Self-sorting: the exception or the rule?

In this paper, we pose the question of whether self-sorting in designed systems is exceptional behavior or whether it is likely to become a more general phenomenon governing molecular recognition and self-assembly. To address this question we prepared a mixture comprising two of Davis' self-assembled ionophores, Rebek's tennis ball and calixarene tetraurea capsule, Meijer's ureidopyrimidinone, Reinhoudt's calixarene bis(rosette), and two molecular clips in CDCl(3) solution and observed the behavior of this ensemble by (1)H NMR. As hypothesized, high-fidelity self-sorting behavior was observed. The influence of several key variables-temperature, concentration, equilibrium constants, and the presence of competitors-on the fidelity of self-sorting is described. These results show that self-sorting is neither the exception nor the rule. They suggest, however, that the subset of known molecular aggregates that exceed the criteria required for thermodynamic self-sorting is larger than previously appreciated and potentially quite broad.     

Is the ether group hydrophilic or hydrophobic?

A series of six surfactants, each with two ether oxygens within otherwise all-hydrocarbon chains, were synthesized and examined for their colloidal properties. Since an ether oxygen is sterically and conformationally similar to the methylene group it has replaced, the ether effect on micellization should stem mainly from solvation of the oxygen and, possibly, disrupted hydrophobicity of its adjacent carbons. It was found that critical aggregation values among the surfactants differ only modestly despite the total length of the ether-separated carbon segments ranging from 12 to 18. Shorter ether surfactants with only 12 or 14 total carbons appear to form small, loose aggregates owing, presumably, to a mild hydrophilicity of the ether groups. A surfactant with 18 chain carbons has a greater tendency to associate hydrophobically, but this is counterbalanced by a relatively water-free environment encountered by the ether groups within a more conventional micelle interior. The result is a leveling effect in which the critical aggregation concentration (cac) loses it sensitivity to chain length. Above their cac's, none of the ether surfactants is a good solubilizer of tetramethysilane or mesitylene. This is not necessarily a predictable finding since it was conceivable that the presence of interior ether groups might actually enhance solubilization (much as ether is a better solvent than hexane). Foamability and solid adsorption studies also indicate that the ethers impair surface activity. In response to the question posed in the paper's title, two ether groups are not sufficiently hydrophilic to prevent aggregation, but they do manage to alter the micelles' morphology and properties considerably.     

Confinement or the nature of the interface? Dynamics of nanoscopic water

The dynamics of water confined in two different types of reverse micelles are studied using ultrafast infrared pump-probe spectroscopy of the hydroxyl OD stretch of HOD in H2O. Reverse micelles of the surfactant Aerosol-OT (ionic head group) in isooctane and the surfactant Igepal CO 520 (nonionic head group) in 50/50 wt % cyclohexane/hexane are prepared to have the same diameter water nanopools. Measurements of the IR spectra and vibrational lifetimes show that the identity of the surfactant head groups affects the local environment experienced by the water molecules inside the reverse micelles. The orientational dynamics (time-dependent anisotropy), which is a measure of the hydrogen bond network rearrangement, are very similar for the confined water in the two types of reverse micelles. The results demonstrate that confinement by an interface to form a nanoscopic water pool is a primary factor governing the dynamics of nanoscopic water rather than the presence of charged groups at the interface.     

Proteome-on-a-chip: mirage, or on the horizon?

Proteomics has emerged as the next great scientific challenge in the post-genome era. But even the most basic form of proteomics, proteome profiling, i.e., identifying all of the proteins expressed in a given sample, has proven to be a demanding task. The proteome presents unique analytical challenges, including significant molecular diversity, an extremely wide concentration range, and a tendency to adsorb to solid surfaces. Microfluidics has been touted as being a useful tool for developing new methods to solve complex analytical challenges, and, as such, seems a natural fit for application to proteome profiling. In this review, we summarize the recent progress in the field of microfluidics in four key areas related to this application: chemical processing, sample preconcentration and cleanup, chemical separations, and interfaces with mass spectrometry. We identify the bright spots and challenges for the marriage of microfluidics and proteomics, and speculate on the outlook for progress.     

Aggregation of the Adsorbed Proteins—in Solution or on the Surface？

The adsorption of bovine serum albumin(BSA) on porous polyethylene(PE) membrane was studied based on adsorption and desorption measurements as well as FTIR analysis. A different mechanism was roposed which showed that a critical concentration existed in the adsorptional process. Below this concentration, the adsorption seems to be conducted in a normal side-on way; above this concentration,the adsorption is in an aggregation way.     

Iron pentacarbonyl: are the axial or the equatorial iron-carbon bonds longer in the gaseous molecule?

The structure of iron pentacarbonyl, Fe(CO)(5), was reinvestigated by gas-phase electron diffraction using an experimental rotational constant available from the literature as a constraint on the structural parameters. The study utilized a B3LYP/6-311+G(d) ab initio quadratic force field, scaled to fit observed infrared wavenumbers, from which were calculated corrections for the effects of vibrational averaging on distances and certain other quantities useful for the structural analysis. The results confirm that the equatorial Fe-C bonds are longer than the axial ones, an important difference with the structure in the crystal where the equatorial Fe-C bonds are the shorter. Some distance (r(g)/A) and vibrational amplitude (l(alpha)/A) parameter values with estimated 2sigma uncertainties based on assumption of D(3h) symmetry are [r(Fe-C)] = 1.829(2), r(Fe-C)(eq) - r(Fe-C)(ax) = 0.032(20), [r(C=O)] = 1.146(2), r(C=O)(eq) - r(C=O)(ax) = 0.006(27), r(Fe-C)(ax) = 1.810(16), r(Fe-C)(eq) = 1.842(11), r(C=O)(ax) = 1.142(23), r(C=O)(eq) = 1.149(16), l(Fe-C)(ax) = l(Fe-C)(eq) = 0.047(5), and l(C=O)(ax) = l(C=O)(eq) = 0.036(3).     

