Polyiodine units in starch–iodine complex: INDO CI study of spectra and comparison with experiments

The starch–iodine blue complex formation does not involve negatively charged iodine species like I, I, or I; rather, neutral iodine units are involved. The heat of reaction is determined to be about ?110 kJ for every mole of I-I unit in the amylose helix, which suggests that the dissociation of I₂ (binding energy 149 kJ/mol) does not take place during the complex formation. Quantum mechanical (INDO CI) calculations indicate that the linear as well as nonlinear polyiodine units, I₆, with interiodine distance of 3.0 Å are responsible for characteristic absorbance bands of the starch–iodine complex. Based on our previous article [(1989) J. Polym. Sci. A 27 , 4161] and the present studies we identify (C₆H₁₀O₅)_16.5I₆ to be the polymeric unit responsible for the characteristic blue color of the complex.     

On the blue color of triiodide ions in starch and starch fractions. III. Resonance Raman spectra of bluing species in amylose

In order to clarify the characteristics of the basic units responsible for the blue coloring of iodine/iodide in amylose, we made a resonance Raman spectroscopic study at several KI concentrations using excitation by Ar⁺, He-Ne, and Kr⁺ lasers and amyloses with the degrees of polymerization (DP) of 30, 100, 300, and 1000. Similar Raman spectra were observed, regardless of the KI and I₂ concentrations, DP, and excitation wavelengths. Four Raman lines appearing at 159, 111, 55, and 27 cm^?1 were obviously fundamental tones, with a degree of depolarization ρ of ca. 1/3 for every spectrum. However, the internal ratios of the intensities of the 159, 55, and 27 cm^?1 lines to that of the 111-cm^?1 line decreased with increasing KI concentration. Based on the value of ρ, the assignment of the fundamental lines was made by taking a schematic model of the true motions as a projection in separately analyzing the modes of stretching and bending vibrations for a pseudolinear polyiodide chain, which we found to be perturbed by the external forces of the amylose lattice. In accordance with the variation of the force constants from the assignment of the spectra associated with the change in the composition of the bound species, it was concluded that the basic unit changed from I to I through I with decreasing KI concentration.     

Molecular configuration of amylose and its complexes in aqueous solutions. Part II. Relation between the DP of helical segments of the amylose–iodine complex and the equilibrium concentration of free iodine

The iodine which is added to an aqueous amylose solution is bound only partly by the amylose while forming the blue complex and partly remains free. The equilibrium normality of the free and the bound iodine at half-saturation of amylose by iodine is designated as [I_f]_v and [I_b]_w, respectively. The stability of the poly iodine chain formed within the axis of amylose helices depends on its length, i.e., indirectly on the DP of the amylose helices: the greater this stability, the lower the [I_f]_v value. The amylose molecule consists of helical segments. Such a molecule may behave as a random coil. The average length of the helical segments in freshly prepared amylose-iodine complexes depends on temperature, pH, iodide concentration, the presence of other complex-forming agents, and the DP of the amylose. This latter factor is investigated in the present paper. By the aid of an automatically recording photometrictitrating device the coherent values of [I_b] and [I_f] were determined. Plotting these values against DP _n for mechanochemically degraded as well as for periodateo-xidized amyloses resulted in curves consisting of two linear sections. The break of the curves occurred between DP _n 110 and 130. It was concluded that below DP _n = 100 the DP of helical segments (= sDP _n) is identical to the DP _n of the total molecule, i.e., the molecule consists of only a single, relatively stiff helix. Above this limit the molecule contains several helical segments. The DP of these helical segments can be calculated as follows: sDP _n = 141.1 ? 10.2 × 10⁵[I_f]_v. This equation is considered to be valid for 0.5–0.6 mg. amylose in 100 ml. 0.1N HCl at 20°C., λ = 650 mμ, euuvet diameter 3.4 cm., the feed rate of the iodate-iodide titrating solution (in acid medium resulting in a 5 × 10^?3N I₂ solution with a molar iodide to iodine ratio of 1.5) is 0.4ml./min. Amylose molecules of, e.g., DP ⁿ = 1380 consist of an average of 11.4 segments having a DP of about 120 and consisting of an average of 15–18 helical turns.     

