AFM-based identification of the dynamic properties of globular proteins: simulation study
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Nowadays a mathematical model-based computational approach is getting more attention as an effective tool for understanding the mechanical behaviors of biological systems. To find the mechanical properties of the proteins required to build such a model, this paper investigates a real-time identification method based on an AFM nanomanipulation system. First, an AFM-based bio-characterization system is introduced. Second, a second-order time-varying linear model representing the interaction between an AFM cantilever and globular proteins in a solvent is presented. Finally, we address a real-time estimation method in which the results of AFM experiments are designed to be inputs of the state estimator proposed here. Our attention is restricted to a theoretical feasibility analysis of the proposed methodology. We simply set the mechanical properties of the particular protein such as mass, stiffness, and damping coefficient in the system model prior to running the simulation. Simulation results show very good agreement with the preset properties. We anticipate that the realization of the AFM-based bio-characterization system will also provide an experimental validation of the proposed identification procedure in the future. This methodology can be used to determine a model of protein motion for the purpose of computer simulation and for a real-time modification of protein deformation.
KeywordsNanomechanics AFM cantilever Proteins Dynamic parameters System identification
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- D. H. Kim, P. K. Wong, J. Y. Park, A. Levchenko and Y. Sun, Microengineered Platforms for Cell Mechanobiology, Annual Review of Biomedical Engineering, to appear, 2009.Google Scholar
- B. Alakent, M. C. Camurdan and P. Doruker, Hierarchical structure of the energy landscape of proteins revisited by time series analysis. I. Mimicking protein dynamics in different time scales, The Journal of Chemical Physics. 123 (2005) 144910.Google Scholar
- D. H. Kim, B. Kim and J. O. Park, Implementation of a piezoresistive MEMS cantilever for nanoscale force measurements in micro/nano robotic applications, KSME International Journal. 18 (2004) 789–797.Google Scholar
- J. Y. Park, D. H. Kim, T. S. Kim, B. Kim and K. I. Lee, Design and Performance Evaluation of a 3-DOF Mobile Microrobot for Micro Manipulation, KSME International Journal, 17(9) (2003) 1268–1275.Google Scholar
- L. D. Landau and E. M. Lifshitz, Fluid Mechanics, Pergamon, New York, 1959.Google Scholar
- L. Ljung, System Identification: Theory for the User, 2nd Edition, Prentice Hall PTR, 1999.Google Scholar
- J. Howard, Mechanics of Motor Proteins and the Cytoskeleton, Sinauer Associates, Sunderland, MA. 2001.Google Scholar