Translocation of a protein-like chain through an interacting channel

The effect of channel-protein interaction on the translocation of a protein-like chain through a finite channel under certain electric field was studied by using dynamical Monte Carlo simulations.The interior behavior of chain conformation under different interactions was investigated,such as the number of monomers outside of channel n_out,monomers inside of channel n_m,mean-square radius of gyration〈S²〉and the average energy〈U〉.It shows that with strong attractive interaction,the translocation is more difficult than moderate interaction.At the same time,the dependence of translocation time with different interactions shows that moderate repulsive interaction(ε_cp= 0.5) accelerates the translocation.Although the waiting time for successful translocation ofε_cp = 1.0 is the longest,the average translocation time is not very large.It is far smaller than that ofε_cp=-1.0.The probability distributions of translocation time p（t’） and the probability distributions of three duration times p（t₁’）,p（t₂’） and p（t₃’） were all discussed.Log-normal distributions are found.All these findings will strengthen the understanding of protein translocation.     

Low-temperature thermodynamic properties of <Emphasis Type="Italic">L</Emphasis>-cysteine

Heat capacity C _p(T) of the orthorhombic polymorph of L-cysteine was measured in the temperature range 6–300 K by adiabatic calorimetry; thermodynamic functions were calculated based on these measurements. At 298.15 K the values of heat capacity, C _p; entropy, S _m⁰(T)-S _m⁰(0); difference in the enthalpy, H _m⁰(T)-H _m⁰(0), are equal, respectively, to 144.6±0.3 J K⁻¹ mol⁻¹, 169.0±0.4 J K⁻¹ mol⁻¹ and 24960±50 J mol⁻¹. An anomaly of heat capacity near 70 K was registered as a small, 3–5% height, diffuse ‘jump’ accompanied by the substantial increase in the thermal relaxation time. The shape of the anomaly is sensitive to thermal pre-history of the sample.     

Kinetics and equilibria in the system Br + t-BuO2H ⇆ HBr + t-BuO2. OH bond dissociation energy in t-BuO2-H

The kinetics and equilibria in the system Br + t-BuO₂H ? HBr + t-BuO₂· have been measured in the range of 300–350 K using the very low pressure reactor (VLPR) technique. Using an estimated entropy change in reaction (1) ΔS₁ = 3.0 ± 0.4 cal/mol·K together with the measured ΔG₁, we find ΔH₁ = 1.9 ± 0.2 kcal/mol and DHº (t-BuO₂-H) = 89.4 ± 0.2 kcal/mol ΔH_f·(tBuO₂·) = 20.7 kcal/mol and DH^º (t-Bu-O₂) = 29.1 kcal/mol. The latter values make use of recent values of ΔH_f·(t-Bu) = 8.4 ± 0.5 kcal/mol and the known thermochemistry of the other species. The activation energy E₁ is found to be 3.3 ± 0.6 kcal/mol, about 1 kcal lower than the value found for Br attack on H₂O₂. It suggests a bond 1 kcal stronger in H₂O₂ than in tBuO₂H.     

Experimental determination of the rate constants of the reactions of HO2 + DO2 and DO2 + DO2

The rate constants of the reactions of DO₂ + HO₂ (R1) and DO₂ + DO₂ (R2) have been determined by the simultaneous, selective, and quantitative measurement of HO₂ and DO₂ by continuous wave cavity ring-down spectroscopy (cw-CRDS) in the near infrared, coupled to a radical generation by laser photolysis. HO₂ was generated by photolyzing Cl₂ in the presence of CH₃OH and O₂. Low concentrations of DO₂ were generated simultaneously by adding low concentrations of D₂O to the reaction mixture, leading through isotopic exchange on tubing and reactor walls to formation of low concentrations of CH₃OD and thus formation of DO₂. Excess DO₂ was generated by photolyzing Cl₂ in the presence of CD₃OD and O₂, small concentrations of HO₂ were always generated simultaneously by isotopic exchange between CD₃OD and residual H₂O. The rate constant k₁ at 295 K was found to be pressure independent in the range 25–200 Torr helium, but increased with increasing D₂O concentration k₁ = (1.67 ± 0.03) × 10⁻¹² × (1 + (8.2 ± 1.6) × 10⁻¹⁸ cm³ × [D₂O] cm⁻³) cm³ s⁻¹. The rate constant for the DO₂ self-reaction k₂ has been measured under excess DO₂ concentration, and the DO₂ concentration has been determined by fitting the HO₂ decays, now governed by their reaction with DO₂, to the rate constant k₁. A rate constant with insignificant pressure dependence was found: k₂ = (4.1 ± 0.6) × 10⁻¹³ (1 + (2 ± 2) × 10⁻²⁰ cm³ × [He] cm⁻³) cm³ s⁻¹ as well as an increase of k₂ with increasing D₂O concentration was observed: k₂ = (4.14 ± 0.02) × 10⁻¹³ × (1 + (6.5 ± 1.3) × 10⁻¹⁸ cm³ × [D₂O] cm⁻³) cm³ s⁻¹. The result for k₂ is in excellent agreement with literature values, whereas this is the first determination of k₁.     

