Substitution Matrices of Residue Triplets Derived from Protein Blocks.

In protein sequence alignment, residue similarity is usually evaluated by substitution matrix, which scores all possible exchanges of one amino acid with another. Several matrices are widely used in sequence alignment, including PAM matrices derived from homologous sequence and BLOSUM matrices derived from aligned segments of BLOCKS. However, most matrices have not addressed the high-order residue-residue interactions that are vital to the bioproperties of protein.With consideration for the inherent correlation in residue triplet, we present a new scoring scheme for sequence alignment. Protein sequence is treated as overlapping and successive 3-residue segments. Two edge residues of a triplet are clustered into hydrophobic or polar categories, respectively. Protein sequence is then rewritten into triplet sequence with 2 · 20 · 2 = 80 alphabets. Using a traditional approach, we construct a new scoring scheme named TLESUMhp (TripLEt SUbstitution Matrices with hydropobic and polar information) for pairwise substitution of triplets, which characterizes the similarity of residue triplets. The applications of this matrix led to marked improvements in multiple sequence alignment and in searching structurally alike residue segments. The reason for the occurrence of the ‘‘twilight zone,’’ i.e., structure explosion of lowidentity sequences, is also discussed.

Effect of substitution of chromium for nickel on structure and electrochemical characteristic of Ti0.26Zr0.07V0.24Mn0.1Ni0.33 multi-phase hydrogen storage alloy

Ti-Zr-V-Mn-Ni-based multi-component alloys demonstrate high discharge capacity in KOH electrolyte. However, the drastic decrease in their discharge capacities makes them unsuitable for use as negative electrode material in the Ni/MH battery. In present work, Ni is partially replaced by Cr in the Ti-Zr-V-Mn-Ni-based alloys to improve their cycle life. The effects of Cr substitution on microstructures and the electrochemical characteristics of the alloys are investigated. It is found that Cr substitution is very effective to improve the cyclic durability of the alloys although the discharge capacity decreases with changing x from 0.05 to 0.20. Some kinetic performances have been also investigated using electrochemical impedance spectroscopy (EIS) and potentiostatic discharge technique.

Preparation and characterization of cationic corn starch with a high degree of substitution in dioxane-THF-water media

Cationic corn starch derivatives with a high degree of substitution are prepared in alkaline solution or in mixed media of organic solvent and water with different levels of the cationic reagent, 2,3-epoxypropyltrimethylammonium chloride. The starch cationization yield is investigated, and the results indicate that the degree of substitution (DS) of the samples depends on the reaction conditions and reaction media. The maximum DS values are up to 1.37 in 1,4-dioxane alkali ne-aqueous solution. Meanwhile, the structures of the cationic starch derivatives are characterized by elemental analyses, FTIR spectroscopy, X-ray diffraction, and C-13 NMR spectroscopy, as well as by SEM techniques.

Effect of strontium substitution on the activity of La2-xSrxNiO4 (x=0.0-1.2) in NO decomposition

The aim of this work is to study the effect of Sr substitution on the redox properties and catalytic activity of La2-xSrxNiO4 (x = 0.0-1.2) for NO decomposition. Results suggest that the x = 0.6 sample shows the highest activity. The characterization (TPD, TPR, etc.) of samples indicates that the x = 0.6 sample possesses suitable abilities in both oxidation and reduction, which facilitates the proceeding of oxygen desorption and NO adsorption. At temperature below 700 degrees C, the oxygen desorption is difficult, and is the rate-determining step of NO decomposition. With the increase of reaction temperature (T > 700 degrees C), the oxygen desorption is favorable and, the active adsorption of NO on the active site (NO + V-o + Ni2+ -> NO--Ni3+) turns out to be the rate-determining step. The existence of oxygen vacancy is the prerequisite condition for NO decomposition, but its quantity does not relate much to the activity.

Substitution effect of nitrogen atoms with carbon atoms in porphyrin on the electronic structure and excited states properties

Density functional theory (DFT) electronic structure calculations were carried out to predict the structures and the absorption and emission spectra for porphyrin and a series of carbaporphyrins-carbaporphyrin, adj-dicarbaporphyrin, opp-dicarbaporphyrin, tricarbaporphyrin and tetracarbaporphyrin. The ground- and excited-state geometries were optimized at the B3LYP/6-31g(d) and CIS/6-31g(d) level, respectively. The optimized ground-state geometry and absorption spectra of porphyrin, calculated by DFT and time-dependent DFT (TDDFT), are comparable with the available experimental values. Based on the optimized excited-state geometries obtained by CIS/6-31g(d) method, the emission properties are calculated using TDDFT method at the B3LYP/6-31g(d) level. The effects of the substitution of nitrogen atoms with carbon atoms at the center positions of porphyrin are discussed. The results indicate that the two-pyrrole nitrogens are important to the chemical and physical properties for porphyrin.

