Nanopore-based DNA Supersandwich Structure for Detection of Streptavidin

Natural and syntlietic nanopores are increasingly popular tools in biosensors. In this work, the DNA supersandwich structure, which was made from two specially designed probes has been used to be fabricated in solid nanopores. Integrating the idea of affinity between streptavidin and biotin, the DNA supersandwich structure with biotins was successfully constructed for streptavidin detection, and the limitation of detection was found to be 10 fmol/L. This nanodevice allows specific, sensitive and versatile detection of diverse analytes with easy operations, thus we believe that it could be developed to detect some disease-related molecular targets and play a considerable role in biotechnology.     

From symmetry-labeled quotient graphs of crystal nets to coordination sequences

The combinatorial topology of crystal structures may be described by finite graphs, called symmetry-labeled quotient graphs or voltage graphs, with edges labeled by symmetry operations from their space group. These symmetry operations themselves generate a space group which is generally a non-trivial subgroup of the crystal space group. The method is an extension of the so-called vector method, where translation symmetries are used as vector labels (voltages) for the edges of the graph. Non-translational symmetry operations may be used as voltages if they act freely on the net underlying the crystal structure. This extension provides a significant reduction of the size of the quotient graph. A few uninodal and binodal nets are examined as illustrations. In particular, various uninodal nets appear to be isomorphic to Cayley color graphs of space group. As an application, the full coordination sequence of the diamond net is determined.     

烧绿石型复合氧化物结构及离子导电性

本文结合这两年来作者的研究工作,综述了烧绿石型复合氧化物的结构及离子导电性研究进展.系统介绍了烧绿石型复合氧化物的结构特点,分析了其传导机理、离子传导特性及国内外研究现状、应用前景和发展趋势.     

陶瓷辊棒在辊道窑使用过程中晶相结构与性能变化

采用XRD和SEM方法表征不同位置辊棒的晶相结构与显微结构来探讨陶瓷辊棒在实际窑炉使用过程晶相结构和性能变化。采用物理方法表征辊棒的性能。实验结果表明:不同位置辊棒存在莫来石、刚玉、硅酸钙镁三种晶相。莫来石含量是按未使用的(80.8%)→预热带的(78.4%)→烧结带的(73.4%)→冷却带的(71.5%)的顺序降低;刚玉含量按17.7%→19.2%→18%→22.5%的顺序变化;而晶相硅酸钙镁含量按1.5%→2.4%→7.6%→6%的顺序变化;体积密度和使用寿命按上述顺序降低的,而气孔率和吸水率按上述顺序增加的。     

Scale‐adaptive tensor algebra for local many‐body methods of electronic structure theory

While the formalism of multiresolution analysis, based on wavelets and adaptive integral representations of operators, is actively progressing in electronic structure theory (mostly on the independent‐particle level and, recently, second‐order perturbation theory), the concepts of multiresolution and adaptivity can also be utilized within the traditional formulation of correlated (many‐particle) theory based on second quantization and the corresponding (generally nonorthogonal) tensor algebra. In this article, we present a formalism called scale‐adaptive tensor algebra, which introduces an adaptive representation of tensors of many‐body operators via the local adjustment of the basis set quality. Given a series of locally supported fragment bases of a progressively lower quality, we formulate the explicit rules for tensor algebra operations dealing with adaptively resolved tensor operands. The formalism suggested is expected to enhance the applicability of certain local correlated many‐body methods of electronic structure theory, for example, those directly based on atomic orbitals (or any other localized basis functions in general). © 2014 Wiley Periodicals, Inc.     

Combining foam injection molding with batch foaming to improve cell density and control cellular orientation via multiple gas dissolution and desorption processes

In contrast to solid parts fabricated through conventional injection molding (CIM), foamed parts manufactured via foam injection molding (FIM) exhibit substantial variations in mechanical properties, which are attributed to differences in the cellular structure. In this study, parts with different cellular structures are fabricated via FIM, during which the gas dissolution and desorption processes are controlled by subjecting the gas‐laden melt to reciprocating compression and expansion operations. The results suggest that the cell density can be drastically improved by rapidly decreasing the pressure caused by the mold opening and that the cell orientation obviously occurs in the direction perpendicular to the mold‐opening direction. Moreover, the cell density and cellular orientation can be adjusted by utilizing appropriate mold opening and closing operations, leading to improvements in the resultant ultimate mechanical properties. In particular, the foamed samples fabricated with controlled mold opening‐closing operations exhibit excellent tensile strength and strain‐at‐break, indicating that samples containing a high density of cells oriented along the tensile test direction facilitate the formation of superductility and an increase in tensile strength. Hence, a method that combines FIM with batch foaming has been proposed for improving the cellular structure and controlling the cellular orientation.     

