Iranian Journal of Mechanical Engineering Transactions of ISME

Iranian Journal of Mechanical Engineering Transactions of ISME

Studying the Arm's Flexibility of Each Chain of Small Heat Shock Protein as a Nano Actuator

Abstract
In this paper, the behavior of small heat shock protein in the effect of temperature changes is studied based on molecular dynamics (MD) simulation. Conformational changes of one and two chains are investigated at constant temperature (310 K) which is defined as normal condition and variable temperatures. Simulation results indicate that by reducing the ambient temperature, one chain of small heat shock protein is able to capture a nanocargo by changing the configuration of the arm. So the arm of each chain is very flexible. However, when two chains are considered, the behaviors of the arms due to an external force are not similar. When an arm is shrunk, the other one is spread. This opposite behavior can be seen in the displacement of central cavity. So the arm is appropriate place to carrying a nano cargo and temperature can be introduced as a control variable for tuning the displacement of arm.
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[[1]]
A Report by the Interagency Working Group on Nano Science, "National Nanotechnology Initiative: Leading to the Next Industrial Revolution", pp. 15-19, Engineering and Technology Committee on Technology, National Science and Technology Council, Washington, D.C, (2000).
 
[2]
Kharwade, M., Nijhawan, M., and Modani, S., "Nano Robots: A Future Medical Device in Diagnosis and Treatment", Research Journal of Pharmaceutical, Biological and Chemical Sciences, Vol. 4, No. 4,  pp. 1299-1307, (2013).
 
[3]
Sujatha, V., Suresh, M., and Mahalaxmi, S., "Nanorobotics - a Futuristic Approach", Indian Journal of Dentistry, Vol. 1, No. 1, pp. 86-90, (2010).
 
[4]
Drexler, E.K., "Engines of Creation 2.0: The Coming Era of Nanotechnology", 20th Anniversary ed., Oxford University Press, Oxford, (2006).
 
[5]
Freitas, R.J., "Nano Medicine, Volume I: Basic Capabilities", Landes Bioscience, Georgetown, Texas, pp. 1-13, (1999).
 
[6]
Freitas, R.J., "Nano Medicine, Volume IIA : Biocompatibility", Landes Bioscience", Georetown, Texas, pp. 74-78, (2003).
 
[7]
Freitas, R.J., "Exploratory Design in Medical Nanotechnology: A Mechanical Artificial Red Cell", Artificial Cells, Blood Substitutes, and Immobilization Biotechnology, Vol. 26, No. 5,  pp. 411-430, (1998).
 
[8]
Freitas, R.J., "Microbivores: Artificial Mechanical Phagocytes using Digest and Discharge Protocol", Journal of Evolution and Technology, Vol. 14, No. 4, pp. 1-52, (2005).
 
[9]
Freitas, R.J., "Clottocytes: Artificial Mechanical Platelets", Accessed on 11 November (2015); http:// www.imm.org/publications /reports /rep018/.
 
[10]
Hamdi, M., and Ferreira, A., "Design, Modeling and Characterization of Bio-nanorobotic Systems", Springer Dordrecht Heidelberg London New York, pp. 1-36, (2011).
 
[11]
Richardson, R.T., Alekseev, O.M., and Grossman, G., "Nuclear Autoantigenic Sperm Protein (NASP), a Linker Histone Chaperone that is Required for Cell Proliferation", Journal of Biological Chemistry,  Vol. 281, No. 30, pp. 21526–21534, (2006).
 
[12]
Alekseev, O.M., Richardson, R.T., Alekseev,O., and O'Rand, M.G., "Analysis of Gene Expression Profiles in HeLa Cells in Response to Overexpression or SiRNA-mediated Depletion of NASP", Reproductive Biology and Endocrinology, Vol. 16, No. 7, pp. 45, (2009).
 
