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Probing Druggability on Interface and its Allosteric Regulat...

Probing Druggability on Interface and its Allosteric Regulation Mechanism on Drug Screening for CXCR4 Homodimer

作     者:Liting Shen 陈建芳 Xingyu Du Yanzhi Guo Menglong Li Xuemei Pu 

作者单位:College of Chemistry Sichuan University 四川大学 

会议名称:《2019中国化学会第十五届全国计算(机)化学学术会议》

会议日期:2019年

学科分类:1007[医学-药学(可授医学、理学学位)] 100701[医学-药物化学] 10[医学] 

关 键 词:Target GPCR dimer interface druggability regulation mechanism computation 

摘      要:Modulating protein-protein interactions(PPIs) with small drug-like molecules targeting it exhibits great promising in modern drug discovery. G protein-coupled receptors(GPCRs) are the largest family of targeted proteins and could form dimers in living biological cells through PPIs. However, compared to drug development of the orthosteric site, there has been lack of investigations on the druggability of the PPI interface for GPCRs and its functional implication on experiments. Thus, in order to address these issues, we constructed a novel computational strategy, which involved in molecular dynamics simulation, virtual screening and protein structure network(PSN), to study one representative GPCR homodimer(CXCR4). One druggable pocket was identified in the PPI interface and one small molecule targeting it was screened, which could strengthen PPI mainly through hydrophobic interaction between the benzene rings of the PPI molecule and TM4 of the receptor. The PSN results further reveals that the PPI molecule could increase the number of the allosteric regulation pathways between the druggable pocket of the dimer interface to the orthostatic site for the subunit A but only play minor role for the other subunit B, leading to the asymmetric change in the volume of the binding pockets for the two subunits(increase for the subunit A and minor change for the subunit B). Consequently, the screening performance of the subunit A to the antagonists is enhanced while the subunit B is unchanged nearly, implying that the PPI molecule may be beneficial to enhance the drug efficacies of the antagonists. In addition, one main regulation pathway with the highest frequency was identified for the subunit A, which consists of Trp1955.34-Tyr190 ECL2-Val1965.35-Gln2005.39-Asp2626.58-Cys28 N-term, revealing their importance in the allosteric regulation from the PPI molecule. The observations from the work could provide valuable information for the development of the PPI drug-like molecule fo

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