On the blue color of triiodide ions in starch and starch fractions. I. Characterization and assignment of absorption and circular dichroism spectra of triiodide ions in amylose

Four fundamental Raman lines were observed at 159, 111, 55 and 27 cm^-1 corresponding to the I bound (I) in amyloses with DP from 20 to 100, regardless of the degree of polymerization of I and the excitation wavelength. The spectral resolution was based on the molar extinction coefficient and molar ellipticity spectra of I. Eight bands, named, S₁, S₂, ?, S₈ from long to short wavelength, were isolated. These were found regardless of the DP. By a resonance excitation Raman study, the characteristics of S₃ and S₄, comprising the shoulder around 480 nm, were found to be different from those of S₁ and S₂, comprising the blue band. The assignment of the spectra was based on the electronic states of the monomeric I in the exciton-coupled dimeric unit. It was concluded that the blue band (S₁,S₂) belonged to the long-axis transitions and the shoulder band (S₃,S₄) to the short-axis ones on the monmeric coordinate system.     

Molecular configuration of amylose and its complexes in aqueous solutions. Part IV. Determination of DP of amylose by measuring the concentration of free iodine in solution of amylose–iodine complex

In aqueous solutions of the amylase–iodine complex the concentration of free iodine [I_f]_v after reaching equilibrium (or closely approximating it) is determined by the following factors: temperature, pH, concentration of iodide ions and amylose, and DP of amylose. In the present paper the role of temperature, amylose concentration, and DP has been investigated. At half-saturation of amylose by iodine, the reciprocal value of free iodine defines the equilibrium constant: 1/[I_f]_v = K. The relation between [I_f]_v, in normality and temperature is the following: 5 + log [I_f]_v = ?(2.132/T) + 8.52, for DP _n = 1290, 0.4 mg. amylose in 100 ml. 0.1N HCl. The value of the energy of activation E_a between 2 and 52°C. is 9.72 kcal./mole. The influence of amylose concentration [Am] on photometrically determined [I_f]_v, at 20°C, in the range of 0.1–1.2 mg./100 ml. 0.1 N HCl for DP _n = 1290 is: 5 + log [I_f]_v = 0.209 ? 0.047 log [Am]. At [Am] = 0.6 mg. amylose/ 100 ml. 0.1 N HCl and 20°C, the value of [I_f]_v depends on DP _n as follows: 5 + log [I_f]_v = 0.085 = + 0.222 log (10⁴/DP _n). These above equations are summarized by the relation: [I_f]_v = exp {16.865 ? (E_a/RT)}[Am]^0.047(10⁴/DP _n)^0.222 ×10^?5 Considering that the determination of [I_f]_v by automatic photometric titration can be performed quickly and with appropriate reproducibility, this method is convenient for a rapid empirical and approximate determination of DP of amylose on a microscale. The iodine-binding capacity [IBC] as well as the value of λ_max, have been also investigated as functions of DP _n, by photometric and by amperometric titration.     

The interaction of carboxymethylamylose and diethylaminoethylamylose with iodine

Spectrophotometric titrations of slightly substituted carboxymethylamylose (CM-Amy) and diethylaminoethylamylose (DEAE-Amy) with iodine in the presence of iodide (I₂/I^?) were carried out as a function of iodide concentration, temperature, and polymeric charge. Binding isotherms for the polymer-I₂/I^? complex are reported in terms of an apparent binding constant (K_a) plotted versus degree of saturation of the complex (θ). The dependence of K_a upon polymeric charge is interpreted as evidence for the negatively charged character of the bound species. The cooperative nature of the binding process is evident in the positive slope of K_a vs (θ). Whereas the apparent binding constants and binding cooperativities for the derivatives are smaller than for the amylose-I₂/I^? complex, the binding enthalpies deduced from the temperature dependence of K_a at θ = 0.5 appear to be the same for amylose and CM-Amy. A viscometric titration of fully charged CM-Amy with I₂/I^?, conducted at dialysis equilibrium between the CM-Amy-I₂/I^? solution and the polymer-free solvent phase, disclosed a maximum in the plot of intrinsic viscosity ([η]) vs θ. The increase in [η] at small θ was interpreted as a reflection of polyelectrolyte expansion provoked by absorption of the negatively charged bound species; the subsequent decline in [η] is attributed to stabilization by I₂/I^? of compact helical sequences or to the formation at higher θ of intermolecular aggregates.     

Anion effects on equilibria and kinetics of the disorder–order transition of κ-carrageenan

The effect of a number of tetramethylammonium salts on the equilibria and kinetics of the disorder to order transition in the polysaccharide κ-carrageenan have been investigated. Data from the temperature dependence of optical rotation show that anion stabilization of the ordered form follows the lyotropic series I^? > Br^? > NO > Cl^? > F^?. Stopped-flow polarimetry was used to study the kinetics of conformational ordering following a rapid increase in salt concentration. The transition to the new equilibrium position was shown to be biphasic for all of the tetramethylammonium salts studied. The rate equation for the fast phase and the temperature dependence of the observed forward rate constant accord with a cooperative dimerization process. Activation parameters for helix nucleation, ΔH^* and ΔS^*, vary with both salt concentration and (at constant ionic strength) the anion type, increasing through the lyotropic series from I^? to F^?. The slow phase shows second-order kinetics, and is interpreted as further stabilization of the ordered form either through limited aggregation or annealing. The rate constant for the slow phase also follows the lyotropic series. Thus we have shown that both the growth and nucleation processes are anion dependent.     