[13]
Pauwels, K., "Chaperoning Anfinsen: The Steric Foldases", Molecular Microbiology, Vol. 64, No. 4, pp. 917-922, (2007).
[14]
Ellis, R.J., and Van der Vies, S.M., "Molecular Chaperones", Annual Review of Biochemistry, Vol. 60, No. 11,  pp. 321–347, (1991).
 
[15]
Van Montfort, R., Slingsby, C., and Vierling, E., "Crystal Structure and Assembly of a Eukaryotic Small Heat Shock Protein", Nature Structural Biology, Vol. 59, No. 12, pp. 105–156, (2001).
 
[16]
Jakob, U., Gaestel, M., Engel, K., and Buchner, J., "Small Heat Shock Proteins are Molecular Chaperones", Journal of Biological Chemistry, Vol. 268, No. 3,  pp. 1517–1520, (1993).
 
[17]
Horwitz, J., "Alpha-crystallin Can Function as a Molecular Chaperone", Proceedings of the National Academy of Sciences, Vol. 89, No. 21, pp. 10449–10453, (1992). 
 
[18]
Fan, Q., Huang, L. Z., Zhu, X. J., Zhang, K. K., Ye, H. F., Luo, Y., Sun, X. H., Zhou, P., and Lu, Y., "Identification of Proteins that Interact with Alpha A-crystallin using a Human Proteome Microarray", Molecular Vision, Vol. 20, No. 9,  pp. 117–124, (2014).
 
[19]
Ghaffari, A., Shokuhfar, A., and Hasanzadeh Ghasemi, R., "Capturing and Releasing a Nano Cargo by Prefoldin Nano Actuator", Sensors and Actuators, B: Chemical, Vol. 171-172, No. 1, pp. 1199-1206, (2012).
 
[20]
Ghaffari, A., Shokuhfar, A., and Hasanzadeh Ghasemi, R., "Design and Simulation of a Novel Bio Nano Actuator by Prefoldin", 10th IEEE Conference on Nanotechnology, pp. 885-888, (2010).
 
[21]
Ghaffari, A., Shokuhfar, A., and Hasanzadeh Ghasemi, R., "Prefoldin: A Nano Actuator for Carrying the Various Size Nano Drugs", Journal of Computational and Theoretical Nanoscience , Vol. 8, No. 10, pp. 2078-2086, (2011).
 
[22]
Narberhaus, F., "Crystallin-type Heat Shock Proteins: Socializing Minichaperones in the Context of a Multichaperone Network", Microbiology and Molecular Biology Reviews, Vol. 66, No. 1, pp. 64–93, (2002).
 
[23]
Kennaway, Ch. K., Benesch, J. L. P., Gohlke, U., Wang, L., Robinson, C.V., Orlova, E.V., Saibi, H.R., and Keep, N. H., "Dodecameric Structure of the Small Heat Shock Protein Acr1 from Mycobacterium Tuberculosis", The Journal of Biological Chemistry, Vol. 280, No. 39, pp. 33419–33425, (2005).
 
[24]
Jalili, S., "Computer Simulation (Monte Carlo and Molecular Dynamics)", Tehran: Khajeh Nasir, (2007). (in Persian)
 
[25]
Foloppe, N., and MacKerell, A.D., "All-atom Empirical Force Field for Nucleic Acids: I. Parameter Optimization Based on Small Molecule and Condensed Phase Macromolecular Target Data", Journal of Computational Chemistry. Vol. 21, No. 2,  pp.  86–104, (2000).
 
[26]
Kumar, Ch.V., Kumar, K.M., Swetha, R., and Ramaiah, S., "Protein Aggregation Due to nsSNP Resulting in P56S VABP Protein is Associated with Amyotrophic Lateral Sclerosis", Journal of Theoretical Biology, Vol. 354, No. 8, pp. 72-80, (2014).
 
 
 
 
 
Volume 19, Issue 1 - Serial Number 46
System Dyanamics and Solid Mechanics
Spring 2016
Pages 19-33

  • Receive Date 02 January 2016
  • Revise Date 24 March 2017
  • Accept Date 24 March 2017