Chemical applications of group theory and topology

The following procedure is described for investigating the qualitative dynamics of simple chemical systems: 1) A so-called influence diagram is generated representing the relationships between the reference reactants (phase-determining intermediates); 2) This influence diagram is used to generate a truth table indicating possible transitions between state vectors representing the signs of the time derivatives of of the reference reactant concentrations; 3) The truth table is used to determine a state transition diagram representing the flow topology around unstable equilibrium points; 4) The characteristic equation of the adjacency matrix of the influence diagram is solved in order to determine the presence of such unstable equilibrium points. The two types of qualitative dynamics possible for chemical systems containing two reference reactants and one feedback circuit are bifurcation between two attracting regions (bistability) and limit cycle oscillation. However, in two reference reactant systems oscillation requires an additional self-activating loop to generate the unstable equilibrium point required for its realization. Bistability and limit cycle oscillation are also two of the possible types of qualitative dynamics for chemical systems containing three reference reactants. However, chemical systems with three reference reactants and two or more feedback circuits can also contain interlocking limit cycles, which can lead to toroidal oscillations or chaos. The influence diagrams are given for the systems exhibiting these various types of dynamic behavior along with a summary of the important properties of all 729 possible influences for simple chemical systems containing three reference reactants.     

Semiclassical study of collision-induced predissociation: Comparison of the Landau-Zener model with the method of analytic continuation

Semiclassical calculations are carried out by two methods for the problem of collision-induced predissociation of electronically excited I₂. The first method is that of surface-hopping with the Landau-Zener model. The second method is similar to surface-hopping, except that analytic continuation of the adiabatic potential energy surfaces replaces the Landau-Zener model. Results of the calculations by the two methods compare favorably with each other and with experiment. The possible advantages of the second method are discussed.Camille and Henry Dreyfus Teacher-Scholar, Alfred P. Sloan Research Fellow.     

Nonpeptide inhibitors of cathepsin G: optimization of a novel beta-ketophosphonic acid lead by structure-based drug design

The serine protease cathepsin G (EC 3.4.21.20; Cat G), which is stored in the azurophilic granules of neutrophils (polymorphonuclear leukocytes) and released on degranulation, has been implicated in various pathological conditions associated with inflammation. By employing high-throughput screening, we identified beta-ketophosphonic acid 1 as a moderate inhibitor of Cat G (IC(50) = 4.1 microM). We were fortunate to obtain a cocrystal of 1 with Cat G and solve its structure by X-ray crystallography (3.5 A). Structural details from the X-ray analysis of 1.Cat G served as a platform for optimization of this lead compound by structure-based drug design. With the aid of molecular modeling, substituents were attached to the 3-position of the 2-naphthyl ring of 1, which occupies the S1 pocket of Cat G, to provide an extension into the hydrophobic S3 region. Thus, we arrived at analogue 7 with an 80-fold potency improvement over 1 (IC(50) = 53 nM). From these results, it is evident that the beta-ketophosphonic acid unit can form the basis for a novel class of serine protease inhibitors.     

Electrochromic and structural characteristics of mesoporous WO<Subscript>3</Subscript> films prepared by a sol-gel method

The preparation of electrochromic films of mesoporous tungsten trioxide from tungstic acid and tungstic hexaethoxide precursors with the addition of an organic stabiliser via a sol-gel method is reported. These films have been structurally characterised and both the film morphology and crystalline composition of the films were found to be significantly dependent on the temperature at which the films were annealed and upon the choice of precursor. Films annealed at lower temperatures consisted of amorphous and hexagonal tungsten trioxide, whereas films annealed above 500 °C comprised solely of monoclinic WO₃. The electrochromic activity of the films was found to be equally dependent on method of preparation, and both the composition and the structure of the WO₃ films were shown to clearly influence the colouration efficiency of the films.Dedicated to Zbigniew Galus on the occasion of his 70^th birthday.     