Structural and conformational studies of polyriboadenylic acid in neutral and acid solution

Raman spectra of solutions of polyriboadenylic acid have been studied in the pH range of 7.2–5.2. Bands are identified which are sensitive to the characteristics of poly(rA) in the single-and double-stranded helical forms. Thermal melting profiles were obtained as a function of pH to monitor simultaneously the changes in (1) the phosphodiester backbone, (2) the base-stacking interactions, (3) the perturbation of the PO unit, and (4) the degree of protonation at the N-1 position in the adenine base. The temperature dependence of the intensity ratio of the bands at 725 and 705 cm^?1 appears to be sensitive to the noncooperative and the cooperative thermal-melting process for the single-and double-stranded forms of poly(rA), respectively. Concurrently, bands diagnostic of the degree of protonation reveal that the cooperative melting process for the “acid” poly(rA) clearly involves deprotonation. The progressive perturbation of the 1100 cm^?1 band with an increasing degree of protonation of poly(rA) is consistent with earlier suggestions regarding a PO-(6)-NH₂ interaction in the double-helical form of poly(rA). The stability of the double-helix parallels the degree of protonation over the pH range studied as reflected in the t_m values, which increase linearly with decreasing pH.     

Vibrational analysis of glutathione

Infrared and Raman spectra have been obtained of crystalline glutathione and its deuterated derivative and interpreted by normal mode analysis. The force field consisted of our empirical force fields for the peptide group and NH and CO end groups, plus our ab initio force fields for the CH₂SH and CH₂COOH moieties. Observed bands are reproduced with an average error of 5 cm^?1, demonstrating that the vibrational spectrum of such a complex molecule can be understood in great depth. © 1994 John Wiley & Sons, Inc.     

How Large is the Probability for the Estimate of a Variance Component to be Negative?

For a balanced one-way classification, where the normally distributed observations obey a random model y_ij=μ+b_i+c_ij with two variance components var (b_i) = δ and var (c_ij) = δ, the probability is given that the analysis of variance estimate of δ will be negative. This probability depends on δ/δ and the degrees of freedom in the ANOVA table. Tables for this probability are given. If the normally distributed observations obey an intra-class correlation model, the probability that the Mean Square between groups is smaller than the Mean Square within groups can also be evaluated from the given tables.     

Molecular configuration of amylose and its complexes in aqueous solutions. Part III. Investigation of the DP distribution of helical segments in amylose–iodine complexes

The equilibrium normality [I_f] of free iodine in amylose-iodine complex formation is a function of the length of the polyiodine chains. This length depends on the DP of helical segments of amylose (sDP _n). Values of [I_f] and of the concentration of the bound iodine [I_b] were determined by the continuous photometric titration with automatic recording. Plots of [I_b] versus [I_f] give an integral distribution curve. Since the relation between [I_f] and sDP _n is known, the graphic differentiation of the [I_b] versus [l_f] curve furnishes the differential distribution curve, representing the mass distribution of the helical segments according to their DP . The peak of this curve is characteristic of the percentage and DP of those helical segments, which occur in the largest amount. On the basis of the differential distribution curve the polymolecularity of the investigated sample may be judged. The titration of amylose samples degraded by various methods gives different distribution curves. Titrating mixtures of samples with widely differing average DP values results in differential curves having more than one maximum.     

Nmr studies on complex formation of poly(L-lysine HBr) with carbonate ion in aqueous solution

Diemer formation of poly(L -lysine HBr) in carbonate buffer at pD 10.5 was reported in our previous paper [Biopolymers(1981) 20 , 345–357]. The mechanism of the dimer formation was investigated employing carbon-13 and proton nmr. pD dependence of the ¹³C-nmr spectrum of poly(L -lysine HBr) in the presence of carbonate ion clearly shows that a complex formation between the CO ion and protonated ε-amino group is involved in the stabilization of the dimer form. The lifetime of the complex is longer than 10^?2 s. A stoichiometric evaluation suggests that CO bridges two lysyl side chains. A molecular model of the dimer form designated as a single antiparallel β-ribbon was proposed and discussed in the light of hydrodynamic and ir spectroscopic properties reported earlier. Concentration change experiments indicate that CO binds not only to the dimer formation is inferred as stabilization of the single antiparallel β-ribbon as an intermediate structure in the conversion between the α-helix and β-sheet. The α-CH proton signal of the lysine residue located in the ordered structure (α-helix and β-form) was observed to be separate from that in the random-coil region.     

