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Exploring binding mechanisms of VEGFR2 with three drugs lenvatinib, sorafenib, and sunitinib by molecular dynamics simulation and free energy calculation.

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成果类型:
期刊论文
作者:
Wang, Yu;Peng, Cheng;Wang, Guimin;Xu, Zhijian;Luo, Yongfeng*;...
通讯作者:
Luo, Yongfeng;Wang, Jinan
作者机构:
[Wang, Yu; Luo, Yongfeng] Cent South Univ Forestry & Technol, Coll Sci, Hunan Prov Key Lab Mat Surface & Interface Sci &, Changsha, Hunan, Peoples R China.
[Wang, Yu; Peng, Cheng; Zhu, Weiliang; Wang, Jinan; Wang, Guimin; Xu, Zhijian] Chinese Acad Sci, CAS Key Lab Receptor Res, Drug Discovery & Design Ctr, Shanghai Inst Mat Med, Shanghai, Peoples R China.
[Wang, Jinan] Univ Kansas, Ctr Computat Biol, Lawrence, KS 66045 USA.
[Wang, Jinan] Univ Kansas, Dept Mol Biosci, Lawrence, KS 66045 USA.
通讯机构:
[Luo, Yongfeng; Wang, Jinan] C
Cent South Univ Forestry & Technol, Coll Sci, Hunan Prov Key Lab Mat Surface & Interface Sci &, Changsha, Hunan, Peoples R China.
Chinese Acad Sci, CAS Key Lab Receptor Res, Drug Discovery & Design Ctr, Shanghai Inst Mat Med, Shanghai, Peoples R China.
语种:
英文
关键词:
MM/GBSA;VEGFR2-drugs interaction;hydrophobic contact scanning;molecular dynamics simulation
期刊:
CHEMICAL BIOLOGY & DRUG DESIGN
ISSN:
1747-0277
年:
2019
卷:
93
期:
5
页码:
934-948
基金类别:
National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [81573350, 21403283]; Special Program for Applied Research on Super Computation of the NSFC-Guangdong Joint Fund [U1501501]; National Key Research and Development Program of China [2017YFB0202600, 2016YFA0502301]
机构署名:
本校为第一且通讯机构
院系归属:
理学院
摘要:
Lenvatinib (LEN), sorafenib (SOR), and sunitinib (SUN) are drugs targeting vascular endothelial growth factor receptor 2 (VEGFR2). Despite sharing similar chemical structures and bioactivities, LEN and SOR bind to different functional states of VEGFR2, viz. DFG-in and DFG-out state, respectively. SUN binds to the DFG-out state of VEGFR2 just like SOR but with less potency. Thus, detail binding mechanisms between VEGFR2 and these drugs, especially dynamic interaction, are valuable for future drug design. In the present work, molecular dynamics simulation, essential dynamic analysis, and molecul...

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