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For: Yang T, Zhang W, Cheng J, Nie Y, Xin Q, Yuan S, Dou Y. Formation Mechanism of Ion Channel in Channelrhodopsin-2: Molecular Dynamics Simulation and Steering Molecular Dynamics Simulations. Int J Mol Sci 2019;20:E3780. [PMID: 31382458 DOI: 10.3390/ijms20153780] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2019] [Accepted: 07/30/2019] [Indexed: 01/19/2023]  Open
Number Cited by Other Article(s)
1
Schnee P, Pleiss J, Jeltsch A. Approaching the catalytic mechanism of protein lysine methyltransferases by biochemical and simulation techniques. Crit Rev Biochem Mol Biol 2024;59:20-68. [PMID: 38449437 DOI: 10.1080/10409238.2024.2318547] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Accepted: 02/10/2024] [Indexed: 03/08/2024]
2
Singh NK, Ramamourthy B, Hage N, Kappagantu KM. Optogenetics: Illuminating the Future of Hearing Restoration and Understanding Auditory Perception. Curr Gene Ther 2024;24:208-216. [PMID: 38676313 DOI: 10.2174/0115665232269742231213110937] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 10/07/2023] [Accepted: 10/25/2023] [Indexed: 04/28/2024]
3
Hu YX, Fei JW, Bie LH, Gao J. Simulation of the ligand-leaving process of the human heat shock protein. Phys Chem Chem Phys 2023;25:28465-28472. [PMID: 37846475 DOI: 10.1039/d3cp03372d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2023]
4
Xin Q, Zhang W, Yuan S. The Mechanism of the Channel Opening in Channelrhodopsin-2: A Molecular Dynamics Simulation. Int J Mol Sci 2023;24:ijms24065667. [PMID: 36982741 PMCID: PMC10057421 DOI: 10.3390/ijms24065667] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Revised: 03/02/2023] [Accepted: 03/07/2023] [Indexed: 03/18/2023]  Open
5
Schnee P, Choudalakis M, Weirich S, Khella MS, Carvalho H, Pleiss J, Jeltsch A. Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide. Commun Chem 2022;5:139. [PMID: 36697904 PMCID: PMC9814698 DOI: 10.1038/s42004-022-00753-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Accepted: 10/07/2022] [Indexed: 01/28/2023]  Open
6
Walter M, Schubert L, Heberle J, Schlesinger R, Losi A. Time-resolved photoacoustics of channelrhodopsins: early energetics and light-driven volume changes. Photochem Photobiol Sci 2022;22:477-486. [PMID: 36273368 DOI: 10.1007/s43630-022-00327-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Accepted: 10/14/2022] [Indexed: 11/29/2022]
7
Xin Q, Cheng J, Wang H, Zhang W, Lu H, Zhou J, Lo GV, Dou Y, Yuan S. Modeling the syn-cycle in the light activated opening of the channelrhodopsin-2 ion channel. RSC Adv 2022;12:6515-6524. [PMID: 35424642 PMCID: PMC8981705 DOI: 10.1039/d1ra08521b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2021] [Accepted: 02/14/2022] [Indexed: 11/21/2022]  Open
8
Gautam V, Nimmanpipug P, Zain SM, Rahman NA, Lee VS. Molecular Dynamics Simulations in Designing DARPins as Phosphorylation-Specific Protein Binders of ERK2. Molecules 2021;26:molecules26154540. [PMID: 34361694 PMCID: PMC8347146 DOI: 10.3390/molecules26154540] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Revised: 07/20/2021] [Accepted: 07/23/2021] [Indexed: 11/16/2022]  Open
9
Cheng J, Zhang W, Zhou S, Ran X, Shang Y, Lo GV, Dou Y, Yuan S. The effect on ion channel of different protonation states of E90 in channelrhodopsin-2: a molecular dynamics simulation. RSC Adv 2021;11:14542-14551. [PMID: 35424009 PMCID: PMC8697799 DOI: 10.1039/d1ra01879e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2021] [Accepted: 04/13/2021] [Indexed: 11/21/2022]  Open
10
Molecular Dynamics Simulation of Transmembrane Transport of Chloride Ions in Mutants of Channelrhodopsin. Biomolecules 2019;9:biom9120852. [PMID: 31835536 PMCID: PMC6995576 DOI: 10.3390/biom9120852] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Revised: 12/01/2019] [Accepted: 12/06/2019] [Indexed: 01/12/2023]  Open
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