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Discovery of novel modulators targeting human TRPC5: Docking-based virtual screening, molecular dynamics simulation and binding af fi nity predication
Liu,Bin; Zhang,Wei; Guo,Sheng; Zuo,Zhili
2021
Source PublicationJOURNAL OF MOLECULAR GRAPHICS & MODELLING
ISSN1093-3263
Volume102Pages:107795
AbstractCanonical transient receptor potential channel 5 (TRPC5) plays a key role in the regulation of central nervous system, cardiovascular system, kidney disease, cancer, and could be also involved in liver function, arthritis, diabetes-associated complications and so on. However, evidence of TRPC5 function on cellular or organismic levels is sparse. There is still a need for identifying novel and efficient TRPC5 channel modulators to study TRPC5 function. In this study, based on the hTRPC5 structure obtained by homology modeling and the predicted binding site, we have performed virtual screening of 212,736 compounds from the specs database(http://www.specs.net) to find potential hTRPC5 modulators. Lipinski and Veber rules, ADMET (Absorption, Distribution, Metabolism, Excretion, Toxicity) and PAINS (Pan Assay Interference structures) filters were used to screen the large database. Further, multi-software combination docking, cluster analysis and interaction analysis were used to select 20 potential active candidates with novel skeleton. 4 Hits, bearing appreciable binding affinity with hTRPC5 were selected for 40ns all-atom molecular dynamics (MD) simulations under explicit water conditions. The MD simulation results suggested that the 4 Hits binding induces a slight structural change and stabilizes the hTRPC5 structure. In addition, decomposition free energy demonstrated that residues TRP434, LEU437, MET438, ALA441, ILE484, ILE487, LEU488, LEU491, LEU515, ILE517, LEU518, LEU521, PHE531, THR607, VAL610, ILE611, VAL615 played the critical role on system stability. 4 Hits, as potential modulators of hTRPC5, may be potential leads to develop effective therapeutics hTRPC5-associated diseases. (c) 2020 Elsevier Inc. All rights reserved.
KeywordhTRPC5 Homology modeling Molecular docking Molecular dynamics simulation Virtual screening INHIBITOR CHANNELS GROMACS POTENT AMBER IDENTIFICATION CONSTRAINTS INTEGRATION AMYGDALA
DOI10.1016/j.jmgm.2020.107795
WOS IDWOS:000594996900002
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Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/72998
Collection中国科学院昆明植物研究所
Affiliation1.Chinese Acad Sci, Kunming Inst Bot, State Key Lab Phytochem & Plant Resources West Ch, Kunming 650201, Yunnan, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
Recommended Citation
GB/T 7714
Liu,Bin,Zhang,Wei,Guo,Sheng,et al. Discovery of novel modulators targeting human TRPC5: Docking-based virtual screening, molecular dynamics simulation and binding af fi nity predication[J]. JOURNAL OF MOLECULAR GRAPHICS & MODELLING,2021,102:107795.
APA Liu,Bin,Zhang,Wei,Guo,Sheng,&Zuo,Zhili.(2021).Discovery of novel modulators targeting human TRPC5: Docking-based virtual screening, molecular dynamics simulation and binding af fi nity predication.JOURNAL OF MOLECULAR GRAPHICS & MODELLING,102,107795.
MLA Liu,Bin,et al."Discovery of novel modulators targeting human TRPC5: Docking-based virtual screening, molecular dynamics simulation and binding af fi nity predication".JOURNAL OF MOLECULAR GRAPHICS & MODELLING 102(2021):107795.
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