Molecular docking and 3D-QSAR study of pyranmycin derivatives against 16S rRNA A site

To understand pharmacophore properties of pyranmycin derivatives and to design novel inhibitors of 16S rRNA A site, comparative molecular field analysis (CoMFA) approach was applied to analyze three-dimensional quantitative structure-activity relationship (3D-QSAR) of 17 compounds. AutoDock 3.0.5 program was employed to locate the orientations and conformations of the inhibitors interacting with 16S rRNA A site. The interaction mode was demonstrated in the aspects of inhibitor conformation, hydrogen bonding and electrostatic interaction. Similar binding conformations of these inhibitors and good correlations between the calculated binding free energies and experimental biological activities suggest that the binding conformations of these inhibitors derived from docking procedure were reasonable. Robust and predictive 3D-QSAR model was obtained by CoMFA with q(2) values of 0.723 and 0.993 for cross-validated and noncross-validated, respectively. The 3D-QSAR model built here will provide clear guidelines for novel inhibitors design based on the Pyranmycin derivatives against 16S rRNA A site. (c) 2005 Elsevier B.V. All rights reserved.

A QSAR study of the antiallergic activities of substituted benzamides and their structures

Multiple regression analysis (MRA) and comparative molecular field analysis (CoMFA) have been used in studies of the correlation between the antiallergic activities of substituted benzamides and their structures. The results achieved using Coh IFA based on 3D factors are much better than those obtained using MRA based on mainly 2D structural information. The CoMFA results reveal that the steric effects are more important than the electrostatic effects for the activities of substituted benzamides. (C) 1999 Elsevier Science B.V. All rights reserved.

Studies on quantitative structure-activity relationship between the structures of derivatives of benzamide and their antiallergic activities

Molecular connectivity index and comparative molecular field analysis (CoMFA) have been applied to the studies of the correlation of the derivatives of benzamide and their antiallergic activities. The results achieved by using CoMFA based on 3D factors are much better than that obtained by using multiple regression analysis based on majorly 2D structural information. The CoMFA results show that the dominant factor which affects activity is steric, whereas electrostatic effect only plays an unimportant role.

Analysis of chemical calorific effect during reactive extrusion processes for free radical polymerization

In the reactive extrusion process for polymerization, the chemical calorific effect has a great influence on the temperature. In order to quantitatively analyze the polymerization trend and optimize the processing conditions, the phenomena of the chemical calorific effect during reactive extrusion processes for free radical polymerization were analyzed. Numerical computation expressions of the heat of chemical reaction and the reactive calorific intensity were deduced, and then a numerical simulation of the reactive extrusion process for the polymerization of n-butyl methacrylate was carried out. The evolutions of the heat of chemical reaction and the reactive calorific intensity along the! axial direction of the extruder are presented, on the basis of which reactive processing conditions can be optimized.

A QSAR of the toxicity of amino-benzenes and their structures

The quantum chemical parameters and the topological indices have been calculated for the prediction of the toxicity of amino-benzenes in the environment, and work has been done on the multiple regression and neural networks. The combination of CoMFA with formation heat yields greatly improved results. A good model has been obtained which provides a basis for the studies of the toxic action mechanism.

新型抗爱滋病药物吡喃酮类化合物的三维定量构效关系研究

吡喃酮类化合物是抗爱滋病的一类新药， 本文用CoMFA(Comparative Molecular Field Analysis)方法对19个吡喃酮类化合物的三维构效关系进行了研究， 较详细地探讨了分子的重叠方式， 并选用了其他有关的一些最优条件， 得到满意的结果。

Studies on three-dimensional quantitative structure-activity relationship of PDE inhibitory activity of imidazopyridines

In recent years there has been a resurgence of interest in inhibitors of cyclic nucleotide phosphodiesterases (PDE) and enzymes responsible for the intracellular hydrolysis of the second messenger cAMP and cGMP. In this study, a series of 2-substituted phenyllimidazo[4,5-b]pyridines have been made to investigate 3D-QSAR of PDE activity using CoMFA. CoMFA resulted in a quantitative description of the major steric and electrostatic field effects, and gave significant new insights to factors governing PDE inhibition activity. The model was used to predict the PDE inhibition activity of imidazopyridines with satisfactory results.

Studies on three-dimensional quantitative structure-activity relationships between the structures of N-nitroso compounds and their carcinogenic activities

Comparative molecular fiels analysis (CoMFA) has been applied to the studies of the correlation of the N-nitroso compounds and their carcinogenic activities, The comparison of CoMFA results with different lattice spacing and different atom probes was investigated, CoMFA resulted in a quantitative description of the major steric and electrostatic field effects and gave significant new insights to factors governing potency.