Preparation of divalent rare earth ions in air by aliovalent substitution and spectroscopic properties of Ln(2+)

When alkaline earth ions in borates, phosphates or borophosphates [SrB4O7, SrB6O10, BaB8O13, MBPO5 (M=Ca,Sr)] are substituted partially and aliovalently by trivalent rare earth ions such as Sm3+, Eu3+, these rare earth ions can be reduced to divalent state by the produced negative charge vacancy V-M". The matrices must have appropriate structure containing a rigid three-dimensional network of tetragonal AO(4) groups (A=B,P). These groups can surround and isolate the produced divalent RE2+ ions from the reaction with oxygen. Therefore, this reduction reaction can be carried out even in air at high temperature. The produced divalent rare earth ions can be detected by luminescence and XANES methods and their spectroscopic properties are discussed.

Advances in gas-phase electrophilic aromatic substitution reaction

Recent advances in the gas - phase reaction of aromatics with cationic electrophiles are reviewed. The overall substitution reaction is analyzed in terms of its elementary steps. Mechanistic studies have been focused on the structure and reactivity of covalent and non - covalent ionic intermediates, which display a rich chemistry and provide benchmark reactivity models. Particular attention has been devoted to proton transfer reactions, which may occur intra or intermolecularly in arenium intermediates.

Effect of end substitution on optical properties and molecular orientation of distyrylbenzene derivatives in thin film

Three distyrylbenzene (DSB) derivatives were vacuum-evaporated on a (001) surface of KBr. DSB derivative molecules formed nuclei by interaction between the electron donative methoxyl group and Br- ion of the substrate crystal and oriented their longitudinal axis obliquely to the substrate surface. The peak shift between the emission peaks of solution and film decreased depending on the number of substituent. This phenomenon was originated to reduction of molecular interaction between neighboring molecules by steric hindrance of end substituents. (C) 2000 Elsevier Science S.A. All rights reserved.

The application and a substitution defect model for Eu3+ -> Eu2+ reduction in non-reducing atmospheres in borates containing BO4 anion groups

The variations of emission intensities of SrB4O7:Eu2+ and Sr2B5O9Cl:Eu2+ prepared in different atmospheres are discussed in view of the structure of host compounds. A model of substitution defects is proposed to explain the abnormal reduction of Eu3+ --> Eu2+ in non-reducing atmospheres of N-2, air and O-2. Experiment results show that SrB4O7:Eu2+ phosphor sample prepared in N-2 atmosphere has an emission intensity of 94% as high as that of the sample prepared in H-2 gas. This implies that the reduction of Eu2+ --> Eu2+ in non-reducing atmospheres could be potentially used in preparing phosphors, such as SrB4O7:Eu2+. (C) 1999 Elsevier Science Ltd. All rights reserved.

Vibronic transitions and site substitution of Eu2+ and codoped ions in KMgF3 : Eu-X (X=Ce, Cr, Gd, Cu) system

The high-resolution emission spectra of KMgF3 : Eu and KMgF3 : Eu-X(X = Ce, Cr, Gd, Cu) single crystals were measured at 300 and 77 K. The vibronic side bands of Eu2+ were characterized and an assignment of the normal mode frequencies to particular vibrations has been made. The correlation between the vibronic frequencies of Eu2+ and the site substitution of other co-dopcd ions was first found. The relationship between vibronic intensity of Eu2+ and other doped ions concentration showed that Cr3+, Gd3+ ions competed K+ sites with Eu2+ ions. Ce3+ and Eu3+ occurred the electron transference. The introduction of Cu+ made for Eu2+ substuting for K+ sites.

