Rate constants from the reaction path Hamiltonian. I. Reactive flux simulations for dynamically correct rates

As ab initio electronic structure calculations become more accurate, inherent sources of error in classical transition state theory such as barrier recrossing and tunneling may become major sources of error in calculating rate constants. This paper introduces a general method for diabatically constructing the transverse eigensystem of a reaction path Hamiltonian in systems with many degenerate transverse frequencies. The diabatically constructed reaction path Hamiltonian yields smoothly varying coupling constants that, in turn, facilitate reactive flux calculations. As an example we compute the dynamically corrected rate constant for the chair to boat interconversion of cyclohexane, a system with 48 degrees of freedom and a number of degenerate frequencies. The transmission coefficients obtained from the reactive flux simulations agree with previous results that have been calculated using an empirical potential. Furthermore, the calculated rate constants agree with experimental values. Comparison to variational transition state theory shows that, despite finding the true bottleneck along the reaction pathway, variational transition state theory only accounts for half of the rate constant reduction due to recrossing trajectories.     

Shear-flow-based chromatographic separations as an alternative to pressure-driven liquid chromatography

It is only by developing specially designed injection and detection systems that shear-driven chromatography can become a viable alternative to HPLC. In the present paper, a dedicated zero dead-volume injection procedure is presented with which sample volumes can be injected reproducibly in the required picoliter range. In addition, a transversal detection groove system is designed which should allow to perform on-line UV-VIS absorption measurements with path lengths in the millimeter range, with an acceptable theoretical plate loss (only 20% in a 5 cm long channel) and acting as a nearly perfect wave guide.     

STUDIES ON THE CAPACITY OF pR IN VITRO TO PHOTOCONVERT TO THE LONG-WVELENGTH Ffr-FORM. A SURVEY FO TEN PLANT SPECIES*

Studies on the capacity of Pr in uitro to photoconvert to the long wavelength in uioo-like Pfr form were performed with extracts from 10 species. Red irradiation, immediately after extraction of crude extracts from 9 species, photoconverted Pr to long-wavelength Pfr with an absorbance maximum around 735 nm. Red irradiation of soybean extracts, however, photoconverted Pr to short-wavelength Pfr, with an absorbance maximum at 725 nm. Red irradiation given later than 1.5-2 h after extraction, to extracts of oats, pea, cucumber, radish, sunflower and soybean, photoconverted Pr to a short-wavelength Pfr species with an absorbance maximum around 725 nm. In crude extracts of barley, corn, wheat and zucchini, red irradiation, even after a long dark-incubation period at 4°C of up to 48 h, photoconverted Pr to long-wavelength Pfr with an absorbance maximum around 735 nm. After incubation at 25°C for 3 h, however, Pr from barley also photoconverted to the short-wavelength form. It is suggested that in the group exemplified by oats, Pr rapidly undergoes an alteration following extraction, which results in the loss of the capacity of Pr to photoconvert to long-wavelength Pfr. In contrast, in extracts from the group exemplified by barley, Pr is much more stable and retains the capacity to photoconvert to long-wavelength Pfr for much longer periods.     

Acid-base equilibria in organic solvents : Part 2. Cyclic voltammetry in the study of hydrogen-bond formation

The cyclic voltammetric technique is used to study hydrogen-bond formation in some polar organic solvents (S) of electroanalytical interest (1,2-dimethoxy, tetrahydrofuran, dimethylformamide, dimethyl sulphoxide and pyridine). The cathodic shift of the proton reduction caused by stepwise addition of the solvent investigated to a solution of anhydrous perchloric acid in acetonitrile is utilized. The theoretical treatment applied produced evidence that HS⁺ and HS⁺₂ are the only acidic species involved, so that the relevant formation constants can be evaluated. The data obtained mostly compare well with those available in the literature. The features that condition the tendency to hydrogen-bonding and the effect of hydrogen bonding on solvent basicity are discussed.     

Microwave spectra of transient species — cyclopentadienone

The microwave spectrum of the main isotopic species of cyclopentadienone has been measured and assigned. The rotational constants imply an essentially planar geometry and that the ring is rather “fatter” than the analogous ring in fulvene.The dipole moment, derived from Stark-effect measurements, is 10.4 × 10^?30 C m (3.13 D). A vibrational satel- lite spectrum, which, from its inertial defect, corresponds to an out-of-plane vibration has also been assigned.The life time of cyclopentadienone under our spectroscopic conditions is approximately 15 sec.     

Simplex optimization procedure for evaluating equivalence points in sigmoidal and segmented titration curves

The use of the simplex procedure as a non-linear least-squares curve-fitting method is proposed for evaluation of equivalence points in sigmoidal and segmented titration curves. The application of this procedure to theoretical curves affected by different amounts of random noise indicates its effectiveness and accuracy for locating the correct end-point in titrations characterized by very low reaction constants. The relevant results are compared with those obtained by other regression methods as well as by the first-derivative and Gran approaches.     

Peptide backbone folding induced by the C(alpha)-tetrasubstituted cyclic alpha-amino acids 4-amino-1,2-dithiolane-4-carboxylic acid (Adt) and 1-aminocyclopentane-1-carboxylic acid (Ac5c). A joint computational and experimental study

The conformational study of a new group of synthetic peptides containing 4-amino-1,2-dithiolane-4-carboxylic acid (Adt), a cysteine-related achiral residue, has been carried out through a joint application of computational and experimental methodologies. Molecular Dynamics simulations clearly suggest the tendency of this molecule to adopt a gamma-turn conformation in vacuum and help in analyzing the complex and crucial conformational behaviour of the dithiolane ring which appears to preferentially adopt a C(S)-like structure. Electronic structure calculations carried out in solution using the Density Functional Theory also indicate the preservation of the gamma-like folding in apolar solvents and the helix-like one in more polar solvents. A comparison with the achiral 1-aminocycloalkane-1-carboxylic acid (Ac5c) has been carried out using the same computational tools. NMR and IR data on dipeptide derivatives containing the Adt or Ac5c residue show that in chloroform solution all the models prefer a gamma-turn structure, centered at the cyclic residue, stabilized by an intramolecular H-bond, whereas in a more polar solvent, i.e. dimethyl sulfoxide, this folding is not maintained. The experimental conformational studies, extended to N-Boc protected tripeptides, clearly indicate the remarkable tendency of both the five-membered C(alpha)-tetrasubstituted cyclic amino acids Adt and Ac5c to induce the gamma-turn structure also in models able to adopt the beta-bend conformation.