A complete characterization for <Emphasis Type="Italic">k</Emphasis>-resonant Klein-bottle polyhexes

A hexagonal tessellation K(p, q, t) on Klein bottle, a non-orientable surface with cross-cap number 2, is a finite-sized elemental benzenoid which can be produced from a p × q-parallelogram of hexagonal lattice with usual identifications of sides and with torsion t. Unlike torus, Klein bottle polyhex K(p, q, t) is not transitive except for some degenerated cases. We shall show, however, that K(p, q, t) does not depend on t. Accordingly, criteria for K(p, q, t) to be k-resonant for every positive integer k will be given. Moreover, we shall show that K(3, q, t) of 3-resonance are fully-benzenoid.      

Effect of pyridine on the kinetics of polymerization of methyl methacrylate initiated by benzoyl peroxide and azobisisobutyronitrile at 60°C

Solution polymerization of MMA, with pyridine as the solvent and BZ₂O₂ and AIBN as thermal initiators, was studied kinetically at 60°C. The monomer exponent varied from 0.45 to 0.91 as [BZ₂O₂] was increased from 1 × 10^?2 to 30 × 10^?2 mole/liter in a concentration range of 8.3-4.6 mole/liter for MMA. For AIBN-initiated polymerization the monomer exponent remained constant at 0.69 as [AIBN] varied from 0.4 × 10^?2 to 1.0 × 10^?2 mole/liter in the same concentration range for MMA. The k²_p/k_t Value increased in both cases with an increase in pyridine concentration in the system. This was explained in terms of an increase in the k_p value, which was due presumably to the increased reactivity of the chain radicals by donor-acceptor interaction between the molecules of solvent pyridine and propagating PMMA radicals and in terms of lowering the k_t value for the diffusion-controlled termination reaction due to an increase in the medium viscosity and pyridine content.     

Polarized Raman scattering of concentrated solutions of poly(dimethyl siloxane) in benzene

Raman depolarization (ρ) measurements have been made over the temperature range 20 > T > 60°C for solutions of poly(dimethyl siloxane) (mol wt 7.7 × 10⁴ and 2.0 × 10⁴) for several concentrations up to 100%. The band studied was the highly polarized methyl stretch at 2907 cm^?1. Computer calculations of the probability p_t of a rotational isomer being trans allow the ρ values to be related to ΔG, the free energy of mixing. ΔG is plotted as a function of concentration and minima are observed at 60 ± 3% (mol wt = 7.7 × 10⁴) and 70 ± 3% (mol wt = 2 × 10⁴).     

Studies on polymerization of vinyl acetate using ylide as an initiator and degradative transfer agent

Polymerization of vinyl acetate initiated by β-picolinium p-chlorophenacylide was carried out at 30, 35, and 40°C, using conventional dilatometric technique. The initiator and the monomer exponent values were 0.80 ± 0.15 and unity, respectively. The polymerization was inhibited in the presence of hydroquinone, but was favored by nonpolar solvent and polymerization temperature. The energy of activation was 90.3 KJ mol^?1. An average value of k/k_t for the present system was found to be 0.37 × 10^?2. The results are explained in terms of a radical mode of polymerization with degradative initiator transfer; the principal mode of termination, however, was bimolecular.     

