Internal test sets studies in a group of antimalarials

Topological indices have been applied to build QSAR models for a set of 20 antimalarial cyclic peroxy cetals. In order to evaluate the reliability of the proposed linear models leave-n-out and Internal Test Sets (ITS) approaches have been considered. The proposed procedure resulted in a robust and consensued prediction equation and here it is shown why it is superior to the employed standard cross-validation algorithms involving multilinear regression models

Synthesis, Binding and Bioactivity of [gamma]-Methylene [gamma]-Lactam Ecdysone Receptor Ligands: Advantages of QSAR Models for Flexible Receptors

Nuclear hormone receptors, such as the ecdysone receptor, often display a large amount of induced fit to ligands. The size and shape of the binding pocket in the EcR subunit changes markedly on ligand binding, making modelling methods such as docking extremely challenging. It is, however, possible to generate excellent 3D QSAR models for a given type of ligand, suggesting that the receptor adopts a relatively restricted number of binding site configurations or [`]attractors'. We describe the synthesis, in vitro binding and selected in vivo toxicity data for [gamma]-methylene [gamma]-lactams, a new class of high-affinity ligands for ecdysone receptors from Bovicola ovis (Phthiraptera) and Lucilia cuprina (Diptera). The results of a 3D QSAR study of the binding of methylene lactams to recombinant ecdysone receptor protein suggest that this class of ligands is indeed recognized by a single conformation of the EcR binding pocket.

3D QSAR studies of N-4-arylacryloylpiperazin-1-yl-phenyl-oxazolidinones: A novel class of antibacterial agents

Three-dimensional QSAR studies for N-4-arylacryloylpiperazin-1-yl-phenyl-oxazolidinones were conducted using TSAR 3.3. The in vitro activities (MICs) of the compounds against Staphylococcus aureus ATCC 25923 exhibited a strong correlation with the prediction made by the model developed in the present study.

3D QSAR analysis of oxazolidinone antibacterials: can we predict?

Three-dimensional QSAR studies for substituted aryloxazolidinones 3–9 were conducted using TSAR 3.3. The in vitro activities (MICs) of the compounds against Staphylococcus aureus and Enterococcus faecalis exhibited a good correlation with the prediction made by the model using heat of formation and LUMO energies.

Análise estereológica e bioquímica do tecido conjuntivo e muscular no corpo cavernoso adjacente à placa fibrosa da doença de Peyronie

Os estudos sobre a doença de Peyronie geralmente estão centrados em analises da placa fibrosa que se forma na túnica albugínea. Devido a esta reação fibrótica mediada por vários fatores solúveis inflamatórios o tecido conjuntivo adjacente também pode ser afetado. Este efeito secundário pode, por exemplo, explicar a disfunção erétil que ocorre na doença. Foram obtidas biopsias do corpo cavernoso adjacente a placa fibrótica e parte da própria placa de 7 pacientes com a doença de Peyronie (média de idade 48.3 anos). As amostras do grupo controle foram obtidas de forma semelhante durante a autopsia de 5 indivíduos (média de idade 52,3 anos). O material foi submetido a técnicas histoquímicas: H&E, Van Gieson, técnicas imunohistoquímicas: Anti-alfa actina, Anti-elastina e métodos bioquímicos para a dosagem do colágeno total. A quantificação foi feita através de métodos estereológicos. No corpo cavernoso foi observada uma redução estatisticamente significativa de fibras do sistema elástico de pacientes com a doença de Peyronie (19,49% 3,27% vs 23,56% 1,87%; p < 0,05), O colágeno e o músculo liso não apresentaram variação quantitativa quando comparado ao grupo controle. No músculo liso (34,46% 2,06% vs 38,38% 3,17%) e tecido conjuntivo (35,39% 6,15% vs 38,02% 5,03%). A densidade volumétrica das fibras do sistema elástico na placa fibrótica foi diminuída em 38,3% comparada a túnica albugínea normal (20,25% 5,49% vs 32,81% 4,75%; p<0,02) e a concentração de colágeno no corpo cavernoso do grupo controle (77,94 24,26 μg/mg) e doença de Peyronie (66,57 19,39 μg/mg) não diferem significativamente. Os cortes corados com Vermelho de Picrosirius revelaram que no corpo cavernoso normal cores associadas ao colágeno encontravam-se homogeneamente distribuídas. Na doença de Peyronie o colágeno apresentava uma desorientação. A análise quantitativa indicou que o colágeno do corpo cavernoso adjacente à placa fibrótica não estava afetado, embora sua organização estivesse notoriamente alterada. As fibras do sistema elástico do corpo cavernoso estavam reduzidas e uma modificação similar foi encontrada na placa fibrótica da túnica albugínea. Estes resultados sugerem que, embora ocorram primariamente na túnica albugínea, a placa fibrótica da doença de Peyronie pode induzir mudanças no corpo cavernoso adjacente.

