Complete graph conjecture for inner-core electrons: homogeneous index case

The complete graph conjecture that encodes the inner-core electrons of atoms with principal quantum number n >or= 2 with complete graphs, and especially with odd complete graphs, is discussed. This conjecture is used to derive new values for the molecular connectivity and pseudoconnectivity basis indices of hydrogen-suppressed chemical pseudographs. For atoms with n = 2 the new values derived with this conjecture are coincident with the old ones. The modeling ability of the new homogeneous basis indices, and of the higher-order terms, is tested and compared with previous modeling studies, which are centered on basis indices that are either based on quantum concepts or partially based on this new conjecture for the inner-core electrons. Two similar algorithms have been proposed with this conjecture, and they parallel the two "quantum" algorithms put forward by molecular connectivity for atoms with n > 2. Nine properties of five classes of compounds have been tested: the molecular polarizabilities of a class of organic compounds, the dipole moment, molar refraction, boiling points, ionization energies, and parachor of a series of halomethanes, the lattice enthalpy of metal halides, the rates of hydrogen abstraction of chlorofluorocarbons, and the pED(50) of phenylalkylamines. The two tested algorithms based on the odd complete graph conjecture give rise to a highly interesting model of the nine properties, and three of them can even be modeled by the same set of basis indices. Interesting is the role of some basis indices all along the model.     

Influence of molecular weight on the thermal decomposition of hydroxyl terminated polybutadiene

Thermogravimetric analysis of hydroxyl terminated polybutadiene (HTPB) and its fractions of different molecular weights separated by preparative GPC shows two major stages of weight loss of different nature in a nitrogen atmosphere. The first stage is primarily depolymerisation, cyclisation and crosslinking of molecules and the second stage is mainly the decomposition of the residue from the first stage. The kinetic parameters, viz. activation energy E and pre-exponential factor A using four different non-isothermal integral equations show a systematic increase with increase in molecular weight for the first stage, whereas for the second stage, the effect of molecular weight on E and A values is not prominent. The increase in E and A values for the first stage is attributed to the formation of greater number of cyclised and crosslinked products from molecules of higher dimensions. Quantitative correlations between the kinetic constants and the molecular weight parameters were derived for the first stage as a quadratic curve following the equation: E or ln A = K₁ − K₂/M (where K₁ and K₂ are empirical constants whose values are different for the different molecular weight averages, viz. M_n, M_w and M_z and for the different equations).     

Efficient Separation of Hydrophobic Molecules by Molecularly Imprinted Cyclodextrin Polymers

Cyclodextrins were cross-linked with toluene 2,4-diisocyanate in dimethyl sufoxide in the presence of hydrophobic biomolecules as templates, and the imprinted polymers were applied to the stationary phases of high performance liquid chromatography. Molecular imprinting efficiently promoted the binding-affinity and substrate-selectivity towards the template molecule, compared with the control polymers prepared in their absence. When cholesterol (template molecule) was complexed with cyclodextrins prior to the polymerization, for example, the imprinted polymer retained cholesterol more strongly than other steroids. Upon the polymerization without a template molecule, the binding towards steroids was much weaker. Besides steroids, imprinting was effective for various hydrophobic and rigid template molecules. Since binding of the guest molecule was based on inclusion complex formation with cyclodextrins, separation could be achieved in the solvents containing water. These polymeric receptors are also applicable to selective recognition of biologically important molecules or removal of toxic molecules from aqueous media. Thus, imprinting of cyclodextrins is useful for the preparation of synthetic tailor-made receptors for various kinds of hydrophobic guest molecules.     

Temperature dependence of the resolution of diastereomeric isoprenoids in capillary GC. Experiments with 50 μm, 100 μm,and 250 μm i.d. Columns

The resolution of the diastereoisomers of norpristane, pristane, and phytane was studied as a function of the column internal diameter and/or the residence time of the compounds in the column. Increasing the residence time in the column by operating the column at a lower temperature program rate enhances the resolution more than reducing the internal diameter of the column. Practical experience with ultra narrow bore columns is also presented.     

Molecular and crystal structure of nido-9-C5H5N-11-I-7, 8-C2B9H10: Supramolecular architecture based on hydrogen bonds X-H⋯I (X = B, C)

A single crystal X-ray diffraction study of a new iodine-containing cluster compound 9-(pyridine)-11-iodo-decahydro-7,8-dicarba-nido-undecaborane [9-C₅H₅N-11-I-7,8-C₂B₉H₁₀] has been performed. Crystal data: C₇H₁₅B₉NI, M = 337.39, monoclinic, space group P2₁/c, unit cell parameters: a = 9.348(1) Å, b = 11.159(1) Å, c = 13.442(2) Å, β = 98.13(1)°, V = 1388.1(5) ų, Z = 4, d _calc = 1.614 g/cm³, T = 295 K, F(000) = 648, μ = 2.276 mm^?1. The structure was solved by a direct method and refined in the full-matrix anisotropic approximation (isotropic for hydrogen atoms) to final agreement factors R ₁ = 0.0254, wR ₂ = 0.0454 for 2437 I _hkl ≥ 2σ_I from 3590 measured I _hkl (an Enraf-Nonius CAD-4 diffractometer, λMoK _α , graphite monochromator, θ/2θ-scanning). The molecules are joined into a supramolecular assembly by hydrogen bonds X-H?I (X = B, C).     