Studying Cu2–xSe phase transformation through DSC examination

The thermal effect accompanying the transition of Cu_2–xSe into a superionic conduction state was studied by non-isothermal measurements, at different heating and cooling rates (β=1, 2.5, 5, 10 and 20°C min^–1). During heating the peak temperature (T_p) remains almost stable for all values of β, (136.8±0.4°C for Cu₂Se and 133.0±0.3°C for Cu_1.99Se). A gradual shift of the initiation of the transformation towards lower temperatures is observed, as the heating rate increases. During cooling there is a significant shift in the position of the peak maximum (T_p) towards lower temperatures with the increase of the cooling rate. A small hysteresis is observed, which increases with the increase of the cooling rate, β. The mean value of transformation enthalpy was found to be 30.3±0.8 J g^–1 for Cu₂Se and 28.9±0.9 J g^–1 for Cu_1.99Se. The transformation can be described kinetically by the model f(ǯ)=(1–ǯ)^n(1+kcatX), with activation energy E=175 kJ mol^–1, exponent value n equal to 0.2, logA=20 and log(k_cat)= 0.5.     

Kinetics of reaction between acetic acid and Ag2+ in nitric acid medium

The reaction kinetics between acetic acid and Ag²⁺ in nitric acid medium is studied by spectrophotometry. The effects of concentrations of acetic acid (HAc), H⁺, NO^?₃, and temperature on the reaction are investigated. The rate equation has been determined to be –dc(Ag²⁺)/dt = kc(Ag²⁺)c(HAc)c^?1(H⁺), where k = (610 ± 15) (mol/L)^?1 min^?1 with an activation energy of about (48. 8 ± 3.5) kJ mol^?1 when the reaction temperature is 25°C and the ionic strength is 4.0 mol L^?1. The reduction rate of Ag²⁺ increases with the increase in HAc concentration and/or temperature and the decrease in HNO₃ concentration. However, the effect of NO^?₃ concentrations within 0.5–2.5 mol L^?1 on the reaction rate is negligible. © 2012 Wiley Periodicals, Inc. Int J Chem Kinet 45: 47–51, 2013     

Simultaneous Determination of Quinoline and Pyridine Compounds in Gasoline and Diesel by Differential Pulse Voltammetry

The presence of trace basic organonitrogen compounds such as quinoline and pyridine in derivative petroleum fuels plays an important role in maintaining the engines of vehicles. However, these substances can contaminate the environment and so must be controlled because most of them are potentially carcinogenic and mutagenic. For these reasons, a reliable and sensitive method was developed for the determination of basic nitrogen compounds in fuel samples such as gasoline and diesel. This method utilizes preconcentration on an ion–exchange resin (Amberlyte IR–120 H) followed by differential pulse voltammetry (DPV) on a glassy carbon electrode. The electrochemical behavior of quinoline and pyridine as studied by cyclic voltammetry (CV) suggests that their reduction occurs via a reversible electron transfer followed by an irreversible chemical reaction. Very well resolved diffusion‐controlled voltammetric peaks were obtained in dimethylformamide (DMF) with tetrabutylammonium tetrafluoroborate (TBAF₄ 0.1 mol L^?1) for quinoline (?1.95 V) and pyridine (?2.52 V) vs. Ag|AgCl|KCl_sat reference electrode. The proposed DPV method displayed a good linear response from 0.10 to 300 mg L^?1 and a limit of detection (LOD) of 5.05 and 0.25 μg L^?1 for quinoline and pyridine, respectively. Using the method of standard additions, the simultaneous determination of quinoline and pyridine in gasoline samples yielded 25.0±0.3 and 33.0±0.7 mg L^?1 and in diesel samples yielded 80.3±0.2 and 131±0.4 mg L^?1, respectively. Spike recoveries were 94.4±0.3% and 101±0.5% for quinoline and pyridine, respectively, in the fuel determinations. This proposed method was also compared with UV‐vis spectrophotometric measurements. Results obtained for the two methods agreed well based on F and t student's tests.     