Structural and Electronic Peierls Distortions in the Elements (A): The Crystal Structure of Tellurium

The thermodynamically stable tellurium phase (standard conditions) in the trigonal α‐Se structure type may be understood to arise from a three‐dimensional Peierls distortion away from a simple cubic structure. Three‐dimensional electronic structure calculations from first principles reveal that the simple cubic structure exhibits partially filled bands which are folded back when using a hexagonal coordinate system with a tripled volume. The symmetry‐lowering transition from the cubic to the experimentally observed structure is paralled by a removal of band degeneracies and crossings, opening a band gap at the Fermi level.     

CdSe的电子结构和光学性质研究

CdSe是Ⅱ-Ⅵ族半导体材料中一种重要的半导体材料,它有闪锌矿和纤锌矿两种不同的结构,带隙较窄,具有优良的电光特性和广泛的应用前景,得到了人们的广泛关注[1-3].     

Inorganic Crystal Structure Data to be Presented in a Form More Useful for Further Studies

To make inorganic structure data more useful for further studies a five-point list of simple procedures to be followed by authors of crystal structure papers is proposed. 1. A crystal structure should be described with the space group corresponding to its true symmetry. 2. A new structure proposal should be tested, if it is realistic in principle. 3. A structure should be described with a space group in a setting given in the International Tables. 4. For a comparison with other structures the structure data should be standardized with the program STRUCTURE TIDY. 5.“New” structure data should be checked in the databases, Chemical Abstracts or on-line intemet resources, if they are really new. The list is supplemented with many explanations, commentaries, examoles and references.     

河豚毒素(TTX)及其衍生物的电子结构和构效关系及与石房蛤毒素(STX)的比较研究

对河豚毒素(TTX)及其五个衍生物进行了量子化学计算, 根据对其电子结构及相关分析研究结果, 结合其空间结构特点, 讨论了它们的活性部位、作用方式及构效关系, 发现胍基是最重要的正电中心,在与受体作用时发挥接受电子的重要作用; O(17), O(18), O(15),O(21), O(19)等氧原子是供电子的主要负电部位。对TTX与石房蛤毒素(STX)进行了电子结构和空间结构比较, 发现它们具有相似的电子结构特征, 而且主要活性部位在空间位置上基本相互对应。这表明钠离子通道阻断剂在与受体相互作用时具有共同的结构特征和作用方式, 同时也为探讨受体结构提供了有价值的信息。     

Revising Space Groups from Simulated SHELXfcf Structure Factors. More Examples of Incorrect Space Groups, an Example of a Chemically-Incorrect Structure and the Special Case of Pgl to PRevisions

1 INTRODUCTION Although the incorrect assignment of the space groups of crystal structures has been addressed in a number of reports, instances of crystal structures refined in incorrect symmetry turn up even in the recent literature[1～4]. A simple method of space group revision makes use of the published atomic coordinates and temperature factors to simulate the diffraction intensities; the structure is then 搒olved?in the correct space group from the simulated hkl-F2 data[5] and an O…     

Revising Space Groups from Simulated SHELX·fcf Structure Factors. More Examples of Incorrect Space Groups, an Example of a Chemically-Incorrect Structure and the Special Case of P1 to P(-1) Revisions

The structure factors of any crystal structure can be simulated from its atomic coordinates (and temperature factors) in a SHELXL-97 run on a dummy hkl in which only the scale factor is refined. The squares of the structure factors are retrieved from thefcf, and such simulated data are used in the revision of the space groups of several incorrectly-refined crystal structures. Two cases, a P1 to Pl- revision and a chemically-incorrect structure that is refined in a correct space group, are discussed.     

新磺酰脲类化合物的合成、结构及构效关系研究(Ⅵ)1—N-〔2-(4-甲基)嘧啶基〕-2-甲酸甲酯-苄基磺酰脲的晶体及分子结构

合成了标题化合物 C6H4 (CO2 CH3 ) CH2 SO2 NHCONHC4 N2 H2 CH3 (C15H16N4 O5S,Mr=36 4 .38) ,用 X-射线晶体衍射法测定了其晶体结构。它属单斜晶系 ,空间群为P2 1/ c,a=10 .2 2 0 (1) ,b=9.938(1) ,c=17.2 4 6 (2 ) ,β=10 6 .2 6 (2 )°,V=16 81.6(3) 3 ,Z=4 ,Dc=1.4 39Mg/ m3 ,μ=0 .2 2 7mm-1,F (0 0 0 ) =76 0。结构由直接法解出 ,全矩阵最小二乘法修正 ,最终偏离因子 R=0 .0 4 98,w R=0 .132 7(I>2 σ(I) ) ,独立可观测点数为 3448。分子中的嘧啶磺酰脲、苯环及酯基分别形成 3个独立的平面共轭体系。     

