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基于药效团和对接的KDR抑制剂计算机辅助联合研究

Pharmacophore and docking-based combined in-silico study of KDR inhibitors.

作者信息

Pasha F A, Muddassar M, Neaz M M, Cho Seung Joo

机构信息

Computational Science Center, Future Fusion Technology Division, Korea Institute of Science and Technology, PO Box 131, Seoul 130-650, Republic of Korea.

出版信息

J Mol Graph Model. 2009 Aug;28(1):54-61. doi: 10.1016/j.jmgm.2009.04.006. Epub 2009 Apr 19.

Abstract

The growth and metastasis of solid tumors is dependent on angiogenesis. The vascular endothelial growth factor (VEGF) and its cell surface receptor in human KDR (kinase domain containing receptor or VEGFR-2) have particular interest because of their importance in angiogenesis. The development of novel inhibitors of VEGFR-2 would be helpful to check the growth of tumors. Quantitative structure activity relationship (QSAR) analyses used to understand the structural factors affecting inhibitory potency of thiazole-substituted pyrazolone derivatives. Several pharmacophore-based models indicated the importance of steric, hydrophobic and hydrogen bond acceptor groups to inhibitory activity. The comparative molecular field analyses (CoMFA) and comparative molecular similarity indices analyses (CoMSIA) based 3D-QSAR models were derived using pharmacophore-based alignment. Both CoMFA (q(2)=0.70, r(2)=0.97 and r(predictive)(2)=0.61) and CoMSIA (q(2)=0.54, r(2)=0.82 and r(predictive)(2)=0.66) gave reasonable results. The molecular docking (receptor-guided technique) with a recently reported receptor structure (PDB=1YWN) were performed. The docked alignment was subsequently used for 3D-QSAR (CoMFA; q(2)=0.56, r(2)=0.97, r(predictive)(2)=0.82, CoMSIA; q(2)=0.58 r(2)=0.91, r(predictive)(2)=0.69). The overall both studies were indicated, steric, electrostatic and hydrogen bond acceptor effects contribute to the inhibitory activity. CoMFA and CoMSIA models suggested that a positive bulk with hydrophobic effect is desirable around position 4 and 5 and hydrogen bond acceptor groups around pyrazolones ring will be helpful.

摘要

实体瘤的生长和转移依赖于血管生成。血管内皮生长因子(VEGF)及其在人KDR(含激酶结构域受体或VEGFR - 2)中的细胞表面受体因其在血管生成中的重要性而备受关注。开发新型VEGFR - 2抑制剂将有助于抑制肿瘤生长。定量构效关系(QSAR)分析用于了解影响噻唑取代吡唑啉酮衍生物抑制活性的结构因素。几种基于药效团的模型表明空间、疏水和氢键受体基团对抑制活性的重要性。基于药效团比对推导了基于比较分子场分析(CoMFA)和比较分子相似性指数分析(CoMSIA)的3D - QSAR模型。CoMFA(q(2)=0.70,r(2)=0.97,r(预测)(2)=0.61)和CoMSIA(q(2)=0.54,r(2)=0.82,r(预测)(2)=0.66)均给出了合理结果。采用最近报道的受体结构(PDB = 1YWN)进行了分子对接(受体引导技术)。对接比对随后用于3D - QSAR(CoMFA;q(2)=0.56,r(2)=0.97,r(预测)(2)=0.82,CoMSIA;q(2)=0.58,r(2)=0.91,r(预测)(2)=0.69)。两项研究总体表明,空间、静电和氢键受体效应有助于抑制活性。CoMFA和CoMSIA模型表明,4位和5位周围具有疏水作用的正体积以及吡唑啉酮环周围的氢键受体基团将是有益的。

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