Cosorption of Zn(II) and 2-, 3-, or 4-aminopyridine by montmorillonite

Data from acid-base titrations at 25 degrees C of Zn(NO(3))(2) and 2-, 3-, or 4-aminopyridine in 10 mM KNO(3) as background electrolyte suggested that soluble complexes ZnL(2+) and Zn(OH)L(+) form, where L represents aminopyridine. Zinc-hydroxyaminopyridine complexes have not been reported previously. The cosorption of Zn(II) with each of the aminopyridines to K-saturated Wyoming (SWy-K) and Texas (STx-K), and Ca-enriched Texas (STx-Ca) montmorillonites was measured at 25 degrees C, with 10 mM KNO(3) or 3.3 mM Ca(NO(3))(2) as background electrolyte. Comparison with previous data for sorption of Zn(II) and the aminopyridines separately and surface complexation modeling of the cosorption data showed that under acid conditions competition between Zn(2+) and aminopyridinium ions for the permanent negatively charged sites of montmorillonite results in suppression of the uptake of each sorbate by the other, but only when a large excess of the competing sorbate is present. Under alkaline conditions the sorption of Zn(II) was not affected by the presence of even a large excess of aminopyridine, but the sorption of 4-aminopyridine in particular was slightly enhanced when a large excess of Zn(II) was present. The enhancement was attributed to the formation of metal-bridged ternary surface complexes at the variable-charge sites on the edges of the montmorillonite crystals.     

Raising the conductivity of crystalline polymer electrolytes by aliovalent doping

Polymer electrolytes, salts dissolved in solid polymers, hold the key to realizing all solid-state devices such as rechargeable lithium batteries, electrochromic displays, or SMART windows. For 25 years conductivity was believed to be confined to amorphous polymer electrolytes, all crystalline polymer electrolytes were thought to be insulators. However, recent results have demonstrated conductivity in crystalline polymer electrolytes, although the levels at room temperature are too low for application. Here we show, for the first time, that it is possible to raise significantly the level of ionic conductivity by aliovalent doping. The conductivity may be raised by 1.5 orders of magnitude if the SbF6- ion in the crystalline conductor poly(ethylene oxide)6:LiSbF6 is replaced by less than 5 mol % SiF6(2-), thus introducing additional, mobile, Li+ ions into the structure to maintain electroneutrality.     

Prediction of Complexation Properties of Crown Ethers Using Computational Neural Networks

A computational neural network method was used for the prediction of stability constants of simple crown ether complexes. The essence of the method lies in the ability of a computer neural network to recognize the structure-property relationships in these host-guest systems. Testing of the computational method has demonstrated that stability constants of alkali metal cation (Na+, K+, Cs+)-crown ether complexes in methanol at 25 °C can be predicted with an average error of ±0.3 log K units based on the chemical structure of the crown ethers alone. The computer model was then used for the preliminary analysis of trends in the stabilities of the above complexes.     

Unusual coupling of diynes and CO on an Ru3-cluster: Crystal structure of RU3{μ3-CPhCC(O)C(SiMe3)C(C≡CSiMe3)CCPH}(μ-dppm)(μ-CO)(CO)6

Among several products isolated in the reaction between Ru₃(μ₃-PhC₂C≡CPh)(μ-dppm)(CO)₈ and Me₃SiCэCCэCSiMe₃ was the Ru₃{μ₃-CPhCC(O)C(SiMe₃)C(C≡CSiMe₃)CCPh)(μ-ddpm)(CO)₇ complex formally obtained by coupling of the two diynes and a CO molecule on the Ru₃ framework. Other products were Ru₄(μ₄-PhC₂C≡CPh)(μ≡dppm)(CO)₁₀ and the already known complex Ru₃{μ₃-PhCCHCC(C₆H₄}(μ-dppm)(CO)₈. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 5, pp. 1012–1016, May, 1998.     

Conformationally gated electron transfer in iso-1-cytochrome c: engineering the rate of a conformational switch

An engineered form of iso-1-cytochrome c with lysine 73 mutated to histidine is shown to increase by nearly 500-fold the rate of a conformational gate that modulates the rate of electron transfer into this protein. This result demonstrates the potential of protein engineering to provide electron transfer gates with tailored properties. The pH dependence of the rate of the conformational electron transfer gate correlates well with the pH dependence of the conformational change from a His 73-ligated heme to a Met 80-ligated heme, determined independently by pH jump methods, allowing unambiguous assignment of the conformational electron transfer gating step. The rate of the electron transfer gate is also modulated by a cis to trans proline isomerization, indicating that both amino acid sequence and the nature of the heme ligand provide avenues for rational design of electron transfer gates which open at different rates.