A Theoretical Research on the Intermediate in the Reaction of N-Phosphorylamino-acid to form Peptide or Ribotide

Itiswellknownthatphosphorylatedpeptidesinvolveinalotofbio1ogicalprocesses,suchasmetabolism,membranetransportation,musclecontractility,cellcyc1econtrol,andsoonl.Somerecentresearchesrevealedanewaspectofthiskindofcompounds.AnN-phosporyl-a-aminoacidcanreactwithann-peptidetofOrman(n l)-peptideandreactwithann-(desoxy-)ribotidetofOrman(n l)-(desoxy-)ribotideinaqueoussolutionatabout38"C,asshowninFigurel.However,N-phosporyl-9-aminoacidscannotreactwiththesamesubstratesunderthesameconditions2.Figurel-…     

Teaching reaction efficiency through the lens of green chemistry: Should students focus on the yield,or the process?

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Carbon dioxide in the nitrosation of amine: catalyst or inhibitor?

Nitrosamines are a class of carcinogenic, mutagenic, and teratogenic compounds generally produced from the nitrosation of amine. This paper investigates the mechanism for the formation of nitrosodimethylamine (NDMA) from the nitrosation of dimethylamine (DMA) by four common nitrosating agents (NO(2)(-), ONOO(-), N(2)O(3), and ONCl) in the absence and presence of CO(2) using the DFT method. New insights are provided into the mechanism, emphasizing that the interactions of CO(2) with amine and nitrosating agents are both potentially important in influencing the role of CO(2) (catalyst or inhibitor). The role of CO(2) as catalyst or inhibitor mainly depends on the nitrosating agents involved. That is, CO(2) shows the catalytic effect when the weak nitrosating agent NO(2)(-) or ONOO(-) is involved, whereas it is an inhibitor in the nitrosation induced by the strong nitrosating agent N(2)O(3) or ONCl. To conclude, CO(2) serves as a "double-edged sword" in the nitrosation of amine. The findings will be helpful to expand our understanding of the pathophysiological and environmental significance of CO(2) and to develop efficient methods to prevent the formation of carcinogenic nitrosamines.     

Revisiting the S-Au(111) interaction: static or dynamic?

The Au-S interaction is probably the most intensively studied interaction of Au surfaces with nonmetals, as, for example, it plays an important role in Au ore formation(1) and controls the structure and dynamics of thiol-based self-assembled monolayers (SAMs). Various S-induced surface structures on Au(111) were recently reported for different conditions and predominantly interpreted in terms of a static Au surface. Here, we demonstrate that the Au(111) surface exhibits a very dynamic character upon interaction with adsorbed sulfur: large-scale surface restructuring and incorporation of Au atoms into a growing 2D AuS phase were observed in situ. These results provide new insight into the Au-S surface chemistry.     

Thermodynamic scaling of α-relaxation time and viscosity stems from the Johari-Goldstein β-relaxation or the primitive relaxation of the coupling model

By now it is well established that the structural α-relaxation time, τ(α), of non-associated small molecular and polymeric glass-formers obey thermodynamic scaling. In other words, τ(α) is a function Φ of the product variable, ρ(γ)/T, where ρ is the density and T the temperature. The constant γ as well as the function, τ(α) = Φ(ρ(γ)/T), is material dependent. Actually this dependence of τ(α) on ρ(γ)/T originates from the dependence on the same product variable of the Johari-Goldstein β-relaxation time, τ(β), or the primitive relaxation time, τ(0), of the coupling model. To support this assertion, we give evidences from various sources itemized as follows. (1) The invariance of the relation between τ(α) and τ(β) or τ(0) to widely different combinations of pressure and temperature. (2) Experimental dielectric and viscosity data of glass-forming van der Waals liquids and polymer. (3) Molecular dynamics simulations of binary Lennard-Jones (LJ) models, the Lewis-Wahnstr?m model of ortho-terphenyl, 1,4 polybutadiene, a room temperature ionic liquid, 1-ethyl-3-methylimidazolium nitrate, and a molten salt 2Ca(NO(3))(2)·3KNO(3) (CKN). (4) Both diffusivity and structural relaxation time, as well as the breakdown of Stokes-Einstein relation in CKN obey thermodynamic scaling by ρ(γ)/T with the same γ. (5) In polymers, the chain normal mode relaxation time, τ(N), is another function of ρ(γ)/T with the same γ as segmental relaxation time τ(α). (6) While the data of τ(α) from simulations for the full LJ binary mixture obey very well the thermodynamic scaling, it is strongly violated when the LJ interaction potential is truncated beyond typical inter-particle distance, although in both cases the repulsive pair potentials coincide for some distances.     

Is the Beckmann rearrangement a concerted or stepwise reaction? A computational study

[reaction: see text] RB3LYP calculations were performed on the Beckman rearrangement by the use of three substrates, acetone oxime (1), acetophenone oxime (2), and cyclohexanone oxime (3). Acidic solvents were modeled by H+ (CH3COOH)3 and H3O+ (H2O)6, and reaction paths were determined precisely. For 1, a two-step process involving a sigma-type cationic complex was obtained. For 2, a three-step process with pi- and sigma-type complexes was found in H+ (CH3COOH)3 and a two-step process involving a sigma-type cationic complex was obtained in H3O+ (H2O)6. However, for 3, a concerted process without pi and sigma complexes was calculated, which leads to the product, epsilon-caprolactam. Three different mechanisms were explained in terms of FMO theory.