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He X, Man VH, Gao J, Wang J. Investigation of the Structure of Full-Length Tau Proteins with Coarse-Grained and All-Atom Molecular Dynamics Simulations. ACS Chem Neurosci 2023;14:209-217. [PMID: 36563129 PMCID: PMC10236889 DOI: 10.1021/acschemneuro.2c00381] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]  Open
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Multiple dimerizing motifs at different locations modulate the dimerization of the syndecan transmembrane domains. J Mol Graph Model 2021;106:107938. [PMID: 34020229 DOI: 10.1016/j.jmgm.2021.107938] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 04/24/2021] [Accepted: 04/26/2021] [Indexed: 01/12/2023]
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Marchetto A, Si Chaib Z, Rossi CA, Ribeiro R, Pantano S, Rossetti G, Giorgetti A. CGMD Platform: Integrated Web Servers for the Preparation, Running, and Analysis of Coarse-Grained Molecular Dynamics Simulations. Molecules 2020;25:E5934. [PMID: 33333836 PMCID: PMC7765266 DOI: 10.3390/molecules25245934] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Revised: 11/21/2020] [Accepted: 11/28/2020] [Indexed: 12/17/2022]  Open
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Boscia AL, Treece BW, Mohammadyani D, Klein-Seetharaman J, Braun AR, Wassenaar TA, Klösgen B, Tristram-Nagle S. X-ray structure, thermodynamics, elastic properties and MD simulations of cardiolipin/dimyristoylphosphatidylcholine mixed membranes. Chem Phys Lipids 2014;178:1-10. [PMID: 24378240 PMCID: PMC4026202 DOI: 10.1016/j.chemphyslip.2013.12.010] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2013] [Revised: 12/18/2013] [Accepted: 12/20/2013] [Indexed: 12/13/2022]
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Esadze A, Iwahara J. Stopped-flow fluorescence kinetic study of protein sliding and intersegment transfer in the target DNA search process. J Mol Biol 2013;426:230-44. [PMID: 24076422 DOI: 10.1016/j.jmb.2013.09.019] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2013] [Revised: 09/17/2013] [Accepted: 09/18/2013] [Indexed: 01/25/2023]
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