首页 | 本学科首页   官方微博 | 高级检索  
     检索      


Stretching and relaxation dynamics in double stranded DNA
Institution:1. Fachbereich Physik, Institut für Theoretische Physik, Freie Universität Berlin, Arnimallee 14, 14195 Berlin, Germany;2. Departamento de Física Aplicada I, Group of Nonlinear Physics, ETSI Informática, University of Sevilla, Avda Reina Mercedes, s/n. 41012-Sevilla, Spain;1. School of Medicine, Campus USP, Ribeirão Preto, SP 14049-900, Brazil;2. Neuroscience Center - HILife, University of Helsinki, Finland;3. Department of Physics and Chemistry, School of Pharmaceutical Sciences of Ribeirão Preto, Campus USP, Ribeirão Preto, SP 14040-904, Brazil;4. Translational Neuropsychiatry Unit, Department of Clinical Medicine, Aarhus University, Denmark;1. Institute of Molecular Biology, Bulgarian Academy of Sciences, Acad. G. Bonchev Str. Bl.21, 1113 Sofia, Bulgaria;2. Max Planck Institute for Molecular Cell Biology and Genetics, 108 Pfotenhauerstr., 01307 Dresden, Germany;3. Faculty of Mathematics and Informatics, Sofia University, St. Kliment Ohridski, 5 James Bourchier Blvd., 1164 Sofia, Bulgaria;4. Department of Mathematics, University of Pennsylvania, 209 South 33rd Street, Philadelphia, PA 19104, USA;5. Medical Systems Biology, UCC, Medical Faculty Carl Gustav Carus, TU Dresden, Fetscherstr. 74, 01307 Dresden, Germany;1. Institute of Chemical Sciences and Engineering (ISIC), Swiss Federal Institute of Technology (EPFL), Lausanne, Switzerland;2. Department of Chemistry, University of Missouri, Columbia, MO, USA;3. SwissLumix SARL, Lausanne, Switzerland;4. The Ludwig Institute for Cancer Research, University of Lausanne, Lausanne, Switzerland;5. Nestlé Institute of Health Sciences, Nestlé Research Ltd., Lausanne, Switzerland;1. Department of Mathematics, University of Okara, Pakistan;2. Department of Mathematics, Saint Xavier University, Chicago, IL 60655, USA;3. Mathematics Department, Faculty of Science, King Abdulaziz University, Jeddah 21521, Saudi Arabia;4. Department of Mathematics, Faculty of Science, Cairo University, Giza 12613, Egypt
Abstract:We study numerically the mechanical stability and elasticity properties of duplex DNA molecules within the frame of a network model incorporating microscopic degrees of freedom related with the arrangement of the base pairs. We pay special attention to the opening–closing dynamics of double-stranded DNA molecules which are forced into non-equilibrium conformations. Mechanical stress imposed at one terminal end of the DNA molecule brings it into a partially opened configuration. We examine the subsequent relaxation dynamics connected with energy exchange processes between the various degrees of freedom and structural rearrangements leading to complete recombination to the double-stranded conformation. The similarities and differences between the relaxation dynamics for a planar ladder-like DNA molecule and a twisted one are discussed in detail. In this way we show that the attainment of a quasi-equilibrium regime proceeds faster in the case of the twisted DNA form than for its thus less flexible ladder counterpart. Furthermore we find that the velocity of the complete recombination of the DNA molecule is lower than the velocity imposed by the forcing unit which is in compliance with the experimental observations for the opening–closing cycle of DNA molecules.
Keywords:
本文献已被 ScienceDirect 等数据库收录!
设为首页 | 免责声明 | 关于勤云 | 加入收藏

Copyright©北京勤云科技发展有限公司  京ICP备09084417号