A Study on Molybdenite Electronic Structure

ＡＳｔｕｄｙｏｎＭｏｌｙｂｄｅｎｉｔｅＥｌｅｃｔｒｏｎｉｃＳｔｒｕｃｔｕｒｅＬＯＮＧＸｉａｎｇ－ｙｕｎａｎｄＷＡＮＧＦｅｎｇ－ｚｈｅｎ（Ｄｅｐｔ．ｏｆＣｈｅｍ．，ＣｅｎｔｒａｌＳｏｕｔｈＵｎｉｖｅｒｓｉｔｙｏｆＴｅｃｈｎｏｌｏｇｙ，Ｃｈａｎｇｓｈａｈ...     

The Crystal and Molecular Structure of Trichosanthin at 2.6 Resolution

The crystallographic refinement of trichosanthin has been performed at 2.6 resolution. The crystal and molecular structure of trichosanthin is described in detail in this paper. On summarizing the regularity of the amino acid sequences of eight kinds of ribosome inactivating proteins and combining with the crystal and molecular structure of trichosanthin, fifteen most conservative amino acid residues are analyzed. It is found that four most conservative polar amino acid residues Gln156, Glu160, Arg163 and Glu189 gather on the molecular surface on the boundary of the large and small domains, thus forming the active center of the protein molecule.     

Comparing two K-category assignments by a K-category correlation coefficient

Predicted assignments of biological sequences are often evaluated by Matthews correlation coefficient. However, Matthews correlation coefficient applies only to cases where the assignments belong to two categories, and cases with more than two categories are often artificially forced into two categories by considering what belongs and what does not belong to one of the categories, leading to the loss of information. Here, an extended correlation coefficient that applies to K-categories is proposed, and this measure is shown to be highly applicable for evaluating prediction of RNA secondary structure in cases where some predicted pairs go into the category “unknown” due to lack of reliability in predicted pairs or unpaired residues. Hence, predicting base pairs of RNA secondary structure can be a three-category problem. The measure is further shown to be well in agreement with existing performance measures used for ranking protein secondary structure predictions. Server and software is available at http://rk.kvl.dk/     

A computer program for the optimal ion chromatographic determination of anions in waters

Summary A general form of computer program which can assist in method development for any natural water has been developed. Necessary input data, sequence of main operations, necessary mathematical relationships and the output data are specified. The development of the structure of the computer program was based on experiences with real samples.     

Automated RNA tertiary structure prediction from secondary structure and low‐resolution restraints

A novel protocol for all‐atom RNA tertiary structure prediction is presented that uses restrained molecular mechanics and simulated annealing. The restraints are from secondary structure, covariation analysis, coaxial stacking predictions for helices in junctions, and, when available, cross‐linking data. Results are demonstrated on the Alu domain of the mammalian signal recognition particle RNA, the Saccharomyces cerevisiae phenylalanine tRNA, the hammerhead ribozyme, the hepatitis C virus internal ribosomal entry site, and the P4–P6 domain of the Tetrahymena thermophila group I intron. The predicted structure is selected from a pool of decoy structures with a score that maximizes radius of gyration and base–base contacts, which was empirically found to select higher quality decoys. This simple ab initio approach is sufficient to make good predictions of the structure of RNAs compared to current crystal structures using both root mean square deviation and the accuracy of base–base contacts. © 2011 Wiley Periodicals, Inc. J Comput Chem, 2011     

Automation of Structure Analysis. Part II. Automation of the Evaluation

The extent to which it is possible to automate the determination of a structure from the data collected with automatic measuring equipment is discussed. The development of the automatic evaluation is synchronous with that of digital computer program.—Even the simple calculation of structure factors from the intensities (i.e. the analysis of the geometrical and physical intensity factors) takes several weeks when the many thousand reflections are processed “manually”, i.e. with a desk calculator. A large electronic computer, on the other hand, executes these calculations in a few seconds. Nevertheless, even the largest computers available at present are too small for many of the complex steps in the calculation and for the quantity of data involved. Evaluation methods which, owing to long computing times, can at present only be tested on relatively simple structures will become more attractive with the advent of machines with computing times in the nanosecond range. For corrigendum see DOI: 10.1002/anie.196605112