Relation of amino acid composition and the Moffitt parameters to the secondary structure of proteins

A statistical analysis of the relation between the amino acid composition of proteins and the amount of helical secondary structure as characterized by the Moffitt b₀ parameter has shown a high degree of correlation of the b₀ parameter with those amino acids whose homopolymers can form helical structures. Using the data for 107 proteins, a linear relation was found between b₀ and the sum of the residue percentages of alanine, arginine, aspartic acid, cysteine, glutamic acid, leucine, andlysine. A statistical analysis of the Moffitt a₀ parameter, on the other hand, showed no statistically significant grouping of amino acids in relation to the amount of secondary β structure in a protein. A plot of b₀ versus a₀–a, where a represents the a⁰ parameter for a fully denatured protein, for 55 proteins showed distinct nonlinearity. This nonlinearity was postulated to be due to presence of β structure, and a nomagram was constructed which allowed a semiquantitative estimate of the amount of helical and β-type secondary structures from the b₀ versus a₀–a plot.     

Equi-replicated balanced block designs generated by a balanced matrix

In this paper it is shown that if N= \documentclass{article}\pagestyle{empty}\begin{document}$ \mathop \sum \limits_{i = 1}^{S_h} $\end{document} c_ihN_ih, where c_ih are some non-negative integer numbers and N_ih are such incidence matrices that A_h = \documentclass{article}\pagestyle{empty}\begin{document}$ \mathop \sum \limits_{i = 1}^{S_h} $\end{document} i N_ih is a balanced matrix defined by SHAH (1959), for h = 1, 2,…, p, then a block design with an incidence matrix Ñ = [N, N,…,N] is an equi-replicated balanced block design. Here the balance of a block design is defined in terms of the matrix M₀ introduced by CALI?SKI (1971).     

Number of binding sites of DNA and polynucleotides with tris(2,2'-dipyridyl)ruthenium(II) cations

The binding of tris(2,2′-bipyridyl)ruthenium(II) cations [Ru(bpy)] with single- and double-stranded (ss and ds) DNA, and the polynucleotides poly(A), poly(C), poly(G), poly(I), poly(I) · poly(C), and poly(U), was studied in aqueous solution. Steady-state electrical conductivity measurements with the polynucleotides, ssDNA, and dsDNA reveal that approximately three nucleotides offer one binding site. This may be compared with the ratio [nucleotide]/[Mg²⁺] of 2.4 : 1 for dsDNA. After laser excitation (353 nm), the luminescence of Ru(bpy) bound to nucleic acids shows two decay components. The contribution of the fast component, which is interpreted as resulting from quenching processes of the absorbed ruthenium complex, exhibits a maximum with increasing [nucleotide]/[Ru(bpy)] at a ratio of about three to one. Bound Ru(bpy) can be released from the strand by addition of NaClO₄ [half-concentration: 2.5 and ≤ 10 mM for poly(U) and dsDNA, respectively].     

Conformational analysis of acetyl-L-phenylalanine p-acetyl and p-valeryl anilides

Empirical force-field calculations and ir and ¹H-nmr spectra indicate that five-membered (C₅) and seven-membered (C) hydrogen-bonded rings are the preferred conformations of acetyl-L -Phe p-acetyl and p-valeryl anilides in nonpolar media. The C₅/C ratio was found to be dependent on the dryness of the solute and the solvent. This fact and the results from conformational-energy calculations suggest that a molecule of water participates in the stabilization of the C conformation.     

Scavenging of superoxide anion radical and hydroxyl radical by novel thiazolyl‐thiazolidine‐2,4‐dione compounds

The antioxidant behavior of a series of new synthesized substituted thiazolyl‐thiazolidine‐2,4‐dione compounds (TZDs) was examined using chemiluminescence and electron paramagnetic resonance spin trapping techniques. 5,5‐Dimethyl‐1‐pyrroline‐N‐oxide (DMPO) was used as the spin trap. The reactivity of TZDs with superoxide anion radical (O) and hydroxyl radical (HO^?) was evaluated using potassium superoxide/18‐crown‐6 ether dissolved in dimethylsulfoxide, and the Fenton‐like reaction (Fe²⁺ + H₂O₂), respectively. The results showed that TZDs efficiently inhibited light emission from the O generating system at a concentration of 0.05–1 mmol L^?1 (5–94% reductions were found at 1 mmol L^?1 concentration). The TZD compounds showed inhibition of HO^?‐dependent DMPO–OH spin adduct formation from DMPO (the amplitude decrease ranged from 8 to 82% at 1 mmol L^?1 concentration). The findings showed that examined TZDs had effective activities as radical scavengers. Copyright © 2009 John Wiley & Sons, Ltd.     

