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Ma Z, Xu J, Wang C, Liu Z, Zhu G. Molecular dynamics simulation study on the binding mechanism between carbon nanotubes and RNA-dependent RNA polymerase. J Biomol Struct Dyn 2024:1-10. [PMID: 38263694 DOI: 10.1080/07391102.2024.2308781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2023] [Accepted: 01/14/2024] [Indexed: 01/25/2024]
Abstract
Carbon nanotubes (CNTs) have potential prospects in disease treatment, so it is of great significance to study CNTs as the possible inhibitors of RNA-dependent RNA polymerase (RdRp). Through the way of using the RdRp of SARS-COV-2 as a model, five armchair single-walled carbon nanotubes (SWCNTs) (namely Dn, which stands for CNTs (n, m = n), n = 3-7) and RdRp have been selected to study the interactions by means of molecular docking and molecular dynamics simulation. After five SWCNT-RdRp complex systems have been subjected to the molecular dynamics simulations of 100 ns, and Molecular Mechanics Poisson - Boltzmann Surface Area (MMPBSA) has been used to calculate the binding free energy, it is found that the binding free energy of the D6 system (-189.541 kJ/mol) is significantly higher than that of the other four systems, and most of the amino acids with strong positive effects on binding are usually basic amino acids. What's more, in the further investigation of the specific interaction mechanism between CNT (6,6) and RdRp, it is revealed that the three amino acid residues LYS545, ARG553 and ARG555 located in the nucleoside triphosphate (NTP) entry channel all have strong effects. In addition, it is also observed that when ARG555 has been inserted into SWCNT, a stable structure will be formed, which will break the original NTP entry channel structure and inhibit virus replication. Therefore, it can be concluded that certain specific types of SWCNT, such as CNT (6,6), could be potential small molecule inhibitors in the treatment of coronavirus.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Zhaopeng Ma
- Anhui Province Key Laboratory of Optoelectronic Materials Science and Technology, School of Physics and Electronic Information, Anhui Normal University, Wuhu, China
| | - Jianqiang Xu
- Anhui Province Key Laboratory of Optoelectronic Materials Science and Technology, School of Physics and Electronic Information, Anhui Normal University, Wuhu, China
| | - Chenchen Wang
- Anhui Province Key Laboratory of Optoelectronic Materials Science and Technology, School of Physics and Electronic Information, Anhui Normal University, Wuhu, China
| | - Zhicong Liu
- Anhui Province Key Laboratory of Optoelectronic Materials Science and Technology, School of Physics and Electronic Information, Anhui Normal University, Wuhu, China
| | - Guanglai Zhu
- Anhui Province Key Laboratory of Optoelectronic Materials Science and Technology, School of Physics and Electronic Information, Anhui Normal University, Wuhu, China
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Hu X, Bao X, Zhang M, Fang S, Liu K, Wang J, Liu R, Kim SH, Baughman RH, Ding J. Recent Advances in Carbon Nanotube-Based Energy Harvesting Technologies. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2023:e2303035. [PMID: 37209369 DOI: 10.1002/adma.202303035] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2023] [Revised: 05/14/2023] [Indexed: 05/22/2023]
Abstract
There has been enormous interest in technologies that generate electricity from ambient energy such as solar, thermal, and mechanical energy, due to their potential for providing sustainable solutions to the energy crisis. One driving force behind the search for new energy-harvesting technologies is the desire to power sensor networks and portable devices without batteries, such as self-powered wearable electronics, human health monitoring systems, and implantable wireless sensors. Various energy harvesting technologies have been demonstrated in recent years. Among them, electrochemical, hydroelectric, triboelectric, piezoelectric, and thermoelectric nanogenerators have been extensively studied because of their special physical properties, ease of application, and sometimes high obtainable efficiency. Multifunctional carbon nanotubes (CNTs) have attracted much interest in energy harvesting because of their exceptionally high gravimetric power outputs and recently obtained high energy conversion efficiencies. Further development of this field, however, still requires an in-depth understanding of harvesting mechanisms and boosting of the electrical outputs for wider applications. Here, various CNT-based energy harvesting technologies are comprehensively reviewed, focusing on working principles, typical examples, and future improvements. The last section discusses the existing challenges and future directions of CNT-based energy harvesters.
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Affiliation(s)
- Xinghao Hu
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
| | - Xianfu Bao
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
| | - Mengmeng Zhang
- Alan G. MacDiarmid NanoTech Institute, University of Texas at Dallas, Richardson, TX, 75080, USA
| | - Shaoli Fang
- Alan G. MacDiarmid NanoTech Institute, University of Texas at Dallas, Richardson, TX, 75080, USA
| | - Kangyu Liu
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
| | - Jian Wang
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
| | - Runmin Liu
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
| | - Shi Hyeong Kim
- Department of Advanced Textile R&D, Korea Institute of Industrial Technology, Ansan-si, Gyeonggi-do, 15588, Republic of Korea
| | - Ray H Baughman
- Alan G. MacDiarmid NanoTech Institute, University of Texas at Dallas, Richardson, TX, 75080, USA
| | - Jianning Ding
- Institute of Intelligent Flexible Mechatronics & School of Mechanical Engineering, Jiangsu University, Zhenjiang, 212013, P. R. China
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