Carbon-13 NMR chemical shift and electronic structure of polypeptide as studied by tight-binding MO theory: poly (β-benzyl L-aspartate) with the right-handle α-helix and left-handed α-helix forms

An attempt was made to calculate ¹³C NMR chemical shifts of poly(β-benzyl L-aspartate) having the right-handed α-helix (α_R-helix) and left-handed α-helix (α_L-helix) forms by a tight-binding MO sum-over-states theory within the extended Hückel framework, in order to examine whether or not the conformation-dependent ¹³C chemical shifts previously determined by the cross polarization-magic angle spinning technique are reproduced by a change of electronic structure of the polymer. It is found that the relative displacements of the observed C_α, C_β and carbonyl ¹³C chemical shifts between the α_R- and α_L-helices are reproduced qualitatively by the calculation.     

A combined effective fragment potential-fragment molecular orbital method. II. Analytic gradient and application to the geometry optimization of solvated tetraglycine and chignolin

The gradient for the fragment molecular orbital (FMO) method interfaced with effective fragment potentials (EFP), denoted by FMO∕EFP, was developed and applied to polypeptides solvated in water. The structures of neutral and zwitterionic tetraglycine immersed in water layers of 2.0, 2.5, 3.0, 3.5, 4.0, and 4.5 A? are investigated by performing FMO∕EFP geometry optimizations at the RHF∕cc-pVDZ level of theory for the solutes. The geometries optimized with FMO-RHF∕EFP are compared to those from the conventional RHF∕EFP and are found to be in very close agreement. Using the optimized geometries, the stability of the hydrated zwitterionic and neutral structures is discussed structurally and in terms of energetics at the second-order M?ller-Plesset theory (MP2)∕cc-pVDZ level. To demonstrate the potential of the method for proteins, the geometry of hydrated chignolin (protein data bank ID: 1UAO) was optimized, and the importance of the inclusion of water was examined by comparing the solvated and gas phase structures of chignolin with the experimental NMR structure.     

Octaalkyl tetracene-1,2,3,4,7,8,9,10-octacarboxylates: synthesis by twofold [2+2+2] cocyclization and crystallochromy

Tetracene octaesters, which were prepared by twofold [2+2+2] cocyclization, were isolated as red, orange, and orange-yellow solids for the methyl, ethyl, and propyl ester derivatives, respectively. X-Ray crystallographic analysis reveals that the difference in solid-state color arises owing to differences in molecular packing.     

Interaction of anti-aggregation agent dimethylethylammonium propane sulfonate with acidic fibroblast growth factor

Prevention of aggregation is critical for analyzing protein structure. Non-detergent sulfobetaines (NDSBs) are known to prevent protein aggregation, but the molecular mechanisms of their anti-aggregation effect are poorly understood. To elucidate the underlying mechanisms, we analyzed the effects of dimethylethylammonium propane sulfonate (NDSB-195) on acidic fibroblast growth factor (aFGF). NDSB-195 (0.5M) increased both aggregation and denaturation temperatures of aFGF by 4 degrees C. Chemical shift perturbation analyses indicated that many affected residues were located at the junction between a beta-strand (or 3(10)-helix) and a loop, irrespective of the chemical properties of the residue. The apparent dissociation constants of the interaction ranged from 0.04 to 3M, indicating weak interactions between NDSB and protein molecules.     

Chemical and optical control of peristaltic actuator based on self-oscillating porous gel

We demonstrate the chemical and optical control of the self-sustaining peristaltic motion of a structural colored porous hydrogel.     

Controlled cyclopolymerization through quantitative 19-membered ring formation

Cyclopolymerization of a bis-methacrylate monomer derived from trans-cyclohexanediol and 2-methacryloyloxyethyl isocyanate proceeded through 19-membered ring formation. The unusual large ring formation originated from the designed steric regulation by the cyclohexane ring and the hydrogen bonds. The RAFT polymerization employing cumyl dithiobenzoate attained controlled polymerization, which supported the quantitative cyclization.     

Iron-mediated intramolecular metalative cyclization of alpha,beta-unsaturated esters and amides. Versatile one-pot preparation of bicyclic ketoesters

2-Nonen-7-ynedioic or 2-decen-8-ynedioic acid derivatives were treated with an iron reagent generated from FeCl2 and t-BuMgCl in a ratio of 1:4 to give cyclized products after hydrolysis, deuteriolysis, or the addition of carbonyl compounds. Upon reaction with the same iron reagent, 2,7-nonadienedioates afforded bicyclic ketoesters (and their enol forms) after the addition of s-BuOH or carbonyl compounds.     

Switchable C- and N-bound isomers of transition-metal cyanocarbanions: synthesis and interconversions of cyclopentadienyl ruthenium complexes of phenylsulfonylacetonitrile anions

The synthesis, structure, and dynamic behavior of bistable C- and N-bound isomers of transition-metal cyanocarbanions are described. A series of C-bound cyclopentadienyl (Cp) ruthenium phosphane complexes, [Ru{CH(CN)SO2Ph}(Cp)L1L2] (3), and their N-bound isomers, [Ru+(Cp)(NCCH(-)SO2Ph)L1L2] (4), were prepared by treating [RuCl(Cp)(PR3)2] with the sodium salt of phenylsulfonylacetonitrile and performing ligand-exchange reactions with the resulting compounds. Structural characterization by X-ray diffraction indicates that the cyanocarbanion moiety of 3 has an alpha-metalated structure, whereas that of 4 has a zwitterionic, end-on structure. Heating these complexes in aprotic solvents gives rise to irreversible linkage isomerization between C- and N-bound isomers, in which the relative thermal stabilities vary greatly depending on the steric and electronic nature of the ligands. Mechanistic studies of N-to-C isomerization revealed that the reaction proceeds irreversibly in a unimolecular manner without the formation of coordinatively unsaturated species. A metal-sliding process, which occurs over the -C-C triple chemical bond N pi-conjugated surface of the cyanocarbanion moiety, was suggested by results from kinetic studies and density functional theory (DFT) calculations. C-to-N isomerizations proceed by the above-mentioned intramolecular process, with a temperature-dependent contribution from the formation and cleavage of mu2-C,N coordination dimers [{Ru{CH(CN)SO2Ph}(Cp)(PPh3)}2] (15 and 16).     

Asymmetric hydrogenation of alpha-chloro aromatic ketones catalyzed by eta6-arene/TsDPEN-ruthenium(II) complexes

Asymmetric hydrogenation of various alpha-chloro aromatic ketones with Ru(OTf)(TsDPEN)(eta6-arene) (TsDPEN = N-(p-toluenesulfonyl)-1,2-diphenylethylenediamine) produces the chiral chlorohydrins in up to 98% ee. This reaction can be conducted even on a 206-g scale. The hydrogenation of an alpha-chloro ketone with a phenol moiety has been utilized for the synthesis of (R)-norphenylephrine without protection-deprotection operations. [reaction: see text].