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      Force generation by titin folding : Titin Force Generation

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          Abstract

          <p id="d9225275e241">Titin is a giant protein that provides elasticity to muscle. As the sarcomere is stretched, titin extends hierarchically according to the mechanics of its segments. Whether titin's globular domains unfold during this process and how such unfolded domains might contribute to muscle contractility are strongly debated. To explore the force‐dependent folding mechanisms, here we manipulated skeletal‐muscle titin molecules with high‐resolution optical tweezers. In force‐clamp mode, after quenching the force (&lt;10 pN), extension fluctuated without resolvable discrete events. In position‐clamp experiments, the time‐dependent force trace contained rapid fluctuations and a gradual increase of average force, indicating that titin can develop force <i>via</i> dynamic transitions between its structural states <i>en route</i> to the native conformation. In 4 M urea, which destabilizes H‐bonds hence the consolidated native domain structure, the net force increase disappeared but the fluctuations persisted. Thus, whereas net force generation is caused by the ensemble folding of the elastically‐coupled domains, force fluctuations arise due to a dynamic equilibrium between unfolded and molten‐globule states. Monte–Carlo simulations incorporating a compact molten‐globule intermediate in the folding landscape recovered all features of our nanomechanics results. The ensemble molten‐globule dynamics delivers significant added contractility that may assist sarcomere mechanics, and it may reduce the dissipative energy loss associated with titin unfolding/refolding during muscle contraction/relaxation cycles. </p>

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          Most cited references51

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          VMD: Visual molecular dynamics

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            Comparison of simple potential functions for simulating liquid water

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              Scalable molecular dynamics with NAMD.

              NAMD is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. NAMD scales to hundreds of processors on high-end parallel platforms, as well as tens of processors on low-cost commodity clusters, and also runs on individual desktop and laptop computers. NAMD works with AMBER and CHARMM potential functions, parameters, and file formats. This article, directed to novices as well as experts, first introduces concepts and methods used in the NAMD program, describing the classical molecular dynamics force field, equations of motion, and integration methods along with the efficient electrostatics evaluation algorithms employed and temperature and pressure controls used. Features for steering the simulation across barriers and for calculating both alchemical and conformational free energy differences are presented. The motivations for and a roadmap to the internal design of NAMD, implemented in C++ and based on Charm++ parallel objects, are outlined. The factors affecting the serial and parallel performance of a simulation are discussed. Finally, typical NAMD use is illustrated with representative applications to a small, a medium, and a large biomolecular system, highlighting particular features of NAMD, for example, the Tcl scripting language. The article also provides a list of the key features of NAMD and discusses the benefits of combining NAMD with the molecular graphics/sequence analysis software VMD and the grid computing/collaboratory software BioCoRE. NAMD is distributed free of charge with source code at www.ks.uiuc.edu. (c) 2005 Wiley Periodicals, Inc.
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                Author and article information

                Contributors
                (View ORCID Profile)
                Journal
                Protein Science
                Protein Science
                Wiley
                09618368
                July 2017
                July 2017
                March 01 2017
                : 26
                : 7
                : 1380-1390
                Affiliations
                [1 ]Department of Biophysics and Radiation Biology; Semmelweis University; Budapest H1094 Hungary
                [2 ]Physiolab; Department of Biology, University of Florence; 50019 Sesto Fiorentino FI Italy
                [3 ]MTA-SE Molecular Biophysics Research Group, Semmelweis University; Budapest H1094 Hungary
                Article
                10.1002/pro.3117
                5477535
                28097712
                5750df60-1094-48cf-aee0-4e44a0e21a09
                © 2017

                http://doi.wiley.com/10.1002/tdm_license_1.1

                http://onlinelibrary.wiley.com/termsAndConditions#vor

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