Conformation of poly(L-arginine). I. Effects of anions

The conformational transition of poly(L -agrignine) by binding with various mono-, di-, and polyvalent anions, especially with SO, was studied by CD measurements. The intramolecular random coil-to-α-helix conformational transition and the subsequent transition to the β-turn-like structure was caused by binding with SO. The binding data obtained from equilibrium dialysis experiments showed that the α-helical conformation of poly(L -arginine) is stabilized at a 1:3 stoichiometric ratio of bound SO to arginine residue; at higher free SO concentrations, the α-helix converts to the β-turn-like structure accompanied by a decrease in amount of bound SO. The same conformaitonal transition of poly(L -arginine) also occurred in the solutions of other divalent anions (SO, CO, and HPO) and polyvalent anions (P₂O, P₃O). Among the monovalent anions examined, CIO and dodecyl sulfate were effective in including α-helical conformation, while the other monovalent anions (OH^?, Cl^?, F^?, H₂PO, HCO and CIO) failed to induce poly(L -arginine) to assume the α-helical conformation. Thus, we noticed that, except for dodecyl sufate, the terahedral structure is common to the α-helix-forming anions. A well-defined model to the α-helical poly(L -arginine)/anion complex was proposed, in which both the binding stoichiometry of anions to the arginine residue and the tetrahedral structure of anions were taken into consideration. Based on these results, it was concluded that the tetrahedral-type anions stabilize the α-helical conformation of poly(L -arginine) by crosslinking between two guanidinium groups of nearby side chains on the same α-helix through the ringed structures stabilized by hydrogen bonds as well as by electrostatic interaction. Throughout the study it was noticed that the structural behavior of poly(L -arginine) toward anions is distinct from that of poly(L -lysine).     

Regulation of the Na+-K+(NH)-2Cl− cotransporter of rat submandibular glands

A cellular suspension from rat submandibular glands was exposed to different concentrations of NH₄Cl, and the variations of the intracellular concentration of calcium ([Ca²⁺]_i) and the intracellular pH (pH_i) were measured using fura-2 and 2′,7′-bis-(2-carboxy-ethyl)-5(6)-carboxyfluorescein. More than 5 mmol/l NH₄Cl significantly increased the [Ca²⁺]_i without affecting the response to 100 µmol/l carbachol. When exposed to 1 and 5 mmol/l NH₄Cl, the cells acidified immediately. At 30 mmol/l, NH₄Cl first alkalinized the cells and the pH_i subsequently dropped. This drop reflects the uptake of NH ions that dissociate to NH₃ and H⁺ in the cytosol. These protons are exchanged for extracellular sodium by the Na⁺/H⁺ exchanger because the presence of an inhibitor of the exchanger in the medium increased the acidification induced by 1 mmol/l NH₄Cl. Ouabain partly blocked the uptake of NH. In the combined presence of ouabain and bumetanide (an inhibitor of the Na⁺-K⁺-2Cl⁻ cotransporter), 1 mmol/l NH₄Cl alkalinized the cells. The contribution of the Na/K ATPase and the Na⁺-K⁺-2Cl⁻ cotransporter in the uptake of NH was independent of the presence of calcium in the medium. Isoproterenol increased the uptake of NH by the cotransporter. Conversely, 1 mmol/l extracellular ATP blocked the basal uptake of NH by the cotransporter. This inhibition was reversed by extracellular magnesium or Coomassie Blue. It was mimicked by benzoyl-ATP but not by CTP, GTP, UTP, ADP, or ADPβS. ATP only slightly inhibited the increase of cyclic AMP (−22%) by isoproterenol but fully blocked the stimulation of the cotransporter by the β-adrenergic agonist. ATP increased the release of ³H-arachidonic acid from prelabeled cells but SK&F 96365, an imidazole-based cytochrome P450 inhibitor, did not affect the inhibition by ATP. It is concluded that the activation of a purinoceptor inhibits the basal and the cyclic AMP-stimulated activity of the Na⁺-K⁺-2Cl⁻ cotransporter. J. Cell. Physiol. 180:422–430, 1999. © 1999 Wiley-Liss, Inc.