Computer modelling of the director configuration in a supertwist nematic liquid crystal cell

Abstract

The director distribution in a supertwist nematic cell, containing La-Roche liquid crystal mixture 3010, has been studied extensively using Berreman's computer simulation approach. It is seen that the director distribution in the cell depends critically on the total twist angle θ_t, the surface tilt angle θ_o and the ratio of the cell thickness to the pitch d/p. The values of θ_o and φ_t have been optimized to yield a small bistability (ΔV = 0.06 V) and a relatively large change in the midplane tilt angle (Δθ_m = 51°) in an unstrained cell with ?_t = (d/p) × 360°. The optimum values of θ_o and Ø_t were found to be 15° and 240°, respectively. The effect of varying d/p on the director distribution has also been studied in great detail in supertwist cells with θ_o = 30° and Ø_t = 270°. Some interesting features in understrained and overstrained cells have been observed.     

Lanthanide(II) Complexes of the Dihydrotriazinido Ligand [N{C(Ph)=N}2C(tBu)Ph]−

The potassium dihydrotriazinide K(L^Ph,tBu) ( 1 ) was obtained by a metal exchange route from [Li(L^Ph,tBu)(THF)₃] and KOtBu (L^Ph,tBu = [N{C(Ph)=N}₂C(tBu)Ph]). Reaction of 1 with 1 or 0.5 equivalents of SmI₂(thf)₂ yielded the monosubstituted Sm^II complex [Sm(L^Ph,tBu)I(THF)₄] ( 2 ) or the disubstituted [Sm(L^Ph,tBu)₂(THF)₂] ( 3 ), respectively. Attempted synthesis of a heteroleptic Sm^II amido‐alkyl complex by the reaction of 2 with KCH₂Ph produced compound 3 due to ligand redistribution. The Yb^II bis(dihydrotriazinide) [Yb(L^Ph,tBu)₂(THF)₂] ( 4 ) was isolated from the 1:1 reaction of YbI₂(THF)₂ and 1 . Molecular structures of the crystalline compounds 2 , 3· 2C₆H₆ and 4· PhMe were determined by X‐ray crystallography.     

Spectroscopic study of protonation of oligonucleotides containing adenine and cytosine

Acidobasic properties of purine and pyrimidine bases (adenine, cytosine) and relevant nucleosides (adenosine, cytidine) were studied by means of glass-electrode potentiometry and the respective dissociation constants were determined under given experimental conditions (I = 0.1 M (NaCl), t = (25.0 ± 0.1) °C): adenine (pK _HL = 9.65 ± 0.04, pK _H2L = 4.18 ± 0.04), adenosine (pK _H2L = 3.59 ± 0.05), cytosine (pK _H2L = 4.56 ± 0.01), cytidine (pK _H2L = 4.16 ± 0.02). In addition, thermodynamic parameters for bases: adenine (ΔH ⁰ = (−17 ± 4) kJ mol⁻¹, ΔS ⁰ = (23 ± 13) J K⁻¹ mol⁻¹), cytosine (ΔH ⁰ = (−22 ± 1) kJ mol⁻¹, ΔS ⁰ = (13 ± 5) J K⁻¹ mol⁻¹) were calculated. Acidobasic behavior of oligonucleotides (5′CAC-CAC-CAC3′ = (CAC)₃, 5′AAA-CCC-CCC3′ = A₃C₆, 5′CCC-AAA-CCC3′ = C₃A₃C₃) was studied under the same experimental conditions by molecular absorption spectroscopy. pH-dependent spectral datasets were analyzed by means of advanced chemometric techniques (EFA, MCR-ALS) and the presence of hemiprotonated species concerning (C⁺-C) a non-canonical pair (i-motif) in titled oligonucleotides was proposed in order to explain experimental data obtained according to literature.     

Studies on polymerization of vinyl acetate using ylide as an initiator and degradative transfer agent

The polymerization of vinyl acetate initiated by β-picolinium-p-chlorophenacylide was carried out at 30, 35, and 40°C, using the conventional dilatometric technique. The initiator and the monomer exponent values were 0.80 ± 0.15 and unity, respectively. The polymerization was inhibited in the presence of hydroquinone, but was favored by nonpolar solvent and polymerization temperature. The energy of activation was 90.3 kJ mol^?1. An average value of k/k_t for the present system was found to be 0.37 × 10^?2 L mol^?1 s^?1. The results are explained in terms of radical mode of polymerization with degradative initiator transfer; the principal mode of termination, however, was biomolecular.     