NMR chemical shifts in the low–pH form of a-chymotrypsin. A QM/MM and ONIOM–NMR study

 The relationship between hydrogen bonding and NMR chemical shifts in the catalytic triad of low-pH α-chymotrypsin is investigated by combined use of the effective fragment potential [(2001) J Phys Chem A 105:293] and ONIOM–NMR [(2000) Chem Phys Lett 317:589] methods. Our study shows that while the His57 N^δ1−H bond is stretched by a relatively modest amount (to about 1.060 ?) this lengthening, combined with the polarization due to the molecular environment, is sufficient to explain the experimentally observed chemical shifts of 18.2 ppm. Furthermore, the unusual down-field shift of H^ɛ1 (9.2 ppm) observed experimentally is reproduced and shown to be induced by interactions with the C=O group of Ser214 as previously postulated. The free-energy cost of moving H^δ1 from His57 to Asp102 is predicted to be 5.5 kcal/mol. Received: 26 September 2001 / Accepted: 6 September 2002 / Published online: 21 January 2003 Contribution to the Proceedings of the Symposium on Combined QM/MM Methods at the 222nd National Meeting of the American Chemical Society, 2001 Correspondence to: J. H. Jensen e-mail: jan-jensen@uiowa.edu Acknowledgements. This work was supported by a Research Innovation Award from the Research Corporation and a type G starter grant from the Petroleum Research Fund. The calculations were performed on IBM RS/6000 workstations obtained through a CRIF grant from the NSF (CHE-9974502) and on supercomputers at the National Center for Supercomputer Applications at Urbana-Champaign. The authors are indebted to Visvaldas Kairys for help with the CHARMM program, and to Daniel Quinn for many helpful discussions.     

金复合介孔SBA-15吸附血红蛋白在H2O2电催化反应中的应用

以P123嵌段共聚物表面活性剂为模板剂制备介孔氧化硅SBA-15,并用沉积-沉淀(DP)法在SBA-15介孔表面负载纳米Au颗粒制备得到金复合介孔SBA-15材料(Au-SBA-15).再以Au-SBA-15材料制备玻碳修饰电极,将血红蛋白固定于修饰电极上用循环伏安法考察其对不同浓度H2O2溶液的电催化反应.在固定了血红蛋白的Hb/Au-SBA-15/GC修饰电极上,H2O2在+0.95 V处出现了氧化峰,且随着H2O2浓度的增大峰电流不断增加,说明金复合介孔氧化硅材料具有良好的生物兼容性,有利于血红蛋白的固定,其修饰电极对H2O2溶液具有一定的电催化作用.     

GROMACS: fast, flexible, and free

This article describes the software suite GROMACS (Groningen MAchine for Chemical Simulation) that was developed at the University of Groningen, The Netherlands, in the early 1990s. The software, written in ANSI C, originates from a parallel hardware project, and is well suited for parallelization on processor clusters. By careful optimization of neighbor searching and of inner loop performance, GROMACS is a very fast program for molecular dynamics simulation. It does not have a force field of its own, but is compatible with GROMOS, OPLS, AMBER, and ENCAD force fields. In addition, it can handle polarizable shell models and flexible constraints. The program is versatile, as force routines can be added by the user, tabulated functions can be specified, and analyses can be easily customized. Nonequilibrium dynamics and free energy determinations are incorporated. Interfaces with popular quantum-chemical packages (MOPAC, GAMES-UK, GAUSSIAN) are provided to perform mixed MM/QM simulations. The package includes about 100 utility and analysis programs. GROMACS is in the public domain and distributed (with source code and documentation) under the GNU General Public License. It is maintained by a group of developers from the Universities of Groningen, Uppsala, and Stockholm, and the Max Planck Institute for Polymer Research in Mainz. Its Web site is http://www.gromacs.org.     

Synthesis of N-Pyridylmethylidene-2-aminopyridines and their Methyl-substituted Derivatives in the Presence of Molecular Sieves

We have studied condensation of 2-, 3-, 4-pyridinealdehydes and 6-methylpyridine-2-aldehyde with 2-aminopyridine and its 3-, 4-, and 6-methyl derivatives in benzene in the presence of molecular sieves. The reactions occur even at room temperature to form the corresponding pyridyl-pyridyl azomethines, and also aminals. We have determined the optimal conditions for carrying out the processes with the aim of obtaining both types of products. We consider the characteristics of the mass spectra for the synthesized aldimines. We present the X-ray diffraction results for the two aminals.     

Reactions of fluorinated acid anhydrides, (CF3CO)2O, (CF3SO2)2O and (FSO2)2O, with organometallic substrates of group 15 (As, Sb and Bi)

(C₆H₅)₃MX₂ (M = As, Sb; X = OCOCF₃ and M = Sb, Bi; X = SO₃F, SO₃CF₃) compounds prepared by the interaction of triphenylmetal(V) substrates with (CF₃CO)₂O, (CF₃SO₂)₂O and (FSO₂)₂O have been characterized by molecular weight determination, elemental and spectroscopic (IR, ¹H and ¹⁹F NMR, mass) analyses.