Site substitution and energy transfer of Eu2+ and Ce3+ in KMgF3 : Eu and KMgF3 : Eu-Ce single crystals

The high-resolution emission spectra of KMgF3 : Eu and KMgF3 : Eu-Ce single crystals were measured at 77 K. The site substitution of Eu2+ and Eu2+-Ce3+ co-doped system in KMgF3 was discussed. Eu2+ substituted for K+ sites on three different site-symmetry: cubic, trigonal and tetragonal. The attribution of all lines occurring in the emission spectra were ascertained. The indirect energy transfer from P-6(5/2) states of Eu2+ to 4f5d states of Ce3+ in KMgF3 : Eu-Ce was observed and the energy transfer mechanism was studied. The d-d interaction among levels was proposed.

The effects of different alkyl substitution on the structures and properties of poly(3-alkylthiophenes)

In order to investigate the influence of different alkyl side chain substitution on the structures and properties of P3ATs, X-ray diffraction, differential scanning calorimetry (DSC), thermal gravity analysis (TGA), Fourier transform infrared spectra (FTIR) and ultraviolet-visible spectra (W-VIS) were applied to characterizing the samples of ploy(3-octylthiophene) (P3OT), poly(3-dodecylthiophene) (P3DDT) and poly(3-octadecylthiophene) (P3ODT). It is found that the different length of alkyl group substitution leads to great difference in molecular chain packings, according to the room temperature X-ray diffraction results. The temperature dependence of X-ray diffraction experiments were also performed to study the melting processes of P3ATs. With the increase in the number of carbon atoms in alkyl side chains, the melting point decreases, and the thermal stability decreases too. The results of both FTIR and W-VIS spectra indicate that the conjugation length of P3DDT is the longest. among the three P3ATs. (C) 2001 Elsevier Science B.V. All rights reserved.

Gas permeability and permselectivity of polyimides prepared from phenylenediamines with methyl substitution at the ortho position

Polyimides were prepared from diamines: 2,4,6-trimethyl-1,3-phenylenediamine (3MPDA) and 2,3,4,5-tetramethyl-1,4-phenylenediamine (4MPDA). 1,4-Bis(3,4-dicarboxyphenoxy)benzene dianhydride (HQDPA), 3,3',4,4'-benzophenone tetracarboxylic dianhydride (BTDA), 3,3'-4,4'-diphenylsulphone tetracarboxylic dianhydride (SO(2)PDA), 3,3',4,4'-diphenylsulphide tetracarboxylic dianhydride (SPDA), pyromellitic dianhydride (PMDA), and 2,2'-bis(3,4-dicarboxyphenyl)hexa-fluoroisopropane dianhydride (6FDA) were used as dianhydride. The gas permeabilities of H-2, O-2 and N-2 through the polyimides were measured at temperatures from 30 degrees C to 90 degrees C. The results show that as methyl and trifluoromethyl substitution groups densities increase from 7.73 x 10(-3) molcm(-3) to 13.50 x 10(-3)molcm(-3), the peameability of H-2 increases 10-fold at 60% loss of permselectivity of H-2/N-2 however, the permeability of O-2 increases 20-fold at 20% loss of permselectivity of O-2/N-2. For O-2/N-2 separation, PMDA-3MPDA has similar performance to 6FDA-3MPDA and 6FDA-4MPDA; all have higher permeabilities for O-2 than normal polyimides, and the P(O-2)/alpha(O-2/N-2) trade-off relationships lie on the upper bound line for polymers. (C) 1999 Society of Chemical Industry.

THE EFFECT ON PHYSICAL-PROPERTIES OF THE SUBSTITUTION OF CA OR BA FOR SR IN NDSRNIO4

A new solid solution series, NdSr(1-x)M(x)NiO(4) (M = Ca: 0.0 less than or equal to x less than or equal to 1.0; M = Ba: 0.0 less than or equal to x less than or equal to 0.6), was synthesized by solid state reaction, and the structures, magnetic and electrical properties and optical spectra of this series have been studied. All the samples crystalized in tetragonal systems, with the exception of NdCaNiO4, which crystallized in the orthohombic system. IR spectra of NdSr1-xCaxNiO4 indicated that the lengths of two Ni-O bonds decrease with increasing Ca content. The electrical conduction changed from metallic-type to semiconductive-type when x greater than or equal to 0.4 (M = Ca, Ba), and the room temperature resistivities of NdSr1-xCaxNiO4 increased with the increase of Ca content. Magnetic susceptibility measurements revealed that Ni+3 ions in all the samplies were in low-spin state over the temperature range 77-300 K.