Interatomic potential for the X1Σ state of Be2, revisited

An extended geminal model has been applied to determine the interatomic potential for the X¹Σ state of Be₂. By adopting a (23s, 10p, 8d, 6f, 3g, 2h) uncontracted Gaussian‐type basis, the following spectroscopic parameters are obtained: R_e = 4.633 a.u. (4.63 a.u.), D_e = 945 ± 15 cm (790 ± 30 cm), G(1)–G(0) = 221.7 cm^?1 (223.8 ± 2 cm^?1), G(2)–G(1) = 175.0 cm^?1 (169 ± 3 cm^?1), G(3)–G(2) = 123.1 cm^?1 (122 ± 3 cm^?1), and G(4)–G(3) = 80.8 cm^?1 (79 ± 3 cm^?1), experimental values in parentheses. The calculated binding energy is substantially higher than the accepted experimental value. © 2004 Wiley Periodicals, Inc. Int J Quantum Chem, 2005     

Photopolymerization of methyl methacrylate by use of a quinoline–bromine charge-transfer complex as the photoinitiator

Polymerization of MMA was carried out in presence of visible light (440 nm), quinoline-bromine charge-transfer complex being used as the photoinitiator. The initiator exponent was observed to be 0.5 up to 0.014 M initiator concentration; when chloroform was used as the solvent, the monomer exponent was found to be unity. The polymerization was inhibited in presence of hydroquinone but little inhibitory effect was observed in the presence of air. An average value of k²_p/k_t for this photopolymerization system was found to be (1.08 ± 0.22) × 10^-2. Kinetic and other evidence indicates that the overall polymerization takes place by a radical mechanism.     

Photophysical properties of the extract of endometallofullerenes La@C2n inortho-dichlorobenzene. Picosecond laser photolysis

The kinetics of relaxation of optical anisotropy induced by polarized light in endometallofullerenes La@C_2n inortho-dichlorobenzene was studied by picosecond laser photolysis. Decay of the optical absorption signal due to the excited states of La@C_2n follows the biexponential law with two values of relaxation time:t ₁=35±3 ps andt ₂=1100±200 ps. The lifetimet or decay of the optical anisotropy is 19±5 ps and determined by the orientational diffusion of La@C_2n . The experimentally determined lifetime of optical anisotropy agrees satisfactorily with the value yielded by the theoretical model of orientational diffusion under slip boundary conditions at the interface of the La@C_2n molecule with the solvent. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya No. 10, pp. 1921–1923, October, 1999.     

Self-association of thiols. The baggy fit problem in weak complexes

The PMR technique has been used to obtain thermodynamic data for hydrogen bonding of alkanethiols (RSH) in 1:1 dimers in carbon tetrachloride. At ca. 303°K these are (R, 10⁴K(M^?1), ?ΔH°(kcal/mole), ?ΔS°(eu)): n-C₃H₇, 51 ± 5, 0.9 ± 0.15, 13 ± 1; i-C₃H₇, 50 ± 10, 0.8 ± 0.3, 13 ± 1; n-C₄H₉, 35 ± 2, 0.8 ± 0.15, 14 ± 1; t-C₄H₉, 14 ± 4, 1.1 ± 0.7, 16 ± 2; C₆H₁₁, 1.3 ± 2, 0.7 ± 0.3, 15 ± 1. Alkanethiol self-association is weak, and although an exact expression [Eqn. (5)] reproduces spectral data precisely, the fit is sufficiently ‘loose’ or ‘baggy’ so that values of K, ΔH° and ΔS° are uncertain. The methodology of the treatment of self-association data and their errors is examined and Deranleau's useful approach is extended. The impossibility of obtaining reliable data for very weak (< 10 %) or very strong (> 90 %) associations by techniques equivalent to ours is emphasized. The possibility of cyclic thiol dimers is discussed. It is suggested that the PMR method cannot give trustworthy self-association data for aryl or arylalkylthiols because of the relatively large anisotropy effects introduced into the dilution shift.