Damage Localization, Sensitivity of Energy Release and the Catastrophe Transition

Large earthquakes can be viewed as catastrophic ruptures in the earth’s crust. There are two common features prior to the catastrophe transition in heterogeneous media. One is damage localization and the other is critical sensitivity; both of which are related to a cascade of damage coalescence. In this paper, in an attempt to reveal the physics underlying the catastrophe transition, analytic analysis based on mean-field approximation of a heterogeneous medium as well as numerical simulations using a network model are presented. Both the emergence of damage localization and the sensitivity of energy release are examined to explore the inherent statistical precursors prior to the eventual catastrophic rupture. Emergence of damage localization, as predicted by the mean-field analysis, is consistent with observations of the evolution of damage patterns. It is confirmed that precursors can be extracted from the time-series of energy release according to its sensitivity to increasing crustal stress. As a major result, present research indicates that the catastrophe transition and the critical point hypothesis (CPH) of earthquakes are interrelated. The results suggest there may be two cross-checking precursors of large earthquakes: damage localization and critical sensitivity.

In-situ resistivity measurement of ZnS in diamond anvil cell under high pressure

An effective method is developed to fabricate metallic microcircuits in diamond anvil cell (DAC) for resistivity measurement under high pressure. The resistivity of nanocrystal ZnS is measured under high pressure up to 36.4 GPa by using designed DAC. The reversibility and hysteresis of the phase transition are observed. The experimental data is confirmed by an electric current field analysis accurately. The method used here can also be used under both ultrahigh pressure and high temperature conditions.

i-Motif Quadruplex DNA-Based Biosensor for Distinguishing Single- and Multiwalled Carbon Nanotubes

The increasing worldwide demand for carbon nanotubes (CNTs) and increasing concern regarding how to safely develop and use CNTs are requiring a low-cost, simple, and highly sensitive CNT detection assay for toxicological evaluation and environmental monitoring. However, this goal is still far from being achieved. All the current CNT detection techniques are not,applicable for automation and field analysis because they are dependent on highly expensive special instruments and complicated sample preparation. On the basis of the capability of single-walled carbon nanotubes (SWNTs) to specifically induce human telomeric i-motif formation, we design an electrochemical DNA (E-DNA) sensor that can distinguish single- and multiwalled carbon nanotubes both in buffer and in cell extracts. The E-DNA sensor can selectively detect SWNTs; with a direct detection limit of 0.2 ppm and has been demonstrated in cancer cell extracts. To the best of our knowledge, this is the first demonstration of a biosensing technique that can distinguish different types of nanotubes. Our work will provide new insights into how to design a biosensor for detection of carbon nanotubes.

广义二面角在定量结构/活性相关分析中的应用

化合物的结构与其活性具有相关性 .建立相关性需要由结构提取特征 ,并运用这些特征作为自变量去构造数学模型 ,以便预测未知的化合物及其活性 .目前 ,在诸多 3D- QSAR方法中 ,应用最为广泛的是 Co MFA( Comparasive Molecular Field Analysis)方法 [1～ 3] ,但新近的研究发现 ,Co MFA方法对于某类化合物 (如苯胺类化合物 )适应性较差 ,但分子在三维空间投影面积及量化参数的引入可大大改善所得结果[4 ] .本文从另一角度 (即广义二面角 )研究了分子在三维空间的形状 ,得到了满意的结果 .1　实验部分本文选用 34个 1 - [( 2 - Hydroxyethoxy) methyl]- 6- ( phenylthio) thymine( HEPT)类化合物 [5] ,通式见Scheme 1　 HEPT derivative substituted HEPTScheme 1 .表 1中分别列出了 34个分子对应的 R,X,Y基团 .该类化合物是具有较高生物活性的抗艾滋病药物 ,其活性以 EC50 表示 ( EC50 为降低 5 0 %T4细胞而被 HIV...

残留盆地分布综合地球物理研究——以大港地区为例

Macro-distribution of residual basins is a basic question in residual basin research，the main object of macro-distribution study is to build strata framework, compute thickness of residual strata and analyze characteristics of residual basins. With the guidance of the theory of integrated geology and geophysical research, the paper assembled series of methods and established the technical chart based on gravity and magnetic data, with restriction of geology, seismic and drilling data. Based on potential field data processing and analysis, forward and inverse computation, region potential field analysis and potential field separation, etc. it computed depth of gravity/magnetic basement and got strata framework. It had got effective results in the research of macro-distribution of residual basin research in the Dagang area. It did the wavelet transform of gravity/magnetic data with multi-kind of wavelet basis using a trou algorithm. From comparison of processing result and their spectral of wavelet analysis, up continuation and filter method, the wavelet approximation is better to fit the regional potential field, and it is an effective method to separate gravity/magnetic effect caused by deep geology bodies. The experiment of matching pursuit shows that te transform domain methods have great advantage in potential data analysis. From the integrated geophysical study of rock property study, gravity/magnetic basement inversion and fault system analysis of the Dagang area, it gets the strata framework and the thickness of pre-Cenozoic residual strata. Comprehensive study with gravity and magnetotelluric profile inversion and interpretation, three prospect plays of macro-distribution of residual basins are fingered out. It has great residual strata thickness in the northern part of Chengning Uplift and there is thrust fault in the deep zone and good up-Paleozoic hydrocarbon source rocks in this area. With integrated analysis, this area will be the most prospective hydrocarbon location of pre-Cenozoic residual basins.