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.

六茜素及其衍生物抗菌活性的QSAR研究

用 Topliss,Free- Wilson和 Hansch方法对蒽醌类化合物的抗菌活性进行了 QSAR研究。结果证明取代蒽醌的抗菌活性可能是通过药物与受体间的电子转移所生成的电荷转移复合物而实现的。在 Hansch分析中 ,应用了表征药物与受体间化学反应性的量子化学参数 L EMO,取得了好的结果

Comparison of steroid substrates and inhibitors of P-glycoprotein by 3D-QSAR analysis

Steroid derivatives show a complex interaction with P-glycoprotein (Pgp). To determine the essential structural requirements of a series of structurally related and functionally diverse steroids for Pgp-mediated transport or inhibition, a three-dimensional quantitative structure activity relationship study was performed by comparative similarity index analysis modeling. Twelve models have been explored to well correlate the physiochemical features with their biological functions with Pgp on basis of substrate and inhibitor datasets, in which the best predictive model for substrate gave cross-validated q(2) = 0.720, non-cross-validated r(2) = 0.998, standard error of estimate SEE = 0.012, F = 257.955, and the best predictive model for inhibitor gave q(2) = 0.536, r(2) = 0.950, SEE = 1.761 and F = 45.800. The predictive ability of all models was validated by a set of compounds that were not included in the training set. The physiochemical similarities and differences of steroids as Pgp substrate and inhibitor, respectively, were analyzed to be helpful in developing new steroid-like compounds. (C) 2004 Elsevier B.V. All rights reserved.

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.

类吗啡类拮抗物的结构与抑食活性的3D-QSAR研究

用比较力场分析研究了 3 ,4 二甲基 4 ( 3 羟基苯基 )哌啶及其衍生物类吗啡拮抗物的结构与抑食活性的关系 ,考察了网格结构和探针原子的影响 .结果表明 ,立体效应和静电作用场是描述其抑食活性和进行结构性能关系研究的最重要的结构参数

HEPT类化合物的QSAR研究

为定量结构 /活性相关性研究提取了量子化学参数 ,拓扑指数 Am,分子连接性指数 mxt及疏水性常数 ,同时应用正交变换和最佳变量子集算法 (Leaps-and-Bonds)进行了变量压缩和选择 ,进而实施了多元回归分析 ,并由此结果进行了 HEPT 类化合物 (1 -[(2 -hydroxyethoxy) methyl]-6-(phenylthio) -thyminederivatives)的结构 /活性关系的理论解释 .进行了人工神经网络法对于该类化合物的活性预测 ,其结果明显好于多元回归法

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.

酚类化合物的QSAR研究

直接应用化合物的分子结构式产生的结构描述参量研究了４５个酚类化合物的麻醉毒性和分子结构之间的相关性，用多元回归分析和神经网络法建立了相应的数学模型，并用其预测了５个酚类化合物的麻醉毒性．结果表明，所提取的结构参量较好地反映这类化合物的结构特性，而用神经网络法所得结果优于多元回归分析结果.