theory of short chains (hence, in the monadic theory of the real line). Received: 18 July 1996     

The Twin-Excited State as a Probe for the Transition State in Concerted Unimolecular Reactions: The Semibullvalene Rearrangement

A twin of the transition state , which can be investigated spectroscopically and can thus supply information about the structure of the transition state, has now been characterized for the Cope rearrangement of semibullvalene (shown below). It involves an excited state with B₂ symmetry and results from a linear combination of the ground-state wave functions of (